Import large whole slide images to OMERO

[MSSchmi]

Hi,

We are generating large whole slide Images (WSI) using the Pannoramic 250 Flash scanner (3DHistech). The ouput format is .mrxs and subsequently we convert these images to .jp2 - format for some postprocessing steps.

Now we have some trouble to manage these jp2-files with OMERO. They can be imported unproblematically but are not displayed at all showing a "clock" thumbnail instead. To give you an example we uploaded an image as user "peuskirchen": N1180-13_R_ZEB-1_1.jp2, ID: 181770.

Is there a WSI format that works and we can switch to or is it possible to get a proper solution for these large jp2-files ?

It would be great if somebody could help us.

Thanks a lot !

[atarkowska]

Hi

Thank you for trying our demo server. It looks like you are facing issues reported in https://trac.openmicroscopy.org/ome/ticket/9544. I would suggest you to convert to SVS or any other tiled TIFF

Ola