We just installed a Nikon system that uses NIS Elements and is meant to be used for high content screening. One initial acquisition of a screen resulted in a directory of nd2 files for each well (still figuring out how to make Elements treat the whole plate as a single experiment). Anyway, we acquired 4 fields per well and in OMERO only the first field shows up (omero 5.0.2), using the command line importer. I'm uploading the file for Well A1 to the QA system (#9438).
Fiji's BioFormats importer (5.0.2-DEV - 29 July 2014) interprets the file as having 4 time points. Also not correct but better than ignoring the 3 fields. Will 5.0.3 have better handling of multi-location ND2's?Second problem: for the "Pixels Size (XYZ) (µm)" only the X value is interpreted correctly and it shows 0.0 for Y. Maybe the Y value was missing from the file?? Would it be acceptable kludge for the importer to assume the same pixel size value for Y as for X if that value is not in the ND2 file?
I did not find the right solution from the internet.
References:https://www.openmicroscopy.org/community/viewtopic.php?f=13&t=7588Best video production studio