Re: [ccp4bb]: arp failed

[Peter Zwart <Zwart@embl-hamburg.de>]

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Cubes is the program that locates possible peptides and dipeptides.
The logfile bit that you showed indicates that it did not find anything 
in your map that could be a peptide or dipeptide.

I guess your phases are not good enough at the moment for building with 
arp_warp.
Have you got any clue how good your map is (FOM of resolve or so)? Does 
it look sensible after density modification?
(did you do density modification?)
Is the hand correct?
What is the resolution?


Good luck,

Peter




Daniele de Sanctis wrote:

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>***          CCP4 home page http://www.ccp4.ac.uk         ***
>
>after lauching arp warp, just after  building cycle 1, i got that error
>message in the log file:
>
>"QUITING ... PROGRAM TO BLAME: CUBES
> QUITING ... PROGRAM TO BLAME: CUBES
> QUITING ... PROGRAM TO BLAME: CUBES
>
> *** Look for error message at file:   
>/watson/daniele/esrf/solve/sad/2_warpNtrace_build.last 
>*** Look for error message at file:
>/watson/daniele/esrf/solve/sad/2_warpNtrace_build.last
>*** Look for error message at file: 
>/watson/daniele/esrf/solve/sad/2_warpNtrace_build.last
>
>
>
>and in the 2_warpNtrace_build.last  i found:
>
>Di-peptides          0
> Applying CA to CA+2 distance constraints 
> Di-peptides          0
> Applying CA/O/CA/O/CA dihedral angle constraints could give 
> Di-peptides          0
>
> ***** ERROR *****
>  Cannot sort zero or negative number of records S/R ARPSRT
>
>
>does anyone know what kind of error is that, and how can i fix it?
>
>thank u
>
>
>daniele
>  
>  
>