On 16/11/2017 08:08, Martín Martínez Ripoll wrote:

I am trying to write a long script that, among others, runs COOT, and for this 
purpose we use something like:

coot  --pdb  refmac-out.pdb    --auto refmac-out.mtz

However, I do not know how to include in the script an instruction or keyword to centre at a particular residue number.

Does anybody know how to do it?

Well, presuming that refmac-out.pdb creates a molecule with index 0, you could 
use

(set-go-to-atom-molecule 0)
(set-go-to-atom-chain-residue-atom-name "B" 42 " CA ")

Paul.

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