[phenixbb] DEN refinement and reference model

[Luca Pellegrini]

Ok, fixed - 

Eugene Valkov suggested using phenix.pdbtools with flags:

set_seg_id_to_chain_id=True (Sets the segID field to the chain ID).

or

clear_seg_id=True (Erases the segID field.)

I tried the second flag on both working and reference models, and now phenix.den_refine is running.

Luca

On 8 Jan 2013, at 12:34, Luca Pellegrini wrote:

> Phenix.den_refine (1.8.1-1168) stops and complains that:
> 
> "Sorry: Reference model contains SEGIDs that do not match the working model."
> 
> I have four chains in both working and reference model, ordered in the same way (A to D). Chains A and C are the same molecule, and chains B and D are also the same. Can you please advice? Some of the chains in the reference model contain more residues, is this a problem?
> 
> Thanks for your help.
> 
> Luca
> 
> 
> Luca Pellegrini
> Department of Biochemistry
> University of Cambridge
> 80 Tennis Court Road
> Cambridge CB2 1GA - UK
> 
> Email: lp212 at cam.ac.uk
> Tel: 0044-1223-760469
> Fax: 0044-1223-766002
> Sanger building, room 3.59
> 
> 
> 
> 
> 
> 
> 
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Luca Pellegrini
Department of Biochemistry
University of Cambridge
80 Tennis Court Road
Cambridge CB2 1GA - UK

Email: lp212 at cam.ac.uk
Tel: 0044-1223-760469
Fax: 0044-1223-766002
Sanger building, room 3.59