I'm using cisTEM to teach cryoEM image processing and we have run into a question about how cisTEM deals with symmetry. I think I know the answer to my question, but I want to confirm... Every refinement package has an associated symmetry (so O in the apoferritin demo data set). Is this the _only_ place is the cisTEM scheme of things that determines what symmetry will be used? In other words, is the symmetry of the refinement package the determinant of the symmetry that will be enforced during any other step?
Using the apoferritin data set, I know I can make a copy of the refinement package initially created for octahedral symmetry and assign (say) D4 symmetry (a sub-symmetry of octahedral). I can then create an ab initio volume that will have D4 symmetry from that refinement package, and I can refine this new volume to my D4 asset and end up with a D4 reconstruction. How symmetry acts in this case is pretty clear: every step and every asset is associated with D4 symmetry.
My question is: what happens if I take this D4 refinement package and refine it against the ab initio volume created when octahedral symmetry was enforced? The refinement package clearly says D4 symmetry while the ab initio volume has had octahedral symmetry enforced (and the database knows this, even if the actual file does not have anything to indicate the enforced symmetry).
I assume that the result of refining the D4 package against the octahedral initial model will be a volume that has _only_ D4 symmetry enforced. However, I can't see anything in the GUI that confirms this: neither the volume nor the refinement job details seems to have a symmetry identifier.
Is my assumption correct? Thanks.