-
Notifications
You must be signed in to change notification settings - Fork 241
New issue
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
bfconvert: issue after changing tile size in ome.tiff #4176
Comments
@alexeykurbako : if the original OME-TIFF had a pyramid of resolutions, you will need to include the Also note that |
Hey everyone. I'm trying to change tile size of OME-TIFF image using bfconvert using following command:
./bftools3/bfconvert -bigtiff -tilex 4096 -tiley 4096 -option BF_MAX_MEM 64g in.ome.tiff out.ome.tiff
After successful command execution I open out.ome.tiff into AVIVATOR(https://avivator.gehlenborglab.org/?image_url=https://viv-demo.storage.googleapis.com/LuCa-7color_Scan1/) and see black screen(original file opens without issues)
I unsuccessfully tried different tile sizes (from 256 to 8192) and adding -compression LZW
I guess something is wrong with metadata because after extracting OME-XML from both files I found out that MapAnnotation in out.ome.tiff file is missing.
Do you have any ideas why this issue occurs and how I can solve it or what tool I can use as alternative for changing tile size of ome.tiff image
Bfconvert version: 7.2.0
Mac OS: 13.6.1
The text was updated successfully, but these errors were encountered: