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ome_zarr download uses wrong dimension_separator #231

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will-moore opened this issue Oct 19, 2022 · 2 comments · May be fixed by #419
Open

ome_zarr download uses wrong dimension_separator #231

will-moore opened this issue Oct 19, 2022 · 2 comments · May be fixed by #419
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@will-moore
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It seems that ome_zarr download is writing chunks with "dimension_separator": ".", even when downloading v0.4 data:

$ ome_zarr download https://uk1s3.embassy.ebi.ac.uk/idr/zarr/v0.4/idr0138A/TimEmbryos-102219/HybCycle_0/MMStack_Pos0.ome.zarr/ --output MMStack_Pos0.ome.zarr


$ ls -al MMStack_Pos0.ome.zarr/0/
total 250256
drwxr-xr-x  387 wmoore  staff   12384 Oct 19 14:09 .
drwxr-xr-x   10 wmoore  staff     320 Oct 19 14:09 ..
-rw-r--r--    1 wmoore  staff     385 Oct 19 14:09 .zarray
-rw-r--r--    1 wmoore  staff  301361 Oct 19 14:09 0.0.0.0
-rw-r--r--    1 wmoore  staff  313241 Oct 19 14:09 0.0.0.1
-rw-r--r--    1 wmoore  staff  338394 Oct 19 14:09 0.0.0.2
...
@joshmoore
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Uff! That seems like quite the bug.

@joshmoore joshmoore added the bug Something isn't working label Oct 31, 2022
@joshmoore joshmoore mentioned this issue Dec 18, 2024
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@joshmoore
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joshmoore commented Dec 18, 2024 •
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Fixed in #404

@dstansby dstansby linked a pull request Dec 28, 2024 that will close this issue
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Fix dimension separator when downloading files dstansby/ome-zarr-py
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@joshmoore @will-moore