Hi MIB team,
I’m working with a team of electron microscopists who use MIB to segment and annotate their 3D FIB-SEM stacks. We are moving more of our data into an OMERO database and would like MIB to pull from there. In the past I’ve been successful getting MIB to connect to OMERO but currently with OMERO 5.5.1, the connection does not work. I did install the correct OMERO.matlab package and configured MIB to point to it. Is there a known issue and a known solution? When I try to connect I get a beep and in the command window an error: “Error using JavaObject. No class omero.client can be located … etc.”.
Second question: after the segmentation, we want to show the segmentation results in OMERO by importing the masks. Is there any documentation how MIB stores the segmentation results so I can convert and import them into OMERO? Or better yet, has anyone already written something to get the MIB masks into OMERO?