By: emmanuel_faure on March 5, 2025, 6:50 a.m.
Unfortunately, TIFF image files are highly sensitive to the image reader. Have you tried using the reader included in our Docker template?
https://seafile.lirmm.fr/d/233a5a399c8544dfb41a/ (starting at line 93 in the inference.py file)
By: emmanuel_faure on March 6, 2025, 10:12 a.m.
The specifications for the TIFF image files are determined by the library we use to read and write them—specifically, tifffile (https://pypi.org/project/tifffile/).
As specified in our writer (line 118 in https://seafile.lirmm.fr/d/233a5a399c8544dfb41a/files/?p=%2Finference.py), we need to add metadata (Channel, PixelSize, Study) to the image and ensure that the BigTIFF option is set to True.
Have you tried using the tifffile library?
