correct some documentation issues with the recently added USER-PTM package

doc/src/Commands_compute.txt

@@ -96,7 +96,7 @@ KOKKOS, o = USER-OMP, t = OPT.
 "property/atom"_compute_property_atom.html,
 "property/chunk"_compute_property_chunk.html,
 "property/local"_compute_property_local.html,
-"ptm/atom"_compute_ptm_atom.html
+"ptm/atom"_compute_ptm_atom.html,
 "rdf"_compute_rdf.html,
 "reduce"_compute_reduce.html,
 "reduce/chunk"_compute_reduce_chunk.html,

doc/src/Packages_details.txt

@@ -1749,7 +1749,7 @@ USER-PTM package :link(PKG-USER-PTM),h4
 
 [Contents:]
 
-A "compute ptm/atom"_compute_ptm.html command that calculates
+A "compute ptm/atom"_compute_ptm_atom.html command that calculates
 local structure characterization using the Polyhedral Template
 Matching methodology.
 
@@ -1757,10 +1757,9 @@ Matching methodology.
 
 [Supporting info:]
 
-src/USER-PHONON: filenames -> commands
-src/USER-PHONON/README
-"fix phonon"_fix_phonon.html
-examples/USER/phonon :ul
+src/USER-PTM: filename starting with ptm_ -> supporting code, other filenames -> commands
+src/USER-PTM/LICENSE
+"compute ptm/atom"_compute_ptm_atom.html :ul
 
 :line
 

doc/src/Packages_user.txt

@@ -62,7 +62,7 @@ Package, Description, Doc page, Example, Library
 "USER-NETCDF"_Packages_details.html#PKG-USER-NETCDF, dump output via NetCDF,"dump netcdf"_dump_netcdf.html, n/a, ext
 "USER-OMP"_Packages_details.html#PKG-USER-OMP, OpenMP-enabled styles,"Speed omp"_Speed_omp.html, "Benchmarks"_http://lammps.sandia.gov/bench.html, no
 "USER-PHONON"_Packages_details.html#PKG-USER-PHONON, phonon dynamical matrix,"fix phonon"_fix_phonon.html, USER/phonon, no
-"USER-PTM"_Packages_details.html#PKG-USER-PTM, Polyhedral Template Matching,"compute ptm/atom"_compute_ptm.html, n/a, no
+"USER-PTM"_Packages_details.html#PKG-USER-PTM, Polyhedral Template Matching,"compute ptm/atom"_compute_ptm_atom.html, n/a, no
 "USER-QMMM"_Packages_details.html#PKG-USER-QMMM, QM/MM coupling,"fix qmmm"_fix_qmmm.html, USER/qmmm, ext
 "USER-QTB"_Packages_details.html#PKG-USER-QTB, quantum nuclear effects,"fix qtb"_fix_qtb.html "fix qbmsst"_fix_qbmsst.html, qtb, no
 "USER-QUIP"_Packages_details.html#PKG-USER-QUIP, QUIP/libatoms interface,"pair_style quip"_pair_quip.html, USER/quip, ext

doc/src/compute_ptm_atom.txt

@@ -80,9 +80,9 @@ too frequently or to have multiple compute/dump commands, each with a
 
 [Output info:]
 
-This compute calculates a per-atom array, which can be accessed by
+This compute calculates a per-atom arry, which can be accessed by
 any command that uses per-atom values from a compute as input.  See
-"Section 6.15"_Section_howto.html#howto_15 for an overview of
+the "Howto output"_Howto_output.html doc page for an overview of
 LAMMPS output options.
 
 Results are stored in the per-atom array in the following order: