Re: [phenixbb] phenix.refine: Override 'Number of bonds with excessive lengths'

Hi Martin,

Is there a way to override the phenix.refine Setup Restraints Manager, preventing phenix.refine from terminating if the model features a lot of excessive bond lenghts?

Not with a parameter, but you can force it like this: Edit the file $PHENIX/mmtbx/mmtbx/monomer_library/pdb_interpretation.py Look for these lines (around line 2628): raise Sorry("Number of bonds with excessive lengths: %d" % excessive_bonds.size()) Comment out: #raise Sorry("Number of bonds with excessive lengths: %d" % # excessive_bonds.size()) Ralf