TypeError: imread() got unexpected keyword arguments 'multifile'

[HypnosWei]

When I use the Training.ipynb, this part seems to go something wrong

''' tar_em, sim_frames, bg_frames = simulator.sample() sim_frames = sim_frames.cpu()

frame_path = zip_folder # change if you load your own data data_frames = decode.utils.frames_io.load_tif(frame_path).cpu()

print(f'Data shapes, simulation: {sim_frames.shape}, real data: {data_frames.shape}') print(f'Average value, simulation: {sim_frames.mean().round()}, real data: {data_frames.mean().round()}') '''

when I run this cell, it appeals to this TypeError: imread() got unexpected keyword arguments 'multifile' so I find the document of tifffile, I find it said 'Remove deprecated multifile parameters from TiffFile (breaking).'

and because my files are 2D images, I hope there is a tutorial on 2D images super-resolution to see how to train a 2D image model. Thank!

[JohannaRahm]

I get the same error, which seems to be related to the tifffile version. The error is caused with version 2022.8.12, but no error appears with version 2022.4.8.

A quick fix is to create an environment with set tifffile version conda create -n decode_env2 -c turagalab -c pytorch -c conda-forge decode=0.10.0 cudatoolkit=11.0 tifffile=2022.4.8 jupyterlab ipykernel

Perhaps the package version could be restricted in the environment.yaml file?

[HypnosWei]

I get the same error, which seems to be related to the tifffile version. The error is caused with version 2022.8.12, but no error appears with version 2022.4.8.

A quick fix is to create an environment with set tifffile version conda create -n decode_env2 -c turagalab -c pytorch -c conda-forge decode=0.10.0 cudatoolkit=11.0 tifffile=2022.4.8 jupyterlab ipykernel

Perhaps the package version could be restricted in the environment.yaml file?

Thank you! it works, by the way, did you ever try the 2D images super-resolution on decode?

[Haydnspass]

@HypnosWei @JohannaRahm Sorry for the slow response, I overlooked this issue. Yes, indeed the tifffile version can be fixed. However there is some trouble with this package, but your command works. I will take a look and possibly pin it in the release.

[Haydnspass]

fixed by release 0.10.1