Dear Peter,<BR> <BR>The log file was attached in this email. Please check it out. <FONT color=#3a2eb5>Pavel Afonine also suggested me to refine in primitive setting. But I have no much idea about this. Would you please tell me:</FONT><BR><FONT color=#3a2eb5>(1) My crystal space group is face center f23, how could I refine in a primitive setting?</FONT><BR><FONT color=#3a2eb5>(2) In reality, how can I take action to refine in primitive setting?</FONT><BR>
<P>Sorry for my 'illiterate' in the strategy of primitive setting refinement, Please help me.</P>
<P>Yingjie</P><BR><BR>----- Original Message -----<BR>From: Peter Zwart <A href="mailto:PHZwart@lbl.gov">PHZwart@lbl.gov</A><BR>Date: Monday, August 18, 2008 3:12 pm<BR>Subject: Re: [phenixbb] MemoryError<BR>To: PHENIX user mailing list <phenixbb@phenix-online.org><BR><BR>> Hi Yingjie ,<BR>> <BR>> Send me the log file please. you might want to refine in a primitive<BR>> setting. that will save some/a lot of time.<BR>> <BR>> P<BR>> <BR>> <BR>> 2008/8/17 Yingjie Zhou <yzhou83@uwo.ca>:<BR>> > Hello every one,<BR>> ><BR>> > Did any of you experience the problem 'MemoryError' when doing<BR>> > phenix.refine? I had a perfect twin case and I used phenix <BR>> refine to handle<BR>> > this. But I have met the problem 'MemorryError' and the <BR>> refinement was<BR>> > stalked after long time running of phenix. Here is the basic info:<BR>> > Resolution 2.2A<BR>> > space group f23<BR>> > the protein size ~320AA<BR>> > my computor memory 4GB.<BR>> > If someone is kind enough to really help, I can send her/him <BR>> the log file.<BR>> > Yingjie<BR>> ><BR>> ><BR>> > _______________________________________________<BR>> > phenixbb mailing list<BR>> > phenixbb@phenix-online.org<BR>> > http://www.phenix-online.org/mailman/listinfo/phenixbb<BR>> ><BR>> ><BR>> <BR>> <BR>> <BR>> -- <BR>> -----------------------------------------------------------------<BR>> P.H. Zwart<BR>> Beamline Scientist<BR>> Berkeley Center for Structural Biology<BR>> Lawrence Berkeley National Laboratories<BR>> 1 Cyclotron Road, Berkeley, CA-94703, USA<BR>> Cell: 510 289 9246<BR>> BCSB: http://bcsb.als.lbl.gov<BR>> PHENIX: http://www.phenix-online.org<BR>> CCTBX: http://cctbx.sf.net<BR>> -----------------------------------------------------------------<BR>> _______________________________________________<BR>> phenixbb mailing list<BR>> phenixbb@phenix-online.org<BR>> http://www.phenix-online.org/mailman/listinfo/phenixbb