error reading in OME-TIFF

[emmanuel-contreras]

Hello, I recently upgraded to the latest version and noticed that I was no longer able to load our OME-TIFF images, getting the error below. I downgraded to 2020.10.01 (using conda) and the error disappeared. Not sure if this is a problem with our images or an update on the module.

Do you know why I may be getting this error on the latest version?

IPdb [3]: im = tifffile.imread(path_image)
OME series: failed to read 'H9_mitotracker-060_Cycle00001_Ch3_000001.ome.tif'
OME series: expected 2 frames, got 1
*** ValueError: failed to read 4194304 bytes

Thank you

[cgohlke]

Can you share the file?

[emmanuel-contreras]

Sure, here it is. I had to change the extension from ".tif" to ".png" otherwise github wouldn't let me upload it. Thank you for taking a look at it, please let me know if you need more info.

[cgohlke]

The file is part of a series of files. Can you share the whole series, especially the MetadataFile H9_mitotracker-060_Cycle00001_Ch1_000001.ome.tif?

[emmanuel-contreras]

Sure, here it is

[cgohlke]

I can reproduce this issue. It happens when the second file 'H9_mitotracker-060_Cycle00001_Ch3_000001.ome.tif' is not present. This case is actually tested, but the test case was not well chosen...

[emmanuel-contreras]

ahh ok, sounds good. It also sounds like I've been loading the series files incorrectly... I usually just load one of the files, I see a brief error but it still loads the individual image correctly. Thanks for the help!

[cgohlke]

Thanks for reporting the issue. Should be fixed in v2021.3.17. Although it might be better to raise an error if files are missing from an OME-TIFF series...