diff --git a/doc/src/Commands.rst b/doc/src/Commands.rst index 79fa30003d..f192d6a59d 100644 --- a/doc/src/Commands.rst +++ b/doc/src/Commands.rst @@ -21,9 +21,6 @@ commands in it are used to define a LAMMPS simulation. Commands_compute Commands_pair Commands_bond - Commands_angle - Commands_dihedral - Commands_improper Commands_kspace .. toctree:: diff --git a/doc/src/Commands_all.rst b/doc/src/Commands_all.rst index b9f5578137..d47c3299d0 100644 --- a/doc/src/Commands_all.rst +++ b/doc/src/Commands_all.rst @@ -5,10 +5,10 @@ * :doc:`Fix styles ` * :doc:`Compute styles ` * :doc:`Pair styles ` - * :doc:`Bond styles ` - * :doc:`Angle styles ` - * :doc:`Dihedral styles ` - * :doc:`Improper styles ` + * :ref:`Bond styles ` + * :ref:`Angle styles ` + * :ref:`Dihedral styles ` + * :ref:`Improper styles ` * :doc:`KSpace styles ` General commands diff --git a/doc/src/Commands_angle.rst b/doc/src/Commands_angle.rst deleted file mode 100644 index ca5e96d57e..0000000000 --- a/doc/src/Commands_angle.rst +++ /dev/null @@ -1,55 +0,0 @@ -.. table_from_list:: - :columns: 3 - - * :doc:`General commands ` - * :doc:`Fix styles ` - * :doc:`Compute styles ` - * :doc:`Pair styles ` - * :doc:`Bond styles ` - * :doc:`Angle styles ` - * :doc:`Dihedral styles ` - * :doc:`Improper styles ` - * :doc:`KSpace styles ` - - -.. _angle: - -Angle\_style potentials -======================= - -All LAMMPS :doc:`angle_style ` commands. Some styles have -accelerated versions. This is indicated by additional letters in -parenthesis: g = GPU, i = USER-INTEL, k = KOKKOS, o = USER-OMP, t = -OPT. - -.. table_from_list:: - :columns: 4 - - * :doc:`none ` - * :doc:`zero ` - * :doc:`hybrid ` - * - * - * - * - * - * :doc:`charmm (iko) ` - * :doc:`class2 (ko) ` - * :doc:`class2/p6 ` - * :doc:`cosine (ko) ` - * :doc:`cosine/buck6d ` - * :doc:`cosine/delta (o) ` - * :doc:`cosine/periodic (o) ` - * :doc:`cosine/shift (o) ` - * :doc:`cosine/shift/exp (o) ` - * :doc:`cosine/squared (o) ` - * :doc:`cross ` - * :doc:`dipole (o) ` - * :doc:`fourier (o) ` - * :doc:`fourier/simple (o) ` - * :doc:`harmonic (iko) ` - * :doc:`mm3 ` - * :doc:`quartic (o) ` - * :doc:`sdk (o) ` - * :doc:`table (o) ` - * diff --git a/doc/src/Commands_bond.rst b/doc/src/Commands_bond.rst index a7e22274e9..dbf7344394 100644 --- a/doc/src/Commands_bond.rst +++ b/doc/src/Commands_bond.rst @@ -5,18 +5,18 @@ * :doc:`Fix styles ` * :doc:`Compute styles ` * :doc:`Pair styles ` - * :doc:`Bond styles ` - * :doc:`Angle styles ` - * :doc:`Dihedral styles ` - * :doc:`Improper styles ` + * :ref:`Bond styles ` + * :ref:`Angle styles ` + * :ref:`Dihedral styles ` + * :ref:`Improper styles ` * :doc:`KSpace styles ` .. _bond: -Bond\_style potentials -================================= +bond_style potentials +===================== -All LAMMPS :doc:`bond\_style ` commands. Some styles have +All LAMMPS :doc:`bond_style ` commands. Some styles have accelerated versions. This is indicated by additional letters in parenthesis: g = GPU, i = USER-INTEL, k = KOKKOS, o = USER-OMP, t = OPT. @@ -48,3 +48,122 @@ OPT. * :doc:`table (o) ` * * + +--- + +.. _angle: + +angle_style potentials +====================== + +All LAMMPS :doc:`angle_style ` commands. Some styles have +accelerated versions. This is indicated by additional letters in +parenthesis: g = GPU, i = USER-INTEL, k = KOKKOS, o = USER-OMP, t = +OPT. + +.. table_from_list:: + :columns: 4 + + * :doc:`none ` + * :doc:`zero ` + * :doc:`hybrid ` + * + * + * + * + * + * :doc:`charmm (iko) ` + * :doc:`class2 (ko) ` + * :doc:`class2/p6 ` + * :doc:`cosine (ko) ` + * :doc:`cosine/buck6d ` + * :doc:`cosine/delta (o) ` + * :doc:`cosine/periodic (o) ` + * :doc:`cosine/shift (o) ` + * :doc:`cosine/shift/exp (o) ` + * :doc:`cosine/squared (o) ` + * :doc:`cross ` + * :doc:`dipole (o) ` + * :doc:`fourier (o) ` + * :doc:`fourier/simple (o) ` + * :doc:`harmonic (iko) ` + * :doc:`mm3 ` + * :doc:`quartic (o) ` + * :doc:`sdk (o) ` + * :doc:`table (o) ` + * + +--- + +.. _dihedral: + +dihedral_style potentials +========================= + +All LAMMPS :doc:`dihedral_style ` commands. Some styles +have accelerated versions. This is indicated by additional letters in +parenthesis: g = GPU, i = USER-INTEL, k = KOKKOS, o = USER-OMP, t = +OPT. + + +.. table_from_list:: + :columns: 4 + + * :doc:`none ` + * :doc:`zero ` + * :doc:`hybrid ` + * + * + * + * + * + * :doc:`charmm (iko) ` + * :doc:`charmmfsw ` + * :doc:`class2 (ko) ` + * :doc:`cosine/shift/exp (o) ` + * :doc:`fourier (io) ` + * :doc:`harmonic (iko) ` + * :doc:`helix (o) ` + * :doc:`multi/harmonic (o) ` + * :doc:`nharmonic (o) ` + * :doc:`opls (iko) ` + * :doc:`quadratic (o) ` + * :doc:`spherical ` + * :doc:`table (o) ` + * :doc:`table/cut ` + * + * + +.. _improper: + +improper_style potentials +========================= + +All LAMMPS :doc:`improper\_style ` commands. Some styles +have accelerated versions. This is indicated by additional letters in +parenthesis: g = GPU, i = USER-INTEL, k = KOKKOS, o = USER-OMP, t = +OPT. + +.. table_from_list:: + :columns: 4 + + * :doc:`none ` + * :doc:`zero ` + * :doc:`hybrid ` + * + * + * + * + * + * :doc:`class2 (ko) ` + * :doc:`cossq (o) ` + * :doc:`cvff (io) ` + * :doc:`distance ` + * :doc:`distharm ` + * :doc:`fourier (o) ` + * :doc:`harmonic (iko) ` + * :doc:`inversion/harmonic ` + * :doc:`ring (o) ` + * :doc:`sqdistharm ` + * :doc:`umbrella (o) ` + * diff --git a/doc/src/Commands_compute.rst b/doc/src/Commands_compute.rst index 1b3465eb53..a5093f1985 100644 --- a/doc/src/Commands_compute.rst +++ b/doc/src/Commands_compute.rst @@ -5,10 +5,10 @@ * :doc:`Fix styles ` * :doc:`Compute styles ` * :doc:`Pair styles ` - * :doc:`Bond styles ` - * :doc:`Angle styles ` - * :doc:`Dihedral styles ` - * :doc:`Improper styles ` + * :ref:`Bond styles ` + * :ref:`Angle styles ` + * :ref:`Dihedral styles ` + * :ref:`Improper styles ` * :doc:`KSpace styles ` Compute commands diff --git a/doc/src/Commands_dihedral.rst b/doc/src/Commands_dihedral.rst deleted file mode 100644 index 84ddb3d004..0000000000 --- a/doc/src/Commands_dihedral.rst +++ /dev/null @@ -1,51 +0,0 @@ -.. table_from_list:: - :columns: 3 - - * :doc:`General commands ` - * :doc:`Fix styles ` - * :doc:`Compute styles ` - * :doc:`Pair styles ` - * :doc:`Bond styles ` - * :doc:`Angle styles ` - * :doc:`Dihedral styles ` - * :doc:`Improper styles ` - * :doc:`KSpace styles ` - -.. _dihedral: - -Dihedral\_style potentials -========================== - -All LAMMPS :doc:`dihedral_style ` commands. Some styles -have accelerated versions. This is indicated by additional letters in -parenthesis: g = GPU, i = USER-INTEL, k = KOKKOS, o = USER-OMP, t = -OPT. - - -.. table_from_list:: - :columns: 4 - - * :doc:`none ` - * :doc:`zero ` - * :doc:`hybrid ` - * - * - * - * - * - * :doc:`charmm (iko) ` - * :doc:`charmmfsw ` - * :doc:`class2 (ko) ` - * :doc:`cosine/shift/exp (o) ` - * :doc:`fourier (io) ` - * :doc:`harmonic (iko) ` - * :doc:`helix (o) ` - * :doc:`multi/harmonic (o) ` - * :doc:`nharmonic (o) ` - * :doc:`opls (iko) ` - * :doc:`quadratic (o) ` - * :doc:`spherical ` - * :doc:`table (o) ` - * :doc:`table/cut ` - * - * diff --git a/doc/src/Commands_fix.rst b/doc/src/Commands_fix.rst index 11ae9a4a38..4cd9a4487c 100644 --- a/doc/src/Commands_fix.rst +++ b/doc/src/Commands_fix.rst @@ -5,10 +5,10 @@ * :doc:`Fix styles ` * :doc:`Compute styles ` * :doc:`Pair styles ` - * :doc:`Bond styles ` - * :doc:`Angle styles ` - * :doc:`Dihedral styles ` - * :doc:`Improper styles ` + * :ref:`Bond styles ` + * :ref:`Angle styles ` + * :ref:`Dihedral styles ` + * :ref:`Improper styles ` * :doc:`KSpace styles ` Fix commands diff --git a/doc/src/Commands_improper.rst b/doc/src/Commands_improper.rst deleted file mode 100644 index 7bbfa5b01b..0000000000 --- a/doc/src/Commands_improper.rst +++ /dev/null @@ -1,46 +0,0 @@ -.. table_from_list:: - :columns: 3 - - * :doc:`General commands ` - * :doc:`Fix styles ` - * :doc:`Compute styles ` - * :doc:`Pair styles ` - * :doc:`Bond styles ` - * :doc:`Angle styles ` - * :doc:`Dihedral styles ` - * :doc:`Improper styles ` - * :doc:`KSpace styles ` - -.. _improper: - -Improper\_style potentials -========================================= - -All LAMMPS :doc:`improper\_style ` commands. Some styles -have accelerated versions. This is indicated by additional letters in -parenthesis: g = GPU, i = USER-INTEL, k = KOKKOS, o = USER-OMP, t = -OPT. - -.. table_from_list:: - :columns: 4 - - * :doc:`none ` - * :doc:`zero ` - * :doc:`hybrid ` - * - * - * - * - * - * :doc:`class2 (ko) ` - * :doc:`cossq (o) ` - * :doc:`cvff (io) ` - * :doc:`distance ` - * :doc:`distharm ` - * :doc:`fourier (o) ` - * :doc:`harmonic (iko) ` - * :doc:`inversion/harmonic ` - * :doc:`ring (o) ` - * :doc:`sqdistharm ` - * :doc:`umbrella (o) ` - * diff --git a/doc/src/Commands_kspace.rst b/doc/src/Commands_kspace.rst index 62e97f1a6a..fc2418ecf7 100644 --- a/doc/src/Commands_kspace.rst +++ b/doc/src/Commands_kspace.rst @@ -5,10 +5,10 @@ * :doc:`Fix styles ` * :doc:`Compute styles ` * :doc:`Pair styles ` - * :doc:`Bond styles ` - * :doc:`Angle styles ` - * :doc:`Dihedral styles ` - * :doc:`Improper styles ` + * :ref:`Bond styles ` + * :ref:`Angle styles ` + * :ref:`Dihedral styles ` + * :ref:`Improper styles ` * :doc:`KSpace styles ` KSpace solvers diff --git a/doc/src/Commands_pair.rst b/doc/src/Commands_pair.rst index c65164c02d..b4371420a7 100644 --- a/doc/src/Commands_pair.rst +++ b/doc/src/Commands_pair.rst @@ -5,10 +5,10 @@ * :doc:`Fix styles ` * :doc:`Compute styles ` * :doc:`Pair styles ` - * :doc:`Bond styles ` - * :doc:`Angle styles ` - * :doc:`Dihedral styles ` - * :doc:`Improper styles ` + * :ref:`Bond styles ` + * :ref:`Angle styles ` + * :ref:`Dihedral styles ` + * :ref:`Improper styles ` * :doc:`KSpace styles ` Pair\_style potentials