Commit a1098d57 authored by Axel Kohlmeyer's avatar Axel Kohlmeyer
Browse files

fix broken and inconsistent links in the manual

parent b47e4922
...@@ -95,7 +95,7 @@ OPT. ...@@ -95,7 +95,7 @@ OPT.
"helix (o)"_dihedral_helix.html, "helix (o)"_dihedral_helix.html,
"multi/harmonic (o)"_dihedral_multi_harmonic.html, "multi/harmonic (o)"_dihedral_multi_harmonic.html,
"nharmonic (o)"_dihedral_nharmonic.html, "nharmonic (o)"_dihedral_nharmonic.html,
"opls (iko)"_dihedral_opls.htm;, "opls (iko)"_dihedral_opls.html,
"quadratic (o)"_dihedral_quadratic.html, "quadratic (o)"_dihedral_quadratic.html,
"spherical (o)"_dihedral_spherical.html, "spherical (o)"_dihedral_spherical.html,
"table (o)"_dihedral_table.html, "table (o)"_dihedral_table.html,
......
...@@ -159,7 +159,7 @@ ellipsoidal particles: ...@@ -159,7 +159,7 @@ ellipsoidal particles:
The advantage of these fixes is that those which thermostat the The advantage of these fixes is that those which thermostat the
particles include the rotational degrees of freedom in the temperature particles include the rotational degrees of freedom in the temperature
calculation and thermostatting. The "fix langevin"_fix_langevin calculation and thermostatting. The "fix langevin"_fix_langevin.html
command can also be used with its {omgea} or {angmom} options to command can also be used with its {omgea} or {angmom} options to
thermostat the rotational degrees of freedom for spherical or thermostat the rotational degrees of freedom for spherical or
ellipsoidal particles. Other thermostatting fixes only operate on the ellipsoidal particles. Other thermostatting fixes only operate on the
......
...@@ -297,7 +297,7 @@ lib/gpu/README ...@@ -297,7 +297,7 @@ lib/gpu/README
"Section 2.6 -sf gpu"_Run_options.html "Section 2.6 -sf gpu"_Run_options.html
"Section 2.6 -pk gpu"_Run_options.html "Section 2.6 -pk gpu"_Run_options.html
"package gpu"_package.html "package gpu"_package.html
"Commands all"_Commands_all.html pages (pair,kspace) for styles followed by (g) "Commands all"_lc pages (pair,kspace) for styles followed by (g)
"Benchmarks page"_http://lammps.sandia.gov/bench.html of web site :ul "Benchmarks page"_http://lammps.sandia.gov/bench.html of web site :ul
:line :line
...@@ -412,7 +412,7 @@ lib/kokkos/README ...@@ -412,7 +412,7 @@ lib/kokkos/README
"Section 2.6 -sf kk"_Run_options.html "Section 2.6 -sf kk"_Run_options.html
"Section 2.6 -pk kokkos"_Run_options.html "Section 2.6 -pk kokkos"_Run_options.html
"package kokkos"_package.html "package kokkos"_package.html
"Commands all"_Commands_all.html pages (fix,compute,pair,etc) for styles followed by (k) "Commands all"_lc pages (fix,compute,pair,etc) for styles followed by (k)
"Benchmarks page"_http://lammps.sandia.gov/bench.html of web site :ul "Benchmarks page"_http://lammps.sandia.gov/bench.html of web site :ul
:line :line
...@@ -1392,7 +1392,7 @@ src/USER-INTEL/README ...@@ -1392,7 +1392,7 @@ src/USER-INTEL/README
"Section 2.6 -sf intel"_Run_options.html "Section 2.6 -sf intel"_Run_options.html
"Section 2.6 -pk intel"_Run_options.html "Section 2.6 -pk intel"_Run_options.html
"package intel"_package.html "package intel"_package.html
"Commands all"_Commands_all.html pages (fix,compute,pair,etc) for styles followed by (i) "Commands all"_lc pages (fix,compute,pair,etc) for styles followed by (i)
src/USER-INTEL/TEST src/USER-INTEL/TEST
"Benchmarks page"_http://lammps.sandia.gov/bench.html of web site :ul "Benchmarks page"_http://lammps.sandia.gov/bench.html of web site :ul
...@@ -1698,7 +1698,7 @@ src/USER-OMP/README ...@@ -1698,7 +1698,7 @@ src/USER-OMP/README
"Section 2.6 -sf omp"_Run_options.html "Section 2.6 -sf omp"_Run_options.html
"Section 2.6 -pk omp"_Run_options.html "Section 2.6 -pk omp"_Run_options.html
"package omp"_package.html "package omp"_package.html
"Commands all"_Commands_all.html pages (fix,compute,pair,etc) for styles followed by (o) "Commands all"_lc pages (fix,compute,pair,etc) for styles followed by (o)
"Benchmarks page"_http://lammps.sandia.gov/bench.html of web site :ul "Benchmarks page"_http://lammps.sandia.gov/bench.html of web site :ul
:line :line
......
...@@ -59,7 +59,7 @@ and callbacks to LAMMPS. ...@@ -59,7 +59,7 @@ and callbacks to LAMMPS.
The "fix python/invoke"_fix_python_invoke.html command can execute The "fix python/invoke"_fix_python_invoke.html command can execute
Python code at selected timesteps during a simulation run. Python code at selected timesteps during a simulation run.
The "pair_style python"_pair_python command allows you to define The "pair_style python"_pair_python.html command allows you to define
pairwise potentials as python code which encodes a single pairwise pairwise potentials as python code which encodes a single pairwise
interaction. This is useful for rapid-developement and debugging of a interaction. This is useful for rapid-developement and debugging of a
new potential. new potential.
......
...@@ -400,7 +400,7 @@ within the input script to automatically append the "omp" suffix to ...@@ -400,7 +400,7 @@ within the input script to automatically append the "omp" suffix to
styles when USER-INTEL styles are not available. styles when USER-INTEL styles are not available.
NOTE: For simulations on higher node counts, add "processors * * * NOTE: For simulations on higher node counts, add "processors * * *
grid numa"_processors.html" to the beginning of the input script for grid numa"_processors.html to the beginning of the input script for
better scalability. better scalability.
When running on many nodes, performance might be better when using When running on many nodes, performance might be better when using
......
...@@ -72,7 +72,7 @@ Lennard-Jones "pair_style lj/cut"_pair_lj.html: ...@@ -72,7 +72,7 @@ Lennard-Jones "pair_style lj/cut"_pair_lj.html:
"pair_style lj/cut/opt"_pair_lj.html :ul "pair_style lj/cut/opt"_pair_lj.html :ul
To see what accelerate styles are currently available for a particular To see what accelerate styles are currently available for a particular
style, find the style name in the "Commands_all"_Commands_all.html style, find the style name in the "Commands_all"_lc
style pages (fix,compute,pair,etc) and see what suffixes are listed style pages (fix,compute,pair,etc) and see what suffixes are listed
(g,i,k,o,t) with it. The doc pages for individual commands (g,i,k,o,t) with it. The doc pages for individual commands
(e.g. "pair lj/cut"_pair_lj.html or "fix nve"_fix_nve.html) also list (e.g. "pair lj/cut"_pair_lj.html or "fix nve"_fix_nve.html) also list
......
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