I am an AMBER novice attempting simulations of a nucleic acid system. I
have produced topology and initial coordinates using LEaP with the
parm98.dat force field. My question is: does sander require specification
of the parm98.dat file? I can't seem to find an answer in the sander
documentation, nor do I see a parm??.dat file being called in the sander
output files. Is the use of parm98.dat in LEaP sufficient?
My second question: has AMBER (specifically sander) been compiled and
successfully parallelized on an HP N-4000 complex? Can sander run on more
than one node (i.e. more than the 8 processors of one node)?
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Jake Isaacs | Department of Biochemistry
Phone: (859) 257-4706 | University of Kentucky
Fax: (859) 323-1037 | 800 Rose St.
E-mail: rjisaa0_at_pop.uky.edu | Lexington, KY 40536-0084
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Received on Thu Dec 14 2000 - 09:20:28 PST
