[phenixbb] phenix.phaser ep_sad mode

[Randy Read]

When there are changes in syntax, it's hard to find all the places on the website that have to change.  Looks like we missed one with that example script.

Randy

On 8 Dec 2010, at 17:56, Bryan Lepore wrote:

> dev-601
> 
> i found an ep_sad script on the phaser wiki^[1] that works ok^[2] for
> old versions.
> 
> for the dev-601 phaser, i think it comes down to me not understanding
> this line :
> 
> LLGComplete CRYStal insulin COMPLETE ON SCATtering ELEMent S
> 
> i tried jumbling the commands/arguments around^[3], leading to syntax
> errors for each attempt (output excerpt below).
> 
> if this "should work", i'll gladly return to the manual - or is there
> something unusual between versions, am i missing something, etc....
> 
> -Bryan
> 
> [1]http://www.phaser.cimr.cam.ac.uk/index.php/Experimental_Phasing#Combined_MR_and_SAD_Phasing
> [2] seem not to write ATOM records in the .pdb when sites are in fact found.
> [3]http://www.phaser.cimr.cam.ac.uk/index.php/Keywords#LLGCOMPLETE
> 
> output excerpt :
> 
> MODE EP_SAD
> TITLe sad phasing insulin with best AutoMR solution
> HKLIn truncate.mtz
> CRYStal insulin DATAset sad LABIn F+=F(+) SIG+=SIGF(+) F-=F(-) SIG-=SIGF(-)
> ! LLGComplete CRYStal insulin COMPLETE ON SCATtering ELEMent S
> LLGComplete CRYStal
> 
> <!--SUMMARY_END-->
> <B><FONT COLOR="#FF8800">
> $TEXT:Warning: $$ Baubles Markup $$
> -------------------------------------------------------------------------------------
> SYNTAX ERROR: Use (optionally) COMPLETE TYPE SCATTERER ELEMENT CLUSTER
> SIGMA NCYC
> CLASH ANOM REAL MAPS or METHOD
> -------------------------------------------------------------------------------------
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------
Randy J. Read
Department of Haematology, University of Cambridge
Cambridge Institute for Medical Research      Tel: + 44 1223 336500
Wellcome Trust/MRC Building                   Fax: + 44 1223 336827
Hills Road                                    E-mail: rjr27 at cam.ac.uk
Cambridge CB2 0XY, U.K.                       www-structmed.cimr.cam.ac.uk