[phenixbb] disulfides and .defs, maybe custom geom.

Ralf W. Grosse-Kunstleve rwgk at cci.lbl.gov
Sun Jun 8 19:09:02 PDT 2008

Hi Bryan,
Which version of phenix is this?
Do you specify the .pdb file again, along with the .def file?
In older versions the .pdb file was read twice. Newer versions
will handle this the way you want to.
In any case, it is always best to run
  phenix.refine some.def
No need to specify the .pdb and .mtz files again, irrespective of
the phenix.refine version.

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