Fixed lots of errors in User Guide, especially in equations

docs-source/usersguide/application.rst

@@ -723,6 +723,12 @@ produce an error since no water parameters are defined:
 
     forcefield = ForceField('amber10.xml')
 
+Be aware that some force fields and water models include "extra particles", such
+as lone pairs or Drude particles.  Examples include the CHARMM polarizable force
+field and all of the 4 and 5 site water models.  To use these force fields, you
+must first add the extra particles to the Topology.  See section
+:ref:`adding-or-removing-extra-particles` for details.
+
 AMBER Implicit Solvent
 ======================
 
@@ -1331,6 +1337,8 @@ Allowed values for :code:`positiveIon` are 'Cs+', 'K+', 'Li+', 'Na+', and
 some force fields do not include parameters for all of these ion types, so you
 need to use types that are supported by your chosen force field.
 
+.. _adding-or-removing-extra-particles:
+
 Adding or Removing Extra Particles
 **********************************
 

docs-source/usersguide/library.rst

@@ -3553,7 +3553,7 @@ Hamiltonian is given by
 
 
 .. math::
-   H=\sum _{k=1}^{n}\left(\frac{{p}_{{k}^{2}}}{2m}+E({q}_{k})+\frac{m({k}_{B}Tn)^{2}}{2h^{2}}({q}_{k}-{q}_{k-1})^{2}\right)
+   H=\sum _{k=1}^{n}\left(\frac{{p}_{{k}^{2}}}{2m}+E({q}_{k})+\frac{m({k}_{B}Tn)^{2}}{2\hbar^{2}}({q}_{k}-{q}_{k-1})^{2}\right)
 
 
 This Hamiltonian resembles that of a system of classical ring polymers where
@@ -3569,7 +3569,7 @@ needed to converge a calculation can be estimated using\ :cite:`Markland2008`\
 
 
 .. math::
-   n>\frac{h\omega_{max}}{{k}_{B}T}
+   n>\frac{\hbar\omega_{max}}{{k}_{B}T}
 
 
 where :math:`\omega_{max}` is the highest frequency in the problem.  For example, for