This remains an issue in v2.
One additional observation which may be useful in debugging:
- When a complex that has previously been refined with symmetry is used as a reference model for a refinement with ‘align symmetry’ on, the symmetry alignment almost invariably fails (at least for small complexes). In contrast, the C1 ab initio model of the same complex, which internally has the same symmetry but which does not have it’s symmetry axis pre-aligned with the canonical one, refines just fine with ‘align symmetry’ on. This happens reproducibly for multiple different projects - happy to provide example data if it is useful to debug.
Cheers
Oli