Dear Peter,
The log file was attached in this email. Please check it out. Pavel Afonine also suggested me to refine in primitive setting. But I have no much idea about this. Would you please tell me:
(1) My crystal space group is face center f23, how could I refine in a primitive setting?
(2) In reality, how can I take action to refine in primitive setting?
Sorry for my 'illiterate' in the strategy of primitive setting refinement, Please help me.
Yingjie
----- Original Message -----
From: Peter Zwart PHZwart@lbl.gov
Date: Monday, August 18, 2008 3:12 pm
Subject: Re: [phenixbb] MemoryError
To: PHENIX user mailing list <phenixbb@phenix-online.org>
> Hi Yingjie ,
>
> Send me the log file please. you might want to refine in a primitive
> setting. that will save some/a lot of time.
>
> P
>
>
> 2008/8/17 Yingjie Zhou <yzhou83@uwo.ca>:
> > Hello every one,
> >
> > Did any of you experience the problem 'MemoryError' when doing
> > phenix.refine? I had a perfect twin case and I used phenix
> refine to handle
> > this. But I have met the problem 'MemorryError' and the
> refinement was
> > stalked after long time running of phenix. Here is the basic info:
> > Resolution 2.2A
> > space group f23
> > the protein size ~320AA
> > my computor memory 4GB.
> > If someone is kind enough to really help, I can send her/him
> the log file.
> > Yingjie
> >
> >
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> >
> >
>
>
>
> --
> -----------------------------------------------------------------
> P.H. Zwart
> Beamline Scientist
> Berkeley Center for Structural Biology
> Lawrence Berkeley National Laboratories
> 1 Cyclotron Road, Berkeley, CA-94703, USA
> Cell: 510 289 9246
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