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test_storage_read.py
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test_storage_read.py
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from affine import Affine
import numpy as np
from datacube.storage._read import (
can_paste,
read_time_slice,
read_time_slice_v2,
pick_read_scale,
rdr_geobox)
from datacube.testutils.io import RasterFileDataSource
from datacube.utils.geometry import (
compute_reproject_roi,
GeoBox,
roi_shape,
roi_is_empty,
)
from datacube.utils.geometry import gbox as gbx
from datacube.testutils.io import (
rio_slurp
)
from datacube.testutils.geom import (
epsg3857,
AlbersGS,
)
def test_pick_read_scale():
assert pick_read_scale(0.7) == 1
assert pick_read_scale(1.3) == 1
assert pick_read_scale(2.3) == 2
assert pick_read_scale(1.99999) == 2
def test_can_paste():
src = AlbersGS.tile_geobox((17, -40))
def check_true(dst, **kwargs):
ok, reason = can_paste(compute_reproject_roi(src, dst), **kwargs)
if not ok:
assert ok is True, reason
def check_false(dst, **kwargs):
ok, reason = can_paste(compute_reproject_roi(src, dst), **kwargs)
if ok:
assert ok is False, "Expected can_paste to return False, but got True"
check_true(gbx.pad(src, 100))
check_true(src[:10, :10])
check_true(gbx.translate_pix(src, 0.1, 0.3), ttol=0.5)
check_true(gbx.translate_pix(src, 3, -4))
check_true(gbx.flipx(src))
check_true(gbx.flipy(src))
check_true(gbx.flipx(gbx.flipy(src)))
check_true(gbx.zoom_out(src, 2))
check_true(gbx.zoom_out(src, 4))
check_true(gbx.zoom_out(src[:9, :9], 3))
# Check False code paths
dst = GeoBox.from_geopolygon(src.extent.to_crs(epsg3857).buffer(10),
resolution=src.resolution)
check_false(dst) # non ST
check_false(gbx.zoom_out(src, 1.9)) # non integer scale
check_false(gbx.affine_transform_pix(src, Affine.scale(1, 2))) # sx != sy
dst = gbx.translate_pix(src, -1, -1)
dst = gbx.zoom_out(dst, 2)
check_false(dst) # src_roi doesn't align for scale
check_false(dst, stol=0.7) # src_roi/scale != dst_roi
check_false(gbx.translate_pix(src, 0.3, 0.4)) # sub-pixel translation
def test_read_paste(tmpdir):
from datacube.testutils import mk_test_image
from datacube.testutils.io import write_gtiff
from pathlib import Path
pp = Path(str(tmpdir))
xx = mk_test_image(128, 64, nodata=None)
assert (xx != -999).all()
mm = write_gtiff(pp/'tst-read-paste-128x64-int16.tif', xx, nodata=None)
def _read(gbox, resampling='nearest',
fallback_nodata=-999,
dst_nodata=-999,
check_paste=False):
with RasterFileDataSource(mm.path, 1, nodata=fallback_nodata).open() as rdr:
if check_paste:
# check that we are using paste
paste_ok, reason = can_paste(compute_reproject_roi(rdr_geobox(rdr), gbox))
assert paste_ok is True, reason
yy = np.full(gbox.shape, dst_nodata, dtype=rdr.dtype)
roi = read_time_slice(rdr, yy, gbox, resampling, dst_nodata)
return yy, roi
# read native whole
yy, roi = _read(mm.gbox)
np.testing.assert_array_equal(xx, yy)
assert roi == np.s_[0:64, 0:128]
# read native whole, no nodata case
yy, roi = _read(mm.gbox, fallback_nodata=None)
np.testing.assert_array_equal(xx, yy)
assert roi == np.s_[0:64, 0:128]
# read native whole, ignoring small sub-pixel translation
yy, roi = _read(gbx.translate_pix(mm.gbox, 0.3, -0.4), fallback_nodata=-33)
np.testing.assert_array_equal(xx, yy)
assert roi == np.s_[0:64, 0:128]
# no overlap between src and dst
yy, roi = _read(gbx.translate_pix(mm.gbox, 10000, -10000))
assert roi_is_empty(roi)
# read with Y flipped
yy, roi = _read(gbx.flipy(mm.gbox))
np.testing.assert_array_equal(xx[::-1, :], yy)
assert roi == np.s_[0:64, 0:128]
# read with X flipped
yy, roi = _read(gbx.flipx(mm.gbox))
np.testing.assert_array_equal(xx[:, ::-1], yy)
assert roi == np.s_[0:64, 0:128]
# read with X and Y flipped
yy, roi = _read(gbx.flipy(gbx.flipx(mm.gbox)))
assert roi == np.s_[0:64, 0:128]
np.testing.assert_array_equal(xx[::-1, ::-1], yy[roi])
# dst is fully inside src
sroi = np.s_[10:19, 31:47]
yy, roi = _read(mm.gbox[sroi])
np.testing.assert_array_equal(xx[sroi], yy[roi])
# partial overlap
yy, roi = _read(gbx.translate_pix(mm.gbox, -3, -10))
assert roi == np.s_[10:64, 3:128]
np.testing.assert_array_equal(xx[:-10, :-3], yy[roi])
assert (yy[:10, :] == -999).all()
assert (yy[:, :3] == -999).all()
# scaling paste
yy, roi = _read(gbx.zoom_out(mm.gbox, 2), check_paste=True)
assert roi == np.s_[0:32, 0:64]
np.testing.assert_array_equal(xx[1::2, 1::2], yy)
def test_read_with_reproject(tmpdir):
from datacube.testutils import mk_test_image
from datacube.testutils.io import write_gtiff
from pathlib import Path
pp = Path(str(tmpdir))
xx = mk_test_image(128, 64, nodata=None)
assert (xx != -999).all()
tile = AlbersGS.tile_geobox((17, -40))[:64, :128]
mm = write_gtiff(pp/'tst-read-with-reproject-128x64-int16.tif', xx,
crs=str(tile.crs),
resolution=tile.resolution[::-1],
offset=tile.transform*(0, 0),
nodata=-999)
assert mm.gbox == tile
def _read(gbox,
resampling='nearest',
fallback_nodata=None,
dst_nodata=-999):
with RasterFileDataSource(mm.path, 1, nodata=fallback_nodata).open() as rdr:
yy = np.full(gbox.shape, dst_nodata, dtype=rdr.dtype)
roi = read_time_slice(rdr, yy, gbox, resampling, dst_nodata)
return yy, roi
gbox = gbx.pad(mm.gbox, 10)
gbox = gbx.zoom_out(gbox, 0.873)
yy, roi = _read(gbox)
assert roi[0].start > 0 and roi[1].start > 0
assert (yy[0] == -999).all()
yy_expect, _ = rio_slurp(mm.path, gbox)
np.testing.assert_array_equal(yy, yy_expect)
gbox = gbx.zoom_out(mm.gbox[3:-3, 10:-10], 2.1)
yy, roi = _read(gbox)
assert roi_shape(roi) == gbox.shape
assert not (yy == -999).any()
gbox = GeoBox.from_geopolygon(mm.gbox.extent.to_crs(epsg3857).buffer(50),
resolution=mm.gbox.resolution)
assert gbox.extent.contains(mm.gbox.extent.to_crs(epsg3857))
assert gbox.crs != mm.gbox.crs
yy, roi = _read(gbox)
assert roi[0].start > 0 and roi[1].start > 0
assert (yy[0] == -999).all()
gbox = gbx.zoom_out(gbox, 4)
yy, roi = _read(gbox, resampling='average')
nvalid = (yy != -999).sum()
nempty = (yy == -999).sum()
assert nvalid > nempty
def test_read_paste_v2(tmpdir):
from datacube.testutils import mk_test_image
from datacube.testutils.io import write_gtiff
from datacube.testutils.iodriver import open_reader
from pathlib import Path
pp = Path(str(tmpdir))
xx = mk_test_image(128, 64, nodata=None)
assert (xx != -999).all()
mm = write_gtiff(pp/'tst-read-paste-128x64-int16.tif', xx, nodata=None)
def _read(gbox, resampling='nearest',
fallback_nodata=-999,
dst_nodata=-999,
check_paste=False):
rdr = open_reader(mm.path,
nodata=fallback_nodata)
if check_paste:
# check that we are using paste
paste_ok, reason = can_paste(compute_reproject_roi(rdr_geobox(rdr), gbox))
assert paste_ok is True, reason
yy = np.full(gbox.shape, dst_nodata, dtype=rdr.dtype)
yy_, roi = read_time_slice_v2(rdr, gbox, resampling, dst_nodata)
yy[roi] = yy_
return yy, roi
# read native whole
yy, roi = _read(mm.gbox)
np.testing.assert_array_equal(xx, yy)
assert roi == np.s_[0:64, 0:128]
# read native whole, no nodata case
yy, roi = _read(mm.gbox, fallback_nodata=None)
np.testing.assert_array_equal(xx, yy)
assert roi == np.s_[0:64, 0:128]
# read native whole, ignoring small sub-pixel translation
yy, roi = _read(gbx.translate_pix(mm.gbox, 0.3, -0.4), fallback_nodata=-33)
np.testing.assert_array_equal(xx, yy)
assert roi == np.s_[0:64, 0:128]
# no overlap between src and dst
yy, roi = _read(gbx.translate_pix(mm.gbox, 10000, -10000))
assert roi_is_empty(roi)
# read with Y flipped
yy, roi = _read(gbx.flipy(mm.gbox))
np.testing.assert_array_equal(xx[::-1, :], yy)
assert roi == np.s_[0:64, 0:128]
# read with X flipped
yy, roi = _read(gbx.flipx(mm.gbox))
np.testing.assert_array_equal(xx[:, ::-1], yy)
assert roi == np.s_[0:64, 0:128]
# read with X and Y flipped
yy, roi = _read(gbx.flipy(gbx.flipx(mm.gbox)))
assert roi == np.s_[0:64, 0:128]
np.testing.assert_array_equal(xx[::-1, ::-1], yy[roi])
# dst is fully inside src
sroi = np.s_[10:19, 31:47]
yy, roi = _read(mm.gbox[sroi])
np.testing.assert_array_equal(xx[sroi], yy[roi])
# partial overlap
yy, roi = _read(gbx.translate_pix(mm.gbox, -3, -10))
assert roi == np.s_[10:64, 3:128]
np.testing.assert_array_equal(xx[:-10, :-3], yy[roi])
assert (yy[:10, :] == -999).all()
assert (yy[:, :3] == -999).all()
# scaling paste
yy, roi = _read(gbx.zoom_out(mm.gbox, 2), check_paste=True)
assert roi == np.s_[0:32, 0:64]
np.testing.assert_array_equal(xx[1::2, 1::2], yy)
def test_read_with_reproject_v2(tmpdir):
from datacube.testutils import mk_test_image
from datacube.testutils.io import write_gtiff
from datacube.testutils.iodriver import open_reader
from pathlib import Path
pp = Path(str(tmpdir))
xx = mk_test_image(128, 64, nodata=None)
assert (xx != -999).all()
tile = AlbersGS.tile_geobox((17, -40))[:64, :128]
def _read(gbox, resampling='nearest',
fallback_nodata=-999,
dst_nodata=-999):
rdr = open_reader(mm.path,
nodata=fallback_nodata)
yy = np.full(gbox.shape, dst_nodata, dtype=rdr.dtype)
yy_, roi = read_time_slice_v2(rdr, gbox, resampling, dst_nodata)
yy[roi] = yy_
return yy, roi
mm = write_gtiff(pp/'tst-read-with-reproject-128x64-int16.tif', xx,
crs=str(tile.crs),
resolution=tile.resolution[::-1],
offset=tile.transform*(0, 0),
nodata=-999)
assert mm.gbox == tile
gbox = gbx.pad(mm.gbox, 10)
gbox = gbx.zoom_out(gbox, 0.873)
yy, roi = _read(gbox)
assert roi[0].start > 0 and roi[1].start > 0
assert (yy[0] == -999).all()
yy_expect, _ = rio_slurp(mm.path, gbox)
np.testing.assert_array_equal(yy, yy_expect)
gbox = gbx.zoom_out(mm.gbox[3:-3, 10:-10], 2.1)
yy, roi = _read(gbox)
assert roi_shape(roi) == gbox.shape
assert not (yy == -999).any()
gbox = GeoBox.from_geopolygon(mm.gbox.extent.to_crs(epsg3857).buffer(50),
resolution=mm.gbox.resolution)
assert gbox.extent.contains(mm.gbox.extent.to_crs(epsg3857))
assert gbox.crs != mm.gbox.crs
yy, roi = _read(gbox)
assert roi[0].start > 0 and roi[1].start > 0
assert (yy[0] == -999).all()
gbox = gbx.zoom_out(gbox, 4)
yy, roi = _read(gbox, resampling='average')
nvalid = (yy != -999).sum()
nempty = (yy == -999).sum()
assert nvalid > nempty