Cannot open large images

[bramalingam]

Hi,

Regarding the opening of RGB images on ImageJ:
The “Color mode" needs to be set to “Composite” in the “Bio-Formats Import options” window, while opening the image.
Please let us know if this does not solve your issue.

Regarding the image: ID182043
Although there was a performance issue, we were still able to generate the pyramids on our test-server.
And I was able to view the image with both the clients (web and insight).

The performance issue can be attributed to the way, Bio-Formats scans and reads the tiles from the file.
I have created a ticket on this regard,
https://trac.openmicroscopy.org/ome/ticket/13004
and have added you to the cc list.

Notifications will be sent to your email id, when there is a status change on the ticket.

Best,
Balaji

[mkuhlmann]

Dear Balaji,
thanks for the hints. To open the RGB pictures via bioformats works now.

However, no change regarding ID182043. I agree, to directly open the image in OMERO.web or OMERO.insight is not a problem at all. The issue is to open it in ImageJ/Fiji via the respective OMERO plugin. This is quite important for me, because the OMERO image viewer does not allow image editing.

Best regards,
Michael

[bramalingam]

Hi,

Due to memory management issues, opening the whole image in ImageJ using the Omero-IJ plugin is not possible, currently.

I have filed a ticket on this regard,
https://trac.openmicroscopy.org/ome/ticket/13014
and you have been added to the cc list.

Could you give us more information on your "image editing" workflow. I can check if we can suggest some round-about options (for the time-being) to suit your workflow.

ex: We can create images from ROI's using scripts in OMERO and those images can be opened in ImageJ (individually).Post processing the individual images can be stitched together and be sent back to OMERO.

Best,
Balaji