BioFormats 5.5.3 and CZI and GridStitching does not work together due to metadata issues

[sebi06]

Hi guys,

I recently tested, that some cool features of BioFormats regarding reading CZI images lead to issues when using the GridStitching plugin. This unfortunately breaks existing workflows for our users.

The initial discussion can be found here:

ome/bioformats#2898 (comment)

In Summary this is caused by the fact the the number of detected image series within a CZI depends from the way Biofomats reads it: Either with or without pyramid levels.

Sebastien Besson already outline the possible solution for this: see bioformats issue above

It would be really cool if that could be adapted soon.

Sebi