[phenixbb] Please help with neutron composite SA-omit

Pavel Afonine PAfonine at lbl.gov
Mon Feb 23 20:46:20 PST 2009


Hi Anna,

you can ask phenix.refine produce "kick maps" that are supposed to be 
less biased, contain less noise and, if you are lucky, might bring some 
more features (that were buried in noise before).

Let me know if you have any questions.

Pavel.


On 2/23/09 11:40 AM, Anna Gardberg wrote:
> Hello.
>
> I am attempting to create an SA-omit composite map with neutron scatterers.
>
> Unfortunately,
>
>  phenix.autobuild data= "neutron.mtz" model="neutron_004.pdb"
> composite_omit_type=sa_omit scattering_table=neutron
>
> results in an error:
>
> "Sorry, unknown file or keyword: scattering_table=neutron
> Possibilities... (use 'phenix.autobuild --help all' to get full help):
>   general.resolve_pattern_command_list=neutron
>   density_modification.use_resolve_pattern=neutron
>   decision_making.semi_acceptable_r=neutron
>   decision_making.acceptable_r=neutron
>   multiple_models.multiple_models_starting_resolution=neutron
> "
>
> Can someone here help, please?
>
> (For what it's worth: I'd use nCNS, but while CNS 1.21 (precompiled
> binaries) works on my computer, CNS 1.1 version seems to compile, it
> will not run. When I apply the nCNS patch to CNS 1.1, again it seems
> to compile, but will not run. )
>
> Regards,
> Anna Gardberg
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>   



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