You might find some useful examples in $CCP4/examples/unix/runnable
OVERLAPMAP is used in mapcorrelation_procedures, overlapmap.exam,
waterpeaks.
As I understand it, CORR SECT does a map correlation by map section, so
you get a single CC value per map section.
This mode does not use MAPIN3, and doesn't use atom or residue
information. So yes, it will ignore the CHAIN keyword.
"section" refers to map section:
Number of columns, rows, sections ............... 96 152 17
and not a section of your atomic model.
HTH
Martyn
On Tue, 2010-05-25 at 23:51 -0400, Hailiang Zhang wrote:
> Hi,
>
> I am working on a real space correlation on a specif protein section using
> CCP4 OVERLAPMAP. I am using the following scripts, not sure whether it is
> good or not (didn't find in OVERLAPMAP documentation).
>
> overlapmap \
> mapin1 ${PDB}-1.map \
> mapin2 ${PDB}-2.map \
> mapin3 ${PDB}-mask.map \
> <<eof
> CORR SECT
> CHAIN A $START $END
> END
>
> There is no error message, but the results make no difference no matter
> how I change $START and $END. I am not sure whether the above script is
> ok.
>
> By the way, more importantly to me, if corr sect works at all, will it
> print out a single CC value by integrating over the WHOLE region define by
> the section range?
>
> Thanks!
>
> Best Regards, Hailiang
--
***********************************************************************
* *
* Dr. Martyn Winn *
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* STFC Daresbury Laboratory, Daresbury, Warrington, WA4 4AD, U.K. *
* Tel: +44 1925 603455 E-mail: martyn.w...@stfc.ac.uk *
* Fax: +44 1925 603634 Skype name: martyn.winn *
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