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One big advantage of aicsimageio is the standardization of all image types to a common ndarray with known shape. All images would produce the 5 or 6 (CZI) dimensions. This format is easy to handle in plugins and everything works as expected.
Based on info here: #24 (comment), napari-aicsimageio returns the raw data from the reader rather than the aicsimage which breaks the standardization and thus breaks any plugins that rely on the standardization.
Solution
Have a toggle in napari-aicsimageio to choose to return the raw data or the aicsimage.
for example:
importnapariimportnapari-aicsimageionapari-aicsimageio.return_aicsimage_data=True# Run napari
...
Alternatives
All plugins that want the standard should use the layer.metadata['aicsimage'].
The text was updated successfully, but these errors were encountered:
MosGeo
changed the title
Data Standardization to AICSImage
Data standardization to AICSImage
Aug 21, 2022
Use Case
One big advantage of aicsimageio is the standardization of all image types to a common ndarray with known shape. All images would produce the 5 or 6 (CZI) dimensions. This format is easy to handle in plugins and everything works as expected.
Based on info here: #24 (comment), napari-aicsimageio returns the raw data from the reader rather than the aicsimage which breaks the standardization and thus breaks any plugins that rely on the standardization.
Solution
Have a toggle in napari-aicsimageio to choose to return the raw data or the aicsimage.
for example:
Alternatives
All plugins that want the standard should use the
layer.metadata['aicsimage']
.The text was updated successfully, but these errors were encountered: