address a whole bunch of spelling issues that suddenly popped up.

doc/src/Developer_notes.rst

@@ -90,7 +90,7 @@ The fix must also do the following:
 The fix must also specify whether (by default) to include or exclude
 these contributions to the global/peratom energy/virial of the system.
 For the fix to include the contributions, set either of both of these
-variables in the contructor:
+variables in the constructor:
 
 * *thermo_energy* = 1, for global and peratom energy
 * *thermo_virial* = 1, for global and peratom virial

doc/src/fix_cmap.rst

@@ -103,7 +103,7 @@ uninterrupted fashion.
 The :doc:`fix_modify <fix_modify>` *energy* option is supported by
 this fix to add the potential energy of the CMAP interactions to both
 the global potential energy and peratom potential energies of the
-sysstem as part of :doc:`thermodynamic output <thermo_style>` or
+system as part of :doc:`thermodynamic output <thermo_style>` or
 output by the :doc:`compute pe/atom <compute_pe_atom>` command.  The
 default setting for this fix is :doc:`fix_modify energy yes
 <fix_modify>`.

doc/src/fix_colvars.rst

@@ -115,7 +115,7 @@ in a pair of double quotes ("), or can span multiple lines when bracketed
 by a pair of triple double quotes (""", like python embedded documentation).
 
 This fix computes a global scalar which can be accessed by various
-:doc:`output commands <Howto_output>`.  The scalar is the Covars
+:doc:`output commands <Howto_output>`.  The scalar is the Colvars
 energy mentioned above.  The scalar value calculated by this fix is
 "extensive".
 

doc/src/fix_modify.rst

@@ -83,7 +83,7 @@ appropriate fix.
 
 .. note::
 
-   For most fixes that suppport the *energy* keyword, the default
+   For most fixes that support the *energy* keyword, the default
    setting is *no*.  For a few it is *yes*, when a user would expect
    that to be the case.  The doc page of each fix gives the default.
 
@@ -108,7 +108,7 @@ option to include or exclude the contribution from fixes.
 
 .. note::
 
-   For most fixes that suppport the *virial* keyword, the default
+   For most fixes that support the *virial* keyword, the default
    setting is *no*.  For a few it is *yes*, when a user would expect
    that to be the case.  The doc page of each fix gives the default.
 

doc/src/fix_orient.rst

@@ -149,7 +149,7 @@ No information about this fix is written to :doc:`binary restart files
 
 The :doc:`fix_modify <fix_modify>` *energy* option is supported by
 this fix to add the potential energy of atom interactions with the
-grain bounadry driving force to the global potential energy of the
+grain boundary driving force to the global potential energy of the
 system as part of :doc:`thermodynamic output <thermo_style>`.  The
 default setting for this fix is :doc:`fix_modify energy no
 <fix_modify>`.

doc/src/fix_orient_eco.rst

@@ -103,7 +103,7 @@ files <restart>`.
 
 The :doc:`fix_modify <fix_modify>` *energy* option is supported by
 this fix to add the potential energy of atom interactions with the
-grain bounadry driving force to the global potential energy of the
+grain boundary driving force to the global potential energy of the
 system as part of :doc:`thermodynamic output <thermo_style>`.  The
 default setting for this fix is :doc:`fix_modify energy no
 <fix_modify>`.

doc/src/fix_precession_spin.rst

@@ -141,7 +141,7 @@ No information about this fix is written to :doc:`binary restart files
 <restart>`.
 
 The :doc:`fix_modify <fix_modify>` *energy* option is supported by
-this fix to add the energy assocatiated with the spin precession
+this fix to add the energy associated with the spin precession
 torque to the global potential energy of the system as part of
 :doc:`thermodynamic output <thermo_style>`.  The default setting for
 this fix is :doc:`fix_modify energy no <fix_modify>`.

doc/src/fix_tgnh_drude.rst

@@ -240,7 +240,7 @@ compute temperature on a subset of atoms.
    keyword will be unaffected by the *temp* setting.
 
 The cumulative energy change in the system imposed by these fixes, due
-to thermostatting and/or barostating, are included in the
+to thermostatting and/or barostatting, are included in the
 :doc:`thermodynamic output <thermo_style>` keywords *ecouple* and
 *econserve*.  See the :doc:`thermo_style <thermo_style>` doc page for
 details.

doc/src/fix_wall_ees.rst

@@ -131,7 +131,7 @@ The :doc:`fix_modify <fix_modify>` *energy* option is supported by
 these fixes to add the energy of interaction between atoms and all the
 specified walls or region wall to the global potential energy of the
 system as part of :doc:`thermodynamic output <thermo_style>`.  The
-default settings for thes fixes are :doc:`fix_modify energy no
+default settings for these fixes are :doc:`fix_modify energy no
 <fix_modify>`.
 
 The :doc:`fix_modify <fix_modify>` *respa* option is supported by

doc/utils/sphinx-config/false_positives.txt

@@ -508,6 +508,7 @@ cpp
 cpu
 createatoms
 createAtoms
+CreateIDs
 crespi
 Crespi
 Critchley
@@ -788,6 +789,7 @@ ees
 eFF
 efield
 effm
+eflag
 eflux
 eg
 Eggebrecht
@@ -2681,6 +2683,7 @@ rfile
 rg
 Rg
 Rhaphson
+Rhe
 rheological
 rheology
 rhodo
@@ -3335,6 +3338,7 @@ verlet
 Verlet
 versa
 ves
+vflag
 vhi
 vibrational
 Vij