CODEWITHSUNDEEP
pythondasktiffzarr
Hugh Warden
Hugh Warden

Reputation: 446

Can't use dask to open tiff read with tifffile

I have a TIFF image that I would like to open and process using dask. This is the code that I am currently using

import dask.array as da
from tifffile import imread
import zarr

img_path = '/path/to/tiff.ndpi'
img = imread(img_path, aszarr=True)
img = zarr.open(img)
img = da.from_zarr(img[0])
img_means = da.mean(img, axis=(0, 1)).compute()

I am trying to access the lowest resolution image from the TIFF. When I run this I get an error stating

TypeError: cannot pickle '_thread.RLock' object

and then another error stating

TypeError: ('Could not serialize object of type HighLevelGraph', ...

How can I open a tiff image using imread from tiffile and directly use it as a dask array?

Upvotes: 0

Views: 100

Answers (0)

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