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[BUG] waveorder writes ome-zarr data as XY images rather than XYZ chunks #550
Description
In apply_inverse_transger_function.py we have
def get_reconstruction_output_metadata(position_path: Path, config_path: Path):
...
return {
"shape": (T, len(channel_names), output_z_shape, Y, X),
"chunks": (1, 1, 1, Y, X), # <--- chunks set to XY planes
"scale": input_dataset.scale,
"channel_names": channel_names,
"dtype": np.float32,
"plate_metadata": plate_metadata,
"version": input_version,
}Is there a reason we don't use iohub create_empty_plate here?
Activity
ieivanov commentedon Apr 15, 2026
Looks like this has been the case for a while. This creates a fare bit of file pollution on bruno.
talonchandler commentedon Apr 15, 2026
Thanks for flagging. Related to #540.
ieivanov commentedon Apr 15, 2026
Very likely I'll take care of this before Taylla get back, otherwise she can resolve this next week