David Gault

Hi @Roos2022, we don't yet have a fix for this issue. If you are able to share some of your sample files showing the bug with us that would be...

Hi @burgerga, I will arrange to have to ftp details sent to you. Is there any of the metadata such as dimension sizes or pixel type which look to be...

A new report of this issue has been received in imagesc thread https://forum.image.sc/t/distorted-nd2-files/46340/2 A new sample file reproducing the issue with Bio-Formats 6.5.1 is also available in qa-29765

Reopening this as there is still an ongoing issue in the thread which will require some further investigation: https://forum.image.sc/t/problem-about-opening-some-svs-slides-in-qupath-v0-3-1-bio-formats-6-8-0/61404/26 The file in question is located at https://dbarchive.biosciencedbc.jp/data/open-tggates-pathological-images/LATEST/images/2-nitrofluorene/Kidney/65141.svs

Seems to be failures from the repo tests with the latest commits: https://merge-ci.openmicroscopy.org/jenkins/job/BIOFORMATS-test-folder/lastFailedBuild/console

Apparently we did have some VisiView files in the repo already. I will have to update the configs

Swapped the default behaviour due to large number of repo test failures: https://merge-ci.openmicroscopy.org/jenkins/job/BIOFORMATS-test-folder/55446/console

Moving to 6.6.0 as this PR is memo breaking and not suitable for a patch release

A further mention of this issue on image-sc: https://forum.image.sc/t/help-qupath-not-showing-tif-bif-ventana-z-stacks/67136

Link to a whitepaper that documenst the BIF format: https://diagnostics.roche.com/content/dam/diagnostics/Blueprint/en/pdf/rmd/Roche-Digital-Pathology-BIF-Whitepaper.pdf