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I'm trying to use Refmac5 with some user defined restraints (base pairs). I've managed to trick CNS into outputting a restraint file in the proper format from my dna-rna_restraints.def file. I start the command file with the appropriate psrestin command, but I don't see anything in the log file that indicates that it found my restraints or is using them during refinement. Does anyone have examples of how this works and what the log file should look like? One time I had a mistake in my restraint file and it crashed saying it couldn't find my atom, so I would like to believe it is doing something. Thanks.
