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Statistical models of liquids
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alexei-matveev/bgy3d
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FIXME: need some minimal documentation --- I myself forget the basic
usage after a couple of weeks.
Example usage:
a) Compute solvation energy by 1D-RISM specifying the names of the
solvent and solute molecules to be picked from the hard-wired
database:
./guile/runbgy.scm energy \
--norm-tol 1e-14 --dielectric 78.4 \
--rho 0.0333295 --beta 1.6889 \
--L 160 --N 4096 \
--solvent "water, PR-SPC/E" --solute "water, PR-SPC/E"
This should give a number close to -7.869294 kcal.
b) Compute solvation energy by 3D-RISM for solute and solvent from the
database using the solvent susceptibility from a 1D-RISM calculation:
mpiexec -n 8 ./guile/runbgy.scm energy \
--norm-tol 1e-14 --dielectric 78.4 \
--rho 0.0333295 --beta 1.6889 \
--L 10 --N 96 \
--solvent "water, PR-SPC/E" --solute "water, PR-SPC/E" \
--hnc
This should give you a number close to -6.349052 kcal (look for the
"mu =" lines in the output). If you supply --no-renorm flag in
addition you should get -6.297170 kcal as in earlier versions. For
solutes without charged sites there should be no visible difference.
c) Compute self-interaction energy of an MM solute:
./guile/runbgy.scm self-energy "uranyl, 5w, pcm"
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