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napari / napari-tiff

A napari reader plugin for tiff images.
BSD 3-Clause "New" or "Revised" License
8 stars 4 forks source link

Added Dask/pyramid suport. Split tiff/imagej/ome reader at metadata level instead. #22

Closed folterj closed 5 months ago

folterj commented 6 months ago

WIP, TODO: processing ome metadata

GenevieveBuckley commented 6 months ago

Could this be a possible failure case? https://forum.image.sc/t/tifffile-opening-individual-ome-tiff-files-as-single-huge-array-even-when-isolated/77701

@jni do you happen to remember or have a link to those files, so we can check?

jni commented 6 months ago

Could this be a possible failure case? forum.image.sc/t/tifffile-opening-individual-ome-tiff-files-as-single-huge-array-even-when-isolated/77701

Yes it could.

@jni do you happen to remember or have a link to those files, so we can check?

Here's the data, for manual testing, not broad distribution:

https://www.dropbox.com/scl/fo/rqopeqntdsgzep4r10qbs/h?rlkey=k931yg05j4sbnqlh60z343k74&dl=0

jni commented 6 months ago

Having said this, since @folterj is using dask/zarr and not imread, it probably would work but would return empty slices where the data is missing. And that is arguably the correct behaviour here.

GenevieveBuckley commented 5 months ago

Superseded by https://github.com/napari/napari-tiff/pull/24