> On 4 Feb 2020, at 09:24, Joern Krausze <[email protected]> wrote:
> 
> These hydrogen atoms were present in the input file with their occupancies 
> matching that of the residues they are attached to. 

What happens with make hydrogen YES?

That should keep all hydrogens present in the input file 
(http://www.ccp4.ac.uk/html/refmac5/keywords/restraints.html#make_hydr)


Huw

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