Open Microscopy Environment

Hi,

We're seeing a couple of problems when we import images from the Leica DM6000 into OMERO. The layers son't seem to be merging correctly so we see a tiled image. Also rather than displaying as RGBRGB it shows up as RGBBBB. This is using OMERO v. 5.2.7.

Thanks for your help,

Matt.

Hi Matt,

Thank you for reporting your issue.
To troubleshoot the issue in better detail, could you please attach following screenshots to the QA post,
1) Screenshot of your imported image in OMERO
2) Screenshot of the image in the acquisition software.

To give you a brief summary of the current testing results:

Based on the brief review on the file and its import into OMERO,
we were able to figure out that the metadata in the file did not contain any information on the Channel colors and thus OMERO sets the color using the setDefaultChannelColor method listed below,
https://github.com/openmicroscopy/openm ... .java#L307

and it should thus populate the channel colors with default R/G/B values alone.
The screenshots that we have requested for, would help us understand the expectations and also help us troubleshoot the issue in better detail.

Please let us know if you need more explanation for the same.

Best,
Balaji

Hi Matt,

Troubleshooting the issue in better detail, we were able to identify the issue.
We have pushed a fix for the same,
https://github.com/openmicroscopy/openm ... /pull/5084

This fix should be available on our next stable release of OMERO (OMERO 5.3.0)
Hope that helps.

Best,
Balaji