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doc/src/Section_howto.txt
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@ -185,7 +185,7 @@ for additional tools that can use CHARMM or AMBER to assign force
field coefficients and convert their output into LAMMPS input. field coefficients and convert their output into LAMMPS input.
See "(MacKerell)"_#howto-MacKerell for a description of the CHARMM force See "(MacKerell)"_#howto-MacKerell for a description of the CHARMM force
field. See "(Cornell)"_#Cornell for a description of the AMBER force field. See "(Cornell)"_#howto-Cornell for a description of the AMBER force
field. field.
:link(charmm,http://www.scripps.edu/brooks) :link(charmm,http://www.scripps.edu/brooks)
@ -217,7 +217,7 @@ atoms involved in the bond, angle, or torsion terms. DREIDING has an
interactions involving a hydrogen atom on very electronegative atoms interactions involving a hydrogen atom on very electronegative atoms
(N, O, F). (N, O, F).
See "(Mayo)"_#Mayo for a description of the DREIDING force field See "(Mayo)"_#howto-Mayo for a description of the DREIDING force field
These style choices compute force field formulas that are consistent These style choices compute force field formulas that are consistent
with the DREIDING force field. See each command's with the DREIDING force field. See each command's
@ -2778,7 +2778,7 @@ too close, which can cause numerical issues.
[(Berendsen)] Berendsen, Grigera, Straatsma, J Phys Chem, 91, [(Berendsen)] Berendsen, Grigera, Straatsma, J Phys Chem, 91,
6269-6271 (1987). 6269-6271 (1987).
:link(Cornell) :link(howto-Cornell)
[(Cornell)] Cornell, Cieplak, Bayly, Gould, Merz, Ferguson, [(Cornell)] Cornell, Cieplak, Bayly, Gould, Merz, Ferguson,
Spellmeyer, Fox, Caldwell, Kollman, JACS 117, 5179-5197 (1995). Spellmeyer, Fox, Caldwell, Kollman, JACS 117, 5179-5197 (1995).
@ -2794,7 +2794,7 @@ J Chem Phys, 120, 9665 (2004).
[(MacKerell)] MacKerell, Bashford, Bellott, Dunbrack, Evanseck, Field, [(MacKerell)] MacKerell, Bashford, Bellott, Dunbrack, Evanseck, Field,
Fischer, Gao, Guo, Ha, et al, J Phys Chem, 102, 3586 (1998). Fischer, Gao, Guo, Ha, et al, J Phys Chem, 102, 3586 (1998).
:link(Mayo) :link(howto-Mayo)
[(Mayo)] Mayo, Olfason, Goddard III, J Phys Chem, 94, 8897-8909 [(Mayo)] Mayo, Olfason, Goddard III, J Phys Chem, 94, 8897-8909
(1990). (1990).