Hi. I’ve just updated toCP3 from 2.2 on a mac. One of my previous projects had tertiary objects identified and in v2.2 these were retained and I later saved the image. Opening the project in v3 however, and the option to retain outlines and name them is no longer present. I tried re-inserting the module from scratch and it still doesn’t show up. According to the help: http://cellprofiler.org/manuals/current/IdentifyTertiaryObjects.html this should be there still.
Can anyone tel me if this is just a bug to be ironed out, possibly a mac specific error, or if it is a deliberate removal of functionality? In the interim, my project works fine as long as I remove the SaveImages module that was pointing to the now non existent outline image.