port documentation spelling fixes to comments or strings in source code.

src/KOKKOS/pppm_kokkos.cpp

@@ -202,7 +202,7 @@ void PPPMKokkos<DeviceType>::init()
   if (!atomKK->q_flag) error->all(FLERR,"Kspace style requires atomKK attribute q");
 
   if (slabflag == 0 && domain->nonperiodic > 0)
-    error->all(FLERR,"Cannot use nonperiodic boundaries with PPPM");
+    error->all(FLERR,"Cannot use non-periodic boundaries with PPPM");
   if (slabflag) {
     if (domain->xperiodic != 1 || domain->yperiodic != 1 ||
         domain->boundary[2][0] != 1 || domain->boundary[2][1] != 1)
@@ -371,7 +371,7 @@ void PPPMKokkos<DeviceType>::setup()
   // perform some checks to avoid illegal boundaries with read_data
 
   if (slabflag == 0 && domain->nonperiodic > 0)
-    error->all(FLERR,"Cannot use nonperiodic boundaries with PPPM");
+    error->all(FLERR,"Cannot use non-periodic boundaries with PPPM");
   if (slabflag) {
     if (domain->xperiodic != 1 || domain->yperiodic != 1 ||
         domain->boundary[2][0] != 1 || domain->boundary[2][1] != 1)

src/KOKKOS/pppm_kokkos.h

@@ -454,7 +454,7 @@ E: Kspace style requires atomKK attribute q
 
 UNDOCUMENTED
 
-E: Cannot use nonperiodic boundaries with PPPM
+E: Cannot use non-periodic boundaries with PPPM
 
 For kspace style pppm, all 3 dimensions must have periodic boundaries
 unless you use the kspace_modify command to define a 2d slab with a

src/KSPACE/ewald.cpp

@@ -105,7 +105,7 @@ void Ewald::init()
   if (!atom->q_flag) error->all(FLERR,"Kspace style requires atom attribute q");
 
   if (slabflag == 0 && domain->nonperiodic > 0)
-    error->all(FLERR,"Cannot use nonperiodic boundaries with Ewald");
+    error->all(FLERR,"Cannot use non-periodic boundaries with Ewald");
   if (slabflag) {
     if (domain->xperiodic != 1 || domain->yperiodic != 1 ||
         domain->boundary[2][0] != 1 || domain->boundary[2][1] != 1)

src/KSPACE/ewald.h

@@ -99,7 +99,7 @@ E: Kspace style requires atom attribute q
 
 The atom style defined does not have these attributes.
 
-E: Cannot use nonperiodic boundaries with Ewald
+E: Cannot use non-periodic boundaries with Ewald
 
 For kspace style ewald, all 3 dimensions must have periodic boundaries
 unless you use the kspace_modify command to define a 2d slab with a

src/KSPACE/ewald_disp.cpp

@@ -100,7 +100,7 @@ void EwaldDisp::init()
   if (domain->dimension == 2)
     error->all(FLERR,"Cannot use EwaldDisp with 2d simulation");
   if (slabflag == 0 && domain->nonperiodic > 0)
-    error->all(FLERR,"Cannot use nonperiodic boundaries with EwaldDisp");
+    error->all(FLERR,"Cannot use non-periodic boundaries with EwaldDisp");
   if (slabflag == 1) {
     if (domain->xperiodic != 1 || domain->yperiodic != 1 ||
         domain->boundary[2][0] != 1 || domain->boundary[2][1] != 1)

src/KSPACE/ewald_disp.h

@@ -108,7 +108,7 @@ E: Cannot use EwaldDisp with 2d simulation
 
 This is a current restriction of this command.
 
-E: Cannot use nonperiodic boundaries with EwaldDisp
+E: Cannot use non-periodic boundaries with EwaldDisp
 
 For kspace style ewald/disp, all 3 dimensions must have periodic
 boundaries unless you use the kspace_modify command to define a 2d

src/KSPACE/msm.cpp

@@ -533,7 +533,7 @@ void MSM::compute(int eflag, int vflag)
     restriction(n);
   }
 
-  // compute direct interation for top grid level for nonperiodic
+  // compute direct interation for top grid level for non-periodic
   //   and for second from top grid level for periodic
 
   if (active_flag[levels-1]) {
@@ -1120,7 +1120,7 @@ void MSM::set_grid_global()
   if (nx_msm[0] >= OFFSET || ny_msm[0] >= OFFSET || nz_msm[0] >= OFFSET)
     error->all(FLERR,"MSM grid is too large");
 
-  // compute number of extra grid points needed for nonperiodic boundary conditions
+  // compute number of extra grid points needed for non-periodic boundary conditions
 
   if (domain->nonperiodic) {
     alpha[0] = -(order/2 - 1);
@@ -1254,7 +1254,7 @@ void MSM::set_grid_local()
     nzlo_out[n] = nlo - order;
     nzhi_out[n] = nhi + MAX(order,nzhi_direct);
 
-    // add extra grid points for nonperiodic boundary conditions
+    // add extra grid points for non-periodic boundary conditions
 
     if (domain->nonperiodic) {
 

src/KSPACE/msm_cg.cpp

@@ -199,7 +199,7 @@ void MSMCG::compute(int eflag, int vflag)
   }
 
 
-  // compute direct interation for top grid level for nonperiodic
+  // compute direct interation for top grid level for non-periodic
   //   and for second from top grid level for periodic
 
   if (active_flag[levels-1]) {

src/KSPACE/pppm.cpp

@@ -214,7 +214,7 @@ void PPPM::init()
   if (!atom->q_flag) error->all(FLERR,"Kspace style requires atom attribute q");
 
   if (slabflag == 0 && domain->nonperiodic > 0)
-    error->all(FLERR,"Cannot use nonperiodic boundaries with PPPM");
+    error->all(FLERR,"Cannot use non-periodic boundaries with PPPM");
   if (slabflag) {
     if (domain->xperiodic != 1 || domain->yperiodic != 1 ||
         domain->boundary[2][0] != 1 || domain->boundary[2][1] != 1)
@@ -411,7 +411,7 @@ void PPPM::setup()
   // perform some checks to avoid illegal boundaries with read_data
 
   if (slabflag == 0 && domain->nonperiodic > 0)
-    error->all(FLERR,"Cannot use nonperiodic boundaries with PPPM");
+    error->all(FLERR,"Cannot use non-periodic boundaries with PPPM");
   if (slabflag) {
     if (domain->xperiodic != 1 || domain->yperiodic != 1 ||
         domain->boundary[2][0] != 1 || domain->boundary[2][1] != 1)

src/KSPACE/pppm.h

@@ -235,7 +235,7 @@ E: Kspace style requires atom attribute q
 
 The atom style defined does not have these attributes.
 
-E: Cannot use nonperiodic boundaries with PPPM
+E: Cannot use non-periodic boundaries with PPPM
 
 For kspace style pppm, all 3 dimensions must have periodic boundaries
 unless you use the kspace_modify command to define a 2d slab with a

src/KSPACE/pppm_disp.cpp

@@ -269,7 +269,7 @@ void PPPMDisp::init()
                         "comm_style brick");
 
   if (slabflag == 0 && domain->nonperiodic > 0)
-    error->all(FLERR,"Cannot use nonperiodic boundaries with PPPMDisp");
+    error->all(FLERR,"Cannot use non-periodic boundaries with PPPMDisp");
   if (slabflag == 1) {
     if (domain->xperiodic != 1 || domain->yperiodic != 1 ||
         domain->boundary[2][0] != 1 || domain->boundary[2][1] != 1)
@@ -657,7 +657,7 @@ void PPPMDisp::setup()
 {
 
   if (slabflag == 0 && domain->nonperiodic > 0)
-    error->all(FLERR,"Cannot use nonperiodic boundaries with PPPMDisp");
+    error->all(FLERR,"Cannot use non-periodic boundaries with PPPMDisp");
   if (slabflag == 1) {
     if (domain->xperiodic != 1 || domain->yperiodic != 1 ||
         domain->boundary[2][0] != 1 || domain->boundary[2][1] != 1)

src/KSPACE/pppm_disp.h

@@ -390,7 +390,7 @@ E: PPPMDisp can only currently be used with comm_style brick
 
 This is a current restriction in LAMMPS.
 
-E: Cannot use nonperiodic boundaries with PPPMDisp
+E: Cannot use non-periodic boundaries with PPPMDisp
 
 For kspace style pppm/disp, all 3 dimensions must have periodic
 boundaries unless you use the kspace_modify command to define a 2d

src/MISC/fix_ttm.cpp

@@ -199,7 +199,7 @@ void FixTTM::init()
   if (domain->dimension == 2)
     error->all(FLERR,"Cannot use fix ttm with 2d simulation");
   if (domain->nonperiodic != 0)
-    error->all(FLERR,"Cannot use nonperiodic boundares with fix ttm");
+    error->all(FLERR,"Cannot use non-periodic boundares with fix ttm");
   if (domain->triclinic)
     error->all(FLERR,"Cannot use fix ttm with triclinic box");
 

src/MISC/fix_ttm.h

@@ -130,7 +130,7 @@ E: Cannot use fix ttm with 2d simulation
 
 This is a current restriction of this fix due to the grid it creates.
 
-E: Cannot use nonperiodic boundares with fix ttm
+E: Cannot use non-periodic boundares with fix ttm
 
 This fix requires a fully periodic simulation box.
 

src/SRD/fix_srd.h

@@ -373,7 +373,7 @@ This may indicate a problem with your simulation parameters.
 
 E: Big particle in fix srd cannot be point particle
 
-Big particles must be extended spheriods or ellipsoids.
+Big particles must be extended spheroids or ellipsoids.
 
 E: Cannot use lines with fix srd unless overlap is set
 

src/USER-MISC/fix_ttm_mod.cpp

@@ -325,7 +325,7 @@ void FixTTMMod::init()
   if (domain->dimension == 2)
     error->all(FLERR,"Cannot use fix ttm/mod with 2d simulation");
   if (domain->nonperiodic != 0)
-    error->all(FLERR,"Cannot use nonperiodic boundares with fix ttm/mod");
+    error->all(FLERR,"Cannot use non-periodic boundares with fix ttm/mod");
   if (domain->triclinic)
     error->all(FLERR,"Cannot use fix ttm/mod with triclinic box");
   // set force prefactors

src/USER-NETCDF/dump_netcdf.cpp

@@ -785,7 +785,7 @@ void DumpNetCDF::write_header(bigint n)
       cell_angles[2] = acos(cosgamma)*180.0/MY_PI;
     }
 
-    // Recent AMBER conventions say that nonperiodic boundaries should have
+    // Recent AMBER conventions say that non-periodic boundaries should have
     // 'cell_lengths' set to zero.
     for (int dim = 0; dim < 3; dim++) {
         if (!domain->periodicity[dim])

src/USER-NETCDF/dump_netcdf_mpiio.cpp

@@ -803,7 +803,7 @@ void DumpNetCDFMPIIO::write_time_and_cell()
     cell_angles[2] = acos(cosgamma)*180.0/MY_PI;
   }
 
-  // Recent AMBER conventions say that nonperiodic boundaries should have
+  // Recent AMBER conventions say that non-periodic boundaries should have
   // 'cell_lengths' set to zero.
   for (int dim = 0; dim < 3; dim++) {
     if (!domain->periodicity[dim])

src/USER-OMP/msm_cg_omp.cpp

@@ -199,7 +199,7 @@ void MSMCGOMP::compute(int eflag, int vflag)
   }
 
 
-  // compute direct interation for top grid level for nonperiodic
+  // compute direct interation for top grid level for non-periodic
   //   and for second from top grid level for periodic
 
   if (active_flag[levels-1]) {

src/change_box.cpp

@@ -272,7 +272,7 @@ void ChangeBox::command(int narg, char **arg)
       if (domain->dimension == 2 && domain->zperiodic == 0)
         error->all(FLERR,
                    "Cannot change box z boundary to "
-                   "nonperiodic for a 2d simulation");
+                   "non-periodic for a 2d simulation");
       domain->set_initial_box();
       domain->set_global_box();
       domain->set_local_box();

src/change_box.h

@@ -97,7 +97,7 @@ E: Cannot change box tilt factors for orthogonal box
 
 Cannot use tilt factors unless the simulation box is non-orthogonal.
 
-E: Cannot change box z boundary to nonperiodic for a 2d simulation
+E: Cannot change box z boundary to non-periodic for a 2d simulation
 
 Self-explanatory.
 

src/create_box.h

@@ -47,7 +47,7 @@ E: Cannot create_box after simulation box is defined
 
 A simulation box can only be defined once.
 
-E: Cannot run 2d simulation with nonperiodic Z dimension
+E: Cannot run 2d simulation with non-periodic Z dimension
 
 Use the boundary command to make the z dimension periodic in order to
 run a 2d simulation.

src/input.h

@@ -337,7 +337,7 @@ after a read_data, read_restart, or create_box command.
 
 E: Package command after simulation box is defined
 
-The package command cannot be used afer a read_data, read_restart, or
+The package command cannot be used after a read_data, read_restart, or
 create_box command.
 
 E: Package gpu command without GPU package installed

src/pair.cpp

@@ -195,7 +195,7 @@ void Pair::init()
   if (tail_flag && domain->dimension == 2)
     error->all(FLERR,"Cannot use pair tail corrections with 2d simulations");
   if (tail_flag && domain->nonperiodic && comm->me == 0)
-    error->warning(FLERR,"Using pair tail corrections with nonperiodic system");
+    error->warning(FLERR,"Using pair tail corrections with non-periodic system");
   if (!compute_flag && tail_flag && comm->me == 0)
     error->warning(FLERR,"Using pair tail corrections with "
                    "pair_modify compute no");

src/pair.h

@@ -272,7 +272,7 @@ E: Cannot use pair tail corrections with 2d simulations
 
 The correction factors are only currently defined for 3d systems.
 
-W: Using pair tail corrections with nonperiodic system
+W: Using pair tail corrections with non-periodic system
 
 This is probably a bogus thing to do, since tail corrections are
 computed by integrating the density of a periodic system out to

src/read_data.h

@@ -160,7 +160,7 @@ E: Fix ID for read_data does not exist
 
 Self-explanatory.
 
-E: Cannot run 2d simulation with nonperiodic Z dimension
+E: Cannot run 2d simulation with non-periodic Z dimension
 
 Use the boundary command to make the z dimension periodic in order to
 run a 2d simulation.

src/read_restart.cpp

@@ -715,7 +715,7 @@ void ReadRestart::header(int incompatible)
       domain->dimension = dimension;
       if (domain->dimension == 2 && domain->zperiodic == 0)
         error->all(FLERR,
-                   "Cannot run 2d simulation with nonperiodic Z dimension");
+                   "Cannot run 2d simulation with non-periodic Z dimension");
 
     // read nprocs from restart file, warn if different
 

src/read_restart.h

@@ -141,7 +141,7 @@ E: Bigint setting in lmptype.h is not compatible
 Format of bigint stored in restart file is not consistent with LAMMPS
 version you are running.  See the settings in src/lmptype.h
 
-E: Cannot run 2d simulation with nonperiodic Z dimension
+E: Cannot run 2d simulation with non-periodic Z dimension
 
 Use the boundary command to make the z dimension periodic in order to
 run a 2d simulation.