Re: [phenixbb] sigma_iobs_rejection_criterion

Hi Yarrow, if you run refinement with F, then only F>=0 are used. If you run refinement with I, then the French&Wilson procedure of converting I to F is used: French, G.S., Wilson, K.S. (1978) On the treatment of negative intensity observations. Acta Cryst A34, 517–525. Pavel On 7/10/12 2:38 PM, Yarrow Madrona wrote:

Hi,

Do you know where I could find the default values for criteria for error in Iobs and Fobs? I am having trouble finding it in the log file. Thanks.

-Yarrow

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1. Is this the same observed criterion that is reported in the RCSB Deposition?

2. To be honest I don't understand what this is. Is it a limit for the error in Iobs, below which the reflection will be discarded?

3. What is a reasonable setting for this input and how does it change the refinement? To be honest, this was an incompatibility between the current code and

On Tue, Jul 10, 2012 at 8:58 AM, Yarrow Madrona wrote: older parameter files that we hadn't anticipated. In the context of French & Wilson treatment, I believe the parameter basically filters out excessively negative intensities. I would probably leave this alone - you can get the old parameter file to work again by resetting it to None, which is the new default value. The current nightly build has been fixed to prevent it from stopping if it sees a value of 0 instead.

-Nat _______________________________________________ phenixbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/phenixbb