Test file conversions with notebook about ometiff-tests HOT 1 OPEN

Hello Marie-Hélène,

About the first part 1) Read OME-TIFF image + metadata, I added the file tubhiswt_C1.ome.tif to the repo; it was indeed in my test folder, so the message should not appear again. I have to say that I was not aware either that those two OMETIFF files were linked...

For the 2) Write OME-TIFF image + metadata part; yes, there should be 10 "timepoints" and 3 "channels". I added in the notebook a cell to read and print the metadata of the random OMETIFF generated. The 'SizeT' and 'SizeC' are respectively '10' and '3' and the XML seems ok as well when I look at the file properties in the Windows Explorer. It looks like Fiji has some problems with OMETIFF from tifffile. I'll search on that and keep you updated.
I also added a comment cell to document the possible values of the parameter compress.

About the alpha channel in 3.1), I think we can just comment the two lines if we don't need them. I tried without them and it seems to work just fine. I added those when I saw it in an issue while testing.
For the repetition of a tile in Fiji, I have no clue. As in 2), it might just be a compatibility problem with the tifffile OMETIFF, same for 3.2.2).

Hope it helps,

Etienne

from ometiff-tests.