[AMBER] rdf averaging problem

From: newamber list <newamberlist.gmail.com>
Date: Thu, 10 Apr 2014 23:08:49 +0100

Hi All

I am getting some unusual rdf starting at zero distances of ion which is
wrong and I think could be an averaging problem. Here is a single frame
command. (and plot attached)

reference test.nc 10

trajin test.nc 10 10

radial rdf.dat 0.1 10 :WAT (:484,441,382,213>.100&.Cl-) volume


 Actually this should give me an average RDF for all the Cl- ions which are
100 Ang. distance far from COM of :484,441,382,213. There should be no RDF
values below distance 2 or so. But when I test the same with some
individual Cl- ions (>100 Angs) with masks like this for individual ion:WAT
:3740, I don't get any such RDF near distance zero which is correct.


So I think there is some averaging bug?


Thanks

Jiomm


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test.png
(image/png attachment: test.png)

Received on Thu Apr 10 2014 - 15:30:02 PDT
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