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Add conversion from Zarr array to tensorstore #150

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Add conversion from Zarr array to tensorstore #150

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15 changes: 14 additions & 1 deletion iohub/ngff.py
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Original file line number Diff line number Diff line change
Expand Up @@ -5,6 +5,7 @@
import math
import os
from copy import deepcopy
from pathlib import Path
from typing import TYPE_CHECKING, Generator, Literal, Sequence, Union

import numpy as np
Expand Down Expand Up @@ -340,7 +341,19 @@ def downscale(self):
raise NotImplementedError

def tensorstore(self):
raise NotImplementedError
import tensorstore as ts

assert self.path != "", "Zarr array must be stored on a file system."
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@ziw-liu ziw-liu Jun 21, 2023 •
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In theory an iohub NGFF store is always on a local mounted FS, so this might be redundant.


ts_spec = {
"driver": "zarr",
"kvstore": {
"driver": "file",
"path": str(Path(self.path).resolve()),
},
}

return ts.open(ts_spec, create=False, open=True).result()


class TiledImageArray(ImageArray):
Expand Down