Code error

[0Bernhard]

Hello

I have tried to use your program with the example data. Unfortunatly it throws up an error. Both in windows and linux (linux error is attached). Could you please have a look

thank you

[csachs]

Thank you for your interest in mycelyso; this bug is due to mycelyso expecting an older version of tifffile. I plan to release new mycelyso packages working with the current version soon.
Meanwhile you can use mycelyso by downgrading tifffile to a mycelyso-compatible older version:

conda install -y tifffile=0.15.1

[0Bernhard]

Hello thank you for the quick response - that seems to solve the issue running it. however for some reason no H5 file gets written. Also not if i specify the output file. Thank you

[csachs]

Are a lot of errors scrolling by? I'm sorry, I have forgotten that more dependencies got updated in a backward incompatible manner. I'll address this with the new packages soon …

The github version of mycelyso actually has all those problems fixed. Therefore, I'd say, update tifffile again, install new dependency czifile and install the github version (all done by those three commands):

conda install -y tifffile czifile pip
pip uninstall -y mycelyso
pip install --no-deps https://github.com/modsim/mycelyso/archive/master.zip

[csachs]

@0Bernhard did this fix your problem? I'll close this issue once new packages are out.