incorrect voxel dimensions in derivatives/resampled

khanlab / SPIMprep

A Snakemake workflow for pre-processing single plane illumination microscopy (SPIM, aka lightsheet microscopy)

MIT License

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incorrect voxel dimensions in derivatives/resampled #31

Closed akhanf closed 5 months ago

akhanf commented 5 months ago

Looks like the fix in #13 for the ome.zarr broke the resampled derivatives , they are off by 1000

akhanf commented 5 months ago

actually looks like the fix in #13 was buggy since it the physicalsize{xyz} variables are in microns not millimeters

akhanf commented 5 months ago

This is now fixed in #32 -- note it was only affecting json metadata in the main branch -- the error in downsampled niftis was limited to the lifecanvas branch..