@adtaheri There is an argument for forcing convering in Relion (I canât remember exactly, should be in the expert section if you run relion_refine
with no arguments). Usually this is used to run a final iteration on CPUs when the GPU doesnât have enough memory for the converging iteration.
@apunjani and @olibclarke are correct that you should also be able to use the half-maps directly via the command line. The GUI and some command-line options in Relion do only accept a seed name thatâs used to automatically find files with different endings, and some other operations like polishing etc. now require optimiser files, so sometimes itâs useful to create something that looks like a Relion job structure.