AMBER Archive (2004)

Subject: Re: AMBER: NMODE for protein via MM-PBSA-cntd

From: ML (lepsik_at_uochb.cas.cz)
Date: Wed Feb 04 2004 - 11:18:12 CST


Dear David,
thanks for your answer.

>Nmode re-creates the pairlist when it starts up; this is probably different
>than the one that was being used by sander when it got to a low gradient.
>
>
Maybe, I should change some more parameters in the compilation or give
more than 2GB of memory but without a cutoff I exceed the maximum
nonbonded pair ........

Regards,

Martin

> But, are you sure that you
>cannot do a non-cutoff simulation? (You don't need the eigenvectors).
>
 
-----------
Martin Lepsik
Dept. of Molecular Modeling
Institute of Organic Chemistry & Biochemistry
Czech Academy of Sciences
phone: +420-220 183 540
fax:+420-220 183 292
e-mail:lepsik_at_uochb.cas.cz

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