I have a question about linking acquisition metadata to the display of images in Omero (5.4.10). I am importing .tif’s with multiple channels. The original acquisition metadata is imported into Omero, but the display tools (iViewer, preview etc.) don’t reflect that information. This is a screenshot of the situation. I can’t seem to change the “unset fields” in the GUI though ultimately I’d like to do this in an automated fashion on import. I have access to the CLI:
A bit of backstory. If I import these images from the raw instrument output then this information is carried over into Omero. You can see the channel is now “Opal 690” instead of “0”.
It was after opening with Bioformats in Fiji and changing the bit depth and then re-saving and importing into Omero when then assign the channel name fields were not assigned properly.
thanks in advance!