At the moment we use a mix of command syntax, some using Phil (i.e. unit_cell=a,b,c,al,be,ga) and some using legacy arguments: we plan to completely remove the latter in favour of the former, see
https://github.com/xia2/xia2/issues/42
with the intention that using xia2 in an automated environment is more straightforward and making it much simpler to automatically maintain much more complete documentation of all the options.
This will be a feature of the 1.3 release of DIALS.
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