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Merge branch 'post-patch-tweaks' into doc-styles-check

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Axel Kohlmeyer
2020-01-11 19:43:42 -05:00
parent 1d838dad19 05b68d9e0d
commit 4a58d356b0
5 changed files with 36 additions and 19 deletions
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8
doc/src/Commands_bond.rst
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@ -13,7 +13,7 @@
.. _bond: .. _bond:
bond_style potentials Bond_style potentials
===================== =====================
All LAMMPS :doc:`bond_style <bond_style>` commands. Some styles have All LAMMPS :doc:`bond_style <bond_style>` commands. Some styles have
@ -51,7 +51,7 @@ OPT.
.. _angle: .. _angle:
angle_style potentials Angle_style potentials
====================== ======================
All LAMMPS :doc:`angle_style <angle_style>` commands. Some styles have All LAMMPS :doc:`angle_style <angle_style>` commands. Some styles have
@ -93,7 +93,7 @@ OPT.
.. _dihedral: .. _dihedral:
dihedral_style potentials Dihedral_style potentials
========================= =========================
All LAMMPS :doc:`dihedral_style <dihedral_style>` commands. Some styles All LAMMPS :doc:`dihedral_style <dihedral_style>` commands. Some styles
@ -132,7 +132,7 @@ OPT.
.. _improper: .. _improper:
improper_style potentials Improper_style potentials
========================= =========================
All LAMMPS :doc:`improper\_style <improper_style>` commands. Some styles All LAMMPS :doc:`improper\_style <improper_style>` commands. Some styles

10
doc/src/Commands_kspace.rst
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@ -24,12 +24,16 @@ OPT.
* :doc:`ewald (o) <kspace_style>` * :doc:`ewald (o) <kspace_style>`
* :doc:`ewald/disp <kspace_style>` * :doc:`ewald/disp <kspace_style>`
* :doc:`ewald/dipole <kspace_style>`
* :doc:`ewald/dipole/spin <kspace_style>`
* :doc:`msm (o) <kspace_style>` * :doc:`msm (o) <kspace_style>`
* :doc:`msm/cg (o) <kspace_style>` * :doc:`msm/cg (o) <kspace_style>`
* :doc:`pppm (gok) <kspace_style>` * :doc:`pppm (giko) <kspace_style>`
* :doc:`pppm/cg (o) <kspace_style>` * :doc:`pppm/cg (o) <kspace_style>`
* :doc:`pppm/disp (i) <kspace_style>` * :doc:`pppm/dipole <kspace_style>`
* :doc:`pppm/disp/tip4p <kspace_style>` * :doc:`pppm/dipole/spin <kspace_style>`
* :doc:`pppm/disp (io) <kspace_style>`
* :doc:`pppm/disp/tip4p (o) <kspace_style>`
* :doc:`pppm/stagger <kspace_style>` * :doc:`pppm/stagger <kspace_style>`
* :doc:`pppm/tip4p (o) <kspace_style>` * :doc:`pppm/tip4p (o) <kspace_style>`
* :doc:`scafacos <kspace_style>` * :doc:`scafacos <kspace_style>`

8
doc/src/Commands_pair.rst
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@ -198,10 +198,17 @@ OPT.
* :doc:`oxdna2/hbond <pair_oxdna2>` * :doc:`oxdna2/hbond <pair_oxdna2>`
* :doc:`oxdna2/stk <pair_oxdna2>` * :doc:`oxdna2/stk <pair_oxdna2>`
* :doc:`oxdna2/xstk <pair_oxdna2>` * :doc:`oxdna2/xstk <pair_oxdna2>`
* :doc:`oxrna2/excv <pair_oxrna2>`
* :doc:`oxrna2/hbond <pair_oxrna2>`
* :doc:`oxrna2/dh <pair_oxrna2>`
* :doc:`oxrna2/stk <pair_oxrna2>`
* :doc:`oxrna2/xstk <pair_oxrna2>`
* :doc:`oxrna2/coaxstk <pair_oxrna2>`
* :doc:`peri/eps <pair_peri>` * :doc:`peri/eps <pair_peri>`
* :doc:`peri/lps (o) <pair_peri>` * :doc:`peri/lps (o) <pair_peri>`
* :doc:`peri/pmb (o) <pair_peri>` * :doc:`peri/pmb (o) <pair_peri>`
* :doc:`peri/ves <pair_peri>` * :doc:`peri/ves <pair_peri>`
* :doc:`polymorphic <pair_polymorphic>`
* :doc:`python <pair_python>` * :doc:`python <pair_python>`
* :doc:`quip <pair_quip>` * :doc:`quip <pair_quip>`
* :doc:`reax/c (ko) <pair_reaxc>` * :doc:`reax/c (ko) <pair_reaxc>`
@ -250,3 +257,4 @@ OPT.
* :doc:`yukawa/colloid (go) <pair_yukawa_colloid>` * :doc:`yukawa/colloid (go) <pair_yukawa_colloid>`
* :doc:`zbl (gko) <pair_zbl>` * :doc:`zbl (gko) <pair_zbl>`
* *
*

27
doc/src/kspace_style.rst
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@ -11,26 +11,30 @@ Syntax
kspace_style style value kspace_style style value
* style = *none* or *ewald* or *ewald/disp* or *ewald/omp* or *pppm* or *pppm/cg* or *pppm/disp* or *pppm/tip4p* or *pppm/stagger* or *pppm/disp/tip4p* or *pppm/gpu* or *pppm/kk* or *pppm/omp* or *pppm/cg/omp* or *pppm/tip4p/omp* or *msm* or *msm/cg* or *msm/omp* or *msm/cg/omp* or *scafacos* * style = *none* or *ewald* or *ewald/dipole* or *ewald/dipole/spin* or *ewald/disp* or *ewald/omp* or *pppm* or *pppm/cg* or *pppm/disp* or *pppm/tip4p* or *pppm/stagger* or *pppm/disp/tip4p* or *pppm/gpu* or *pppm/intel* or *pppm/disp/intel* or *pppm/kk* or *pppm/omp* or *pppm/cg/omp* or *pppm/disp/tip4p/omp* or *pppm/tip4p/omp* or *msm* or *msm/cg* or *msm/omp* or *msm/cg/omp* or *scafacos*
.. parsed-literal:: .. parsed-literal::
*none* value = none *none* value = none
*ewald* value = accuracy *ewald* value = accuracy
accuracy = desired relative error in forces accuracy = desired relative error in forces
*ewald/disp* value = accuracy
accuracy = desired relative error in forces
*ewald/omp* value = accuracy
accuracy = desired relative error in forces
*ewald/dipole* value = accuracy *ewald/dipole* value = accuracy
accuracy = desired relative error in forces accuracy = desired relative error in forces
*ewald/dipole/spin* value = accuracy *ewald/dipole/spin* value = accuracy
accuracy = desired relative error in forces accuracy = desired relative error in forces
*ewald/disp* value = accuracy
accuracy = desired relative error in forces
*ewald/omp* value = accuracy
accuracy = desired relative error in forces
*pppm* value = accuracy *pppm* value = accuracy
accuracy = desired relative error in forces accuracy = desired relative error in forces
*pppm/cg* values = accuracy (smallq) *pppm/cg* values = accuracy (smallq)
accuracy = desired relative error in forces accuracy = desired relative error in forces
smallq = cutoff for charges to be considered (optional) (charge units) smallq = cutoff for charges to be considered (optional) (charge units)
*pppm/dipole* value = accuracy
accuracy = desired relative error in forces
*pppm/dipole/spin* value = accuracy
accuracy = desired relative error in forces
*pppm/disp* value = accuracy *pppm/disp* value = accuracy
accuracy = desired relative error in forces accuracy = desired relative error in forces
*pppm/tip4p* value = accuracy *pppm/tip4p* value = accuracy
@ -41,22 +45,23 @@ Syntax
accuracy = desired relative error in forces accuracy = desired relative error in forces
*pppm/intel* value = accuracy *pppm/intel* value = accuracy
accuracy = desired relative error in forces accuracy = desired relative error in forces
*pppm/disp/intel* value = accuracy
accuracy = desired relative error in forces
*pppm/kk* value = accuracy *pppm/kk* value = accuracy
accuracy = desired relative error in forces accuracy = desired relative error in forces
*pppm/omp* value = accuracy *pppm/omp* value = accuracy
accuracy = desired relative error in forces accuracy = desired relative error in forces
*pppm/cg/omp* value = accuracy *pppm/cg/omp* values = accuracy (smallq)
accuracy = desired relative error in forces accuracy = desired relative error in forces
*pppm/disp/intel* value = accuracy smallq = cutoff for charges to be considered (optional) (charge units)
*pppm/disp/omp* value = accuracy
accuracy = desired relative error in forces accuracy = desired relative error in forces
*pppm/tip4p/omp* value = accuracy *pppm/tip4p/omp* value = accuracy
accuracy = desired relative error in forces accuracy = desired relative error in forces
*pppm/disp/tip4p/omp* value = accuracy
accuracy = desired relative error in forces
*pppm/stagger* value = accuracy *pppm/stagger* value = accuracy
accuracy = desired relative error in forces accuracy = desired relative error in forces
*pppm/dipole* value = accuracy
accuracy = desired relative error in forces
*pppm/dipole/spin* value = accuracy
accuracy = desired relative error in forces
*msm* value = accuracy *msm* value = accuracy
accuracy = desired relative error in forces accuracy = desired relative error in forces
*msm/cg* value = accuracy (smallq) *msm/cg* value = accuracy (smallq)

2
doc/src/pair_style.rst
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@ -245,7 +245,7 @@ accelerated styles exist.
* :doc:`meam/sw/spline <pair_meam_sw_spline>` - splined version of MEAM with a Stillinger-Weber term * :doc:`meam/sw/spline <pair_meam_sw_spline>` - splined version of MEAM with a Stillinger-Weber term
* :doc:`mgpt <pair_mgpt>` - simplified model generalized pseudopotential theory (MGPT) potential * :doc:`mgpt <pair_mgpt>` - simplified model generalized pseudopotential theory (MGPT) potential
* :doc:`mie/cut <pair_mie>` - Mie potential * :doc:`mie/cut <pair_mie>` - Mie potential
* :doc:`mm3/switch3/coulgauss/long <pair_mm3_switch3_coulgauss_long>`_ - smoothed MM3 vdW potential with Gaussian electrostatics * :doc:`mm3/switch3/coulgauss/long <pair_mm3_switch3_coulgauss_long>` - smoothed MM3 vdW potential with Gaussian electrostatics
* :doc:`momb <pair_momb>` - Many-Body Metal-Organic (MOMB) force field * :doc:`momb <pair_momb>` - Many-Body Metal-Organic (MOMB) force field
* :doc:`morse <pair_morse>` - Morse potential * :doc:`morse <pair_morse>` - Morse potential
* :doc:`morse/smooth/linear <pair_morse>` - linear smoothed Morse potential * :doc:`morse/smooth/linear <pair_morse>` - linear smoothed Morse potential