AMBER Archive (2008)

Subject: RE: AMBER: reg.dnasaveparm&tcrd

From: balaji nagarajan (balaji_sethu_at_hotmail.com)
Date: Mon Dec 01 2008 - 10:51:00 CST

> Date: Mon, 1 Dec 2008 09:29:41 -0500
sorry !
there is some error in network
my problem is when i do solvation and give the following for saving top and crd
it gave the error !

        
        
        
        
        
        
        
        

saveamberparm model2 polyAT_wat.prmtop
polyAT_wat.inpcrd

Checking Unit.
Building topology.
Building atom parameters.
Building bond parameters.
Building angle parameters.
Building proper torsion parameters.
Building improper torsion parameters.
 total 240 improper torsions applied
Building H-Bond parameters.
Not Marking per-residue atom chain
types.
Marking per-residue atom chain types.
  (Residues lacking connect0/connect1 -

   these don't have chain types marked:

        res total affected

        WAT 5108
  )
 (no restraints)

        
        
        
        
        
        
        
        

a

> From: case_at_biomaps.rutgers.edu
> To: amber_at_scripps.edu
> Subject: Re: AMBER: reg.dnasaveparm&tcrd
>
> On Mon, Dec 01, 2008, balaji nagarajan wrote:
> >
> > I am a new user of AMBER , time being I am running a dna dynamics ,
> > i have a problem in saving top and crd files after putting water box to my case
> > its giving out some error
> >
>
> You have to say more than "it is giving some error". Please indicate exactly
> what you did, and what the error messages were.
>
> ...dac
>
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