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lammps/doc/src
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Axel Kohlmeyer 55a802afe3 Merge remote-tracking branch 'github/master' into collected-small-changes
2021-09-07 14:20:53 -04:00
..
_ext
make more compact
2020-09-06 06:10:39 -04:00
99
one more permission fix
2020-06-10 13:48:25 -04:00
2001
Fix typo
2020-03-14 13:57:48 +09:00
img
big update
2020-08-24 16:54:16 +02:00
JPG
update docs for change in class topology
2021-04-13 17:47:21 -04:00
PDF
Merge pull request #2924 from ohenrich/cg-dna
2021-09-07 14:12:07 -04:00
.gitignore
start more detailed CMake howto document
2020-04-11 11:55:13 -04:00
accel_styles.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
angle_charmm.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
angle_class2.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
angle_coeff.rst
Undo lost headers
2020-09-02 12:54:08 -04:00
angle_cosine_buck6d.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
angle_cosine_delta.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
angle_cosine_periodic.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
angle_cosine_shift_exp.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
angle_cosine_shift.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
angle_cosine_squared.rst
correct attribution of angle style cosine/squared with DREIDING
2021-03-22 11:28:22 -04:00
angle_cosine.rst
Update headers in angle_*.rst files
2020-09-02 12:43:48 -04:00
angle_cross.rst
fix up mistyped package names
2021-07-03 16:19:15 -04:00
angle_dipole.rst
move some styles around
2021-07-09 16:54:00 -04:00
angle_fourier_simple.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
angle_fourier.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
angle_gaussian.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
angle_harmonic.rst
Update headers in angle_*.rst files
2020-09-02 12:43:48 -04:00
angle_hybrid.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
angle_mm3.rst
fix up mistyped package names
2021-07-03 16:19:15 -04:00
angle_none.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
angle_quartic.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
angle_sdk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
angle_style.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
angle_table.rst
update to upstream
2021-05-21 16:15:31 -04:00
angle_zero.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
angles.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
atc_add_molecule.rst
final batch of converted AtC doc files
2020-03-19 15:36:45 -04:00
atc_add_species.rst
final batch of converted AtC doc files
2020-03-19 15:36:45 -04:00
atc_atom_element_map.rst
next batch of converted files
2020-03-19 14:39:00 -04:00
atc_atom_weight.rst
next batch of converted files
2020-03-19 14:39:00 -04:00
atc_atomic_charge.rst
final batch of converted AtC doc files
2020-03-19 15:36:45 -04:00
atc_boundary_dynamics.rst
final batch of converted AtC doc files
2020-03-19 15:36:45 -04:00
atc_boundary_faceset.rst
fix rst formatting issues
2020-03-19 15:48:46 -04:00
atc_boundary_type.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_consistent_fe_initialization.rst
final batch of converted AtC doc files
2020-03-19 15:36:45 -04:00
atc_control_localized_lambda.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_control_momentum.rst
big update
2020-08-24 16:54:16 +02:00
atc_control_thermal.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
atc_decomposition.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_electron_integration.rst
next chunk of converted html files
2020-03-16 07:34:56 -04:00
atc_equilibrium_start.rst
next chunk of converted html files
2020-03-16 07:34:56 -04:00
atc_extrinsic_exchange.rst
next chunk of converted html files
2020-03-16 07:34:56 -04:00
atc_fe_md_boundary.rst
next batch of converted files
2020-03-19 14:39:00 -04:00
atc_filter_scale.rst
next chunk of converted html files
2020-03-16 07:34:56 -04:00
atc_filter_type.rst
next chunk of converted html files
2020-03-16 07:34:56 -04:00
atc_fix_flux.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_fix.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_hardy_computes.rst
next chunk of converted atc doc files
2020-03-18 11:39:53 -04:00
atc_hardy_fields.rst
big update
2020-08-24 16:54:16 +02:00
atc_hardy_gradients.rst
big update
2020-08-24 16:54:16 +02:00
atc_hardy_kernel.rst
big update
2020-08-24 16:54:16 +02:00
atc_hardy_on_the_fly.rst
next batch of converted files
2020-03-19 14:39:00 -04:00
atc_hardy_rates.rst
big update
2020-08-24 16:54:16 +02:00
atc_initial.rst
next batch of converted files
2020-03-19 14:39:00 -04:00
atc_internal_element_set.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_internal_quadrature.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_kernel_bandwidth.rst
next batch of converted files
2020-03-19 14:39:00 -04:00
atc_lumped_lambda_solve.rst
next chunk of converted html files
2020-03-16 07:34:56 -04:00
atc_mask_direction.rst
next chunk of converted html files
2020-03-16 07:34:56 -04:00
atc_mass_matrix.rst
final batch of converted AtC doc files
2020-03-19 15:36:45 -04:00
atc_material.rst
final batch of converted AtC doc files
2020-03-19 15:36:45 -04:00
atc_mesh_add_to_nodeset.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_mesh_create_elementset.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_mesh_create_faceset_box.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_mesh_create_faceset_plane.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_mesh_create_nodeset.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_mesh_create.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_mesh_delete_elements.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_mesh_nodeset_to_elementset.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_mesh_output.rst
some more converted atc fix_modify docs
2020-03-18 06:29:17 -04:00
atc_mesh_quadrature.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_mesh_read.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_mesh_write.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_output_boundary_integral.rst
some more converted atc fix_modify docs
2020-03-18 06:29:17 -04:00
atc_output_contour_integral.rst
some more converted atc fix_modify docs
2020-03-18 06:29:17 -04:00
atc_output_nodeset.rst
some more converted atc fix_modify docs
2020-03-18 06:29:17 -04:00
atc_output_volume_integral.rst
some more converted atc fix_modify docs
2020-03-18 06:29:17 -04:00
atc_output.rst
Consistently use instead of
2020-11-10 14:04:49 +01:00
atc_pair_interactions.rst
next batch of converted files
2020-03-19 14:39:00 -04:00
atc_poisson_solver.rst
next chunk of converted html files
2020-03-16 07:34:56 -04:00
atc_read_restart.rst
some more converted atc fix_modify docs
2020-03-18 06:29:17 -04:00
atc_remove_molecule.rst
final batch of converted AtC doc files
2020-03-19 15:36:45 -04:00
atc_remove_source.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_remove_species.rst
big update
2020-08-24 16:54:16 +02:00
atc_reset_atomic_reference.rst
next batch of converted files
2020-03-19 14:39:00 -04:00
atc_reset_time.rst
next batch of converted files
2020-03-19 14:39:00 -04:00
atc_sample_frequency.rst
next batch of converted files
2020-03-19 14:39:00 -04:00
atc_set_reference_pe.rst
big update
2020-08-24 16:54:16 +02:00
atc_source_integration.rst
final batch of converted AtC doc files
2020-03-19 15:36:45 -04:00
atc_source.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_temperature_definition.rst
final batch of converted AtC doc files
2020-03-19 15:36:45 -04:00
atc_time_filter.rst
next chunk of converted html files
2020-03-16 07:34:56 -04:00
atc_time_integration.rst
big update
2020-08-24 16:54:16 +02:00
atc_track_displacement.rst
final batch of converted AtC doc files
2020-03-19 15:36:45 -04:00
atc_unfix_flux.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_unfix.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
2020-03-13 11:06:11 -04:00
atc_write_atom_weights.rst
next batch of converted files
2020-03-19 14:39:00 -04:00
atc_write_restart.rst
some more converted atc fix_modify docs
2020-03-18 06:29:17 -04:00
atom_modify.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
atom_style.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
balance.rst
resolved merge conflicts with master
2021-08-17 11:55:33 -06:00
Bibliography.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
bond_class2.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
bond_coeff.rst
big update
2020-08-24 16:54:16 +02:00
bond_fene_expand.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
bond_fene.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
bond_gaussian.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
bond_gromos.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
bond_harmonic_shift_cut.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
bond_harmonic_shift.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
bond_harmonic.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
bond_hybrid.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
bond_mm3.rst
fix up mistyped package names
2021-07-03 16:19:15 -04:00
bond_morse.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
bond_none.rst
big update
2020-08-24 16:54:16 +02:00
bond_nonlinear.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
bond_oxdna.rst
Merge pull request #2924 from ohenrich/cg-dna
2021-09-07 14:12:07 -04:00
bond_quartic.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
bond_special.rst
move some styles around
2021-07-09 16:54:00 -04:00
bond_style.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
bond_table.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
bond_write.rst
big update
2020-08-24 16:54:16 +02:00
bond_zero.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
bonds.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
boundary.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
box.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Build_basics.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
Build_cmake.rst
rename "minimal" preset to "basic"
2021-06-30 20:39:17 -04:00
Build_development.rst
workaround style checker issue
2021-08-23 22:16:39 -04:00
Build_diskspace.rst
use MBytes consistently
2021-08-26 01:00:08 -04:00
Build_extras.rst
add support for automatically downloading and building libquip
2021-07-20 16:00:42 -04:00
Build_link.rst
update/correct documentation for changes to the STUBS library and its implications
2021-02-17 15:19:24 -05:00
Build_make.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
Build_manual.rst
correct quoted screen output
2021-07-25 21:18:52 -04:00
Build_package.rst
rename "minimal" preset to "basic"
2021-06-30 20:39:17 -04:00
Build_settings.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
Build_windows.rst
tweak
2020-10-14 23:59:06 -04:00
Build.rst
notes on reducing disk space requirements when building LAMMPS from source
2021-08-25 22:51:21 -04:00
change_box.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Classes_atom.rst
mass renaming of programmer guide files
2020-09-25 13:59:29 -04:00
Classes_input.rst
mass renaming of programmer guide files
2020-09-25 13:59:29 -04:00
Classes_lammps.rst
mass renaming of programmer guide files
2020-09-25 13:59:29 -04:00
Classes.rst
update header texts
2020-10-14 23:28:28 -04:00
clear.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
comm_modify.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
comm_style.rst
big update
2020-08-24 16:54:16 +02:00
Commands_all.rst
Use "mdi/engine" consistenty, complete integration in manual, spelling
2021-05-13 09:57:08 -04:00
Commands_bond.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
Commands_category.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Commands_compute.rst
Updated documentation to include Kokkos accelerated NEMD styles.
2021-08-18 15:23:46 +10:00
Commands_fix.rst
integrate fix ttm/grid properly into the documentation
2021-08-31 16:20:21 -04:00
Commands_input.rst
add -skiprun command line flag that sets a timeout so that run and minimizations loops are skipped
2021-09-03 11:21:42 -04:00
Commands_kspace.rst
make ewald/disp/dipole an alias for ewald/disp for more obvious choices for users
2021-08-21 15:56:46 -04:00
commands_list.rst
Use "mdi/engine" consistenty, complete integration in manual, spelling
2021-05-13 09:57:08 -04:00
Commands_pair.rst
add documentation for pair style coul/exclude
2021-08-19 05:25:36 -04:00
Commands_parse.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Commands_removed.rst
rename USER-REAXC to REAXFF
2021-06-29 19:37:55 -04:00
Commands_structure.rst
remove trailing whitespace from documentation sources
2020-03-10 15:51:06 -04:00
Commands.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
compute_ackland_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_adf.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_angle_local.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_angle.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_angmom_chunk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_basal_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_body_local.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_bond_local.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_bond.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_centro_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_chunk_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_chunk_spread_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_cluster_atom.rst
move some more computes from EXTRA-COMPUTE back to src because of dependencies
2021-07-27 12:07:27 -04:00
compute_cna_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_cnp_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_com_chunk.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
compute_com.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
compute_contact_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_coord_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_damage_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_dihedral_local.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_dihedral.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_dilatation_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_dipole_chunk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_dipole.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_displace_atom.rst
doc page updates for energy contributions of thermostat and non-thermostat fixes
2021-01-26 08:51:47 -07:00
compute_dpd_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_dpd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_edpd_temp_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_efield_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_entropy_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_erotate_asphere.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_erotate_rigid.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_erotate_sphere_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_erotate_sphere.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_event_displace.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_fabric.rst
Updating documentation, adding compute scalar
2021-06-22 14:14:25 -06:00
compute_fep.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_global_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_group_group.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_gyration_chunk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_gyration_shape_chunk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_gyration_shape.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_gyration.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_heat_flux.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_hexorder_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_hma.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_improper_local.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_improper.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_inertia_chunk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_ke_atom_eff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_ke_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_ke_eff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_ke_rigid.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_ke.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
compute_mesont.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_mliap.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_modify.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_momentum.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_msd_chunk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_msd_nongauss.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_msd.rst
big update
2020-08-24 16:54:16 +02:00
compute_omega_chunk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_orientorder_atom.rst
move compute orientorder/atom because compute coord/atom depends on it
2021-07-27 11:16:40 -04:00
compute_pair_local.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_pair.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_pe_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_pe.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
compute_plasticity_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_pressure_cylinder.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_pressure_uef.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_pressure.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_property_atom.rst
whitespace fixes
2021-08-18 13:06:00 -04:00
compute_property_chunk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_property_local.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_ptm_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_rdf.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_reduce_chunk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_reduce.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_rigid_local.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_saed.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_slice.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_contact_radius.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_damage.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_hourglass_error.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_internal_energy.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_plastic_strain_rate.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_plastic_strain.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_rho.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_tlsph_defgrad.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_tlsph_dt.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_tlsph_num_neighs.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_tlsph_shape.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_tlsph_strain_rate.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_tlsph_strain.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_tlsph_stress.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_triangle_vertices.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_ulsph_effm.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_ulsph_num_neighs.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_ulsph_strain_rate.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_ulsph_strain.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_ulsph_stress.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_smd_vol.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_sna_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_sph_e_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_sph_rho_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_sph_t_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_spin.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_stress_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_stress_mop.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_tally.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_tdpd_cc_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_asphere.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_body.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_chunk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_com.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_cs.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_deform_eff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_deform.rst
Updated documentation to include Kokkos accelerated NEMD styles.
2021-08-18 15:23:46 +10:00
compute_temp_drude.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_eff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_partial.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_profile.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_ramp.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_region_eff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_region.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_rotate.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_sphere.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp_uef.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_temp.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_ti.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_torque_chunk.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
compute_vacf.rst
big update
2020-08-24 16:54:16 +02:00
compute_vcm_chunk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_viscosity_cos.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_voronoi_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute_xrd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
compute.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
computes.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
Cplusplus.rst
mass renaming of programmer guide files
2020-09-25 13:59:29 -04:00
create_atoms.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
create_bonds.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
create_box.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
delete_atoms.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
delete_bonds.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Developer_flow.rst
Use User's Guide and Programmer's Guide. Normalize header level formatting
2020-10-12 23:31:03 -04:00
Developer_notes.rst
address a whole bunch of spelling issues that suddenly popped up.
2021-02-09 12:38:46 -05:00
Developer_org.rst
get rid of references to USER-MISC in the general discussion
2021-07-25 10:03:16 -04:00
Developer_plugins.rst
take advantage of having the common Command base class to unify code paths
2021-04-14 07:05:00 -04:00
Developer_unittest.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
Developer_utils.rst
include utils::binary_search in docs
2021-09-06 18:16:07 -04:00
Developer_write.rst
Fix omitted word typo
2021-06-18 11:17:37 +01:00
Developer.rst
add preliminary documentation for plugin command and about how to write plugins
2021-03-11 19:33:07 -05:00
dielectric.rst
convert all remaining compute styles to use code-block instead of parsed literal
2020-03-12 01:56:13 -04:00
dihedral_charmm.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
dihedral_class2.rst
Update headers in dihedral_*.rst files
2020-09-02 12:57:44 -04:00
dihedral_coeff.rst
big update
2020-08-24 16:54:16 +02:00
dihedral_cosine_shift_exp.rst
move some styles around
2021-07-09 16:54:00 -04:00
dihedral_fourier.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
dihedral_harmonic.rst
Update headers in dihedral_*.rst files
2020-09-02 12:57:44 -04:00
dihedral_helix.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
dihedral_hybrid.rst
update docs for hybrid style updates
2021-08-02 21:53:31 -04:00
dihedral_multi_harmonic.rst
Update headers in dihedral_*.rst files
2020-09-02 12:57:44 -04:00
dihedral_nharmonic.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
dihedral_none.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
dihedral_opls.rst
Update headers in dihedral_*.rst files
2020-09-02 12:57:44 -04:00
dihedral_quadratic.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
dihedral_spherical.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
dihedral_style.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
dihedral_table.rst
correct package designations for styles in the EXTRA-MOLECULES package
2021-08-22 11:27:48 -04:00
dihedral_zero.rst
Update headers in dihedral_*.rst files
2020-09-02 12:57:44 -04:00
dihedrals.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
dimension.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
displace_atoms.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
dump_adios.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
dump_cfg_uef.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
dump_h5md.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
dump_image.rst
Merge branch 'master' into collected-small-changes
2021-07-27 11:15:00 -04:00
dump_modify.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
dump_molfile.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
dump_netcdf.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
dump_vtk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
dump.rst
fix doc formatting issues
2021-08-19 16:53:03 -04:00
dynamical_matrix.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
echo.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
Errors_bugs.rst
get rid of references to USER-MISC in the general discussion
2021-07-25 10:03:16 -04:00
Errors_common.rst
update URLs in source code and manual
2021-05-24 14:18:20 -04:00
Errors_debug.rst
big update
2020-08-24 16:54:16 +02:00
Errors_messages.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Errors_warnings.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Errors.rst
recover building the manual
2021-06-29 21:49:21 -04:00
Examples.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_accelerate_cos.rst
update references to USER-MISC package
2021-07-25 10:42:35 -04:00
fix_adapt_fep.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_adapt.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_addforce.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_addtorque.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_append_atoms.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_atc.rst
update docs for renames examples folders
2021-06-29 11:31:57 -04:00
fix_atom_swap.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_ave_atom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_ave_chunk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_ave_correlate_long.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_ave_correlate.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_ave_histo.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_ave_time.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_aveforce.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_balance.rst
Merge branch 'master' into collected-small-changes
2021-07-27 11:15:00 -04:00
fix_bocs.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_bond_break.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_bond_create.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_bond_react.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_bond_swap.rst
Correct fix bond/swap doc page
2021-09-02 14:10:43 -04:00
fix_box_relax.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_brownian.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
fix_charge_regulation.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_client_md.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_cmap.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_colvars.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_controller.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_deform.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_deposit.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_dpd_energy.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_dpd_source.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_drag.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_drude_transform.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_drude.rst
update docs for renames examples folders
2021-06-29 11:31:57 -04:00
fix_dt_reset.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_efield.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_ehex.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_electron_stopping.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_enforce2d.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_eos_cv.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_eos_table_rx.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_eos_table.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_evaporate.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_external.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_ffl.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_filter_corotate.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_flow_gauss.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_freeze.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_gcmc.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_gld.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_gle.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_gravity.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_grem.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_halt.rst
use MBytes consistently
2021-08-26 01:00:08 -04:00
fix_heat.rst
big update
2020-08-24 16:54:16 +02:00
fix_hyper_global.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_hyper_local.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_imd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_indent.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_ipi.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_langevin_drude.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_langevin_eff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_langevin_spin.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_langevin.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_latte.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_lb_fluid.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_lb_momentum.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_lb_pc.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_lb_rigid_pc_sphere.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_lb_viscous.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_lineforce.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_manifoldforce.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_mdi_engine.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_meso_move.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_modify_atc_commands.rst
Convert a first set of AtC documentation html files to rst and add infrastructure files and links
2020-03-12 14:26:04 -04:00
fix_modify.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_momentum.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_move.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_mscg.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_msst.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_mvv_dpd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_neb_spin.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_neb.rst
Merge branch 'master' into collected-small-changes
2021-07-27 11:15:00 -04:00
fix_nh_eff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nh_uef.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nh.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nph_asphere.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nph_body.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nph_sphere.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nphug.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_npt_asphere.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_npt_body.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_npt_cauchy.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_npt_sphere.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_numdiff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nve_asphere_noforce.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nve_asphere.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nve_awpmd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nve_body.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nve_dot.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nve_dotc_langevin.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nve_eff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nve_limit.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_nve_line.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nve_manifold_rattle.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nve_noforce.rst
move back to src for dependencies
2021-07-27 15:53:35 -04:00
fix_nve_sphere.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_nve_spin.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nve_tri.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nve.rst
clarify fix nve impact
2021-07-04 19:21:09 -04:00
fix_nvk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nvt_asphere.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nvt_body.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nvt_manifold_rattle.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nvt_sllod_eff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_nvt_sllod.rst
Updated documentation to include Kokkos accelerated NEMD styles.
2021-08-18 15:23:46 +10:00
fix_nvt_sphere.rst
doc page updates for energy contributions of thermostat and non-thermostat fixes
2021-01-26 08:51:47 -07:00
fix_oneway.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_orient_eco.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_orient.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_pafi.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_pair_tracker.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_phonon.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_pimd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_planeforce.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_plumed.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_poems.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_polarize.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_pour.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_precession_spin.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_press_berendsen.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_print.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_propel_self.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_property_atom.rst
address spellcheck issues
2021-08-19 17:00:46 -04:00
fix_python_invoke.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_python_move.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_qbmsst.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_qeq_comb.rst
general rename of files, styles, and keywords from "reax/c", "reax", or "reaxc" to "reaxff"
2021-07-21 21:52:25 -04:00
fix_qeq_reaxff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_qeq.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_qmmm.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_qtb.rst
use MBytes consistently
2021-08-26 01:00:08 -04:00
fix_reaxff_bonds.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_reaxff_species.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_recenter.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_restrain.rst
doc page updates for energy contributions of thermostat and non-thermostat fixes
2021-01-26 08:51:47 -07:00
fix_rhok.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_rigid_meso.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_rigid.rst
resolved merge conflicts with master
2021-08-17 11:55:33 -06:00
fix_rx.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_saed_vtk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_setforce.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_shake.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_shardlow.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_smd_adjust_dt.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_smd_integrate_tlsph.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_smd_integrate_ulsph.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_smd_move_triangulated_surface.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_smd_setvel.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_smd_wall_surface.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_smd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_sph_stationary.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_sph.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_spring_chunk.rst
doc page updates for energy contributions of thermostat and non-thermostat fixes
2021-01-26 08:51:47 -07:00
fix_spring_rg.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_spring_self.rst
doc page updates for energy contributions of thermostat and non-thermostat fixes
2021-01-26 08:51:47 -07:00
fix_spring.rst
doc page updates for energy contributions of thermostat and non-thermostat fixes
2021-01-26 08:51:47 -07:00
fix_srd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_store_force.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_store_state.rst
resolved merge conflicts with master
2021-08-17 11:55:33 -06:00
fix_temp_berendsen.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_temp_csvr.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_temp_rescale_eff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_temp_rescale.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_tfmc.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_tgnh_drude.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_thermal_conductivity.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_ti_spring.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_tmd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_ttm.rst
integrate fix ttm/grid properly into the documentation
2021-08-31 16:20:21 -04:00
fix_tune_kspace.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_vector.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_viscosity.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_viscous.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_wall_body_polygon.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_wall_body_polyhedron.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_wall_ees.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_wall_gran_region.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_wall_gran.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_wall_piston.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_wall_reflect_stochastic.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_wall_reflect.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_wall_region.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_wall_srd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_wall.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix_widom.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
fix.rst
integrate fix ttm/grid properly into the documentation
2021-08-31 16:20:21 -04:00
fixes.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
Fortran.rst
mention example using the new Fortran module in examples/COUPLE/simple
2020-10-14 23:29:03 -04:00
group2ndx.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
group.rst
resolved merge conflicts with master
2021-08-17 11:55:33 -06:00
Howto_2d.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Howto_barostat.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_bioFF.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_body.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_chunk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_client_server.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_cmake.rst
get rid of references to USER-MISC in the general discussion
2021-07-25 10:03:16 -04:00
Howto_coreshell.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_couple.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_diffusion.rst
delete superfluous horizontal line plus preceding empty lines at the end of doc files
2020-01-31 14:06:14 -05:00
Howto_dispersion.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Howto_drude2.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_drude.rst
Update docs for TGNH
2020-11-14 17:08:26 +01:00
Howto_elastic.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Howto_github.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_granular.rst
whitespace
2021-06-10 23:16:44 -04:00
Howto_kappa.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_library.rst
rename sections to User Guide and Programmer Guide
2020-10-15 12:00:36 -04:00
Howto_manifold.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_mdi.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_multiple.rst
big update
2020-08-24 16:54:16 +02:00
Howto_nemd.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
Howto_output.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_polarizable.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
Howto_pylammps.rst
Update docs
2020-12-17 11:57:40 -05:00
Howto_replica.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_restart.rst
big update
2020-08-24 16:54:16 +02:00
Howto_spc.rst
typeset symbols in water model howtos
2020-03-10 16:20:52 -04:00
Howto_spherical.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Howto_spins.rst
Commit before pull
2021-03-30 10:35:25 -06:00
Howto_structured_data.rst
apply spelling fixes and update formatting a little
2021-08-31 16:17:03 -04:00
Howto_temperature.rst
delete empty lines at the end of files
2020-01-31 14:03:52 -05:00
Howto_thermostat.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_tip3p.rst
typeset symbols in water model howtos
2020-03-10 16:20:52 -04:00
Howto_tip4p.rst
big update
2020-08-24 16:54:16 +02:00
Howto_triclinic.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_viscosity.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_viz.rst
Merge branch 'master' into collected-small-changes
2021-07-27 11:15:00 -04:00
Howto_walls.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Howto_wsl.rst
rename "minimal" preset to "basic"
2021-06-30 20:39:17 -04:00
Howto.rst
Add section about how to output YAML or JSON
2021-08-31 11:28:13 -04:00
hyper.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
if.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
improper_class2.rst
Update headers in improper_*.rst files
2020-09-02 13:03:03 -04:00
improper_coeff.rst
big update
2020-08-24 16:54:16 +02:00
improper_cossq.rst
move some styles around
2021-07-09 16:54:00 -04:00
improper_cvff.rst
Update headers in improper_*.rst files
2020-09-02 13:03:03 -04:00
improper_distance.rst
move some styles around
2021-07-09 16:54:00 -04:00
improper_distharm.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
improper_fourier.rst
move some styles around
2021-07-09 16:54:00 -04:00
improper_harmonic.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
improper_hybrid.rst
update docs for hybrid style updates
2021-08-02 21:53:31 -04:00
improper_inversion_harmonic.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
improper_none.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
improper_ring.rst
move some styles around
2021-07-09 16:54:00 -04:00
improper_sqdistharm.rst
move some styles around
2021-07-09 16:54:00 -04:00
improper_style.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
improper_umbrella.rst
Update headers in improper_*.rst files
2020-09-02 13:03:03 -04:00
improper_zero.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
impropers.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
include.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
info.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Install_conda.rst
Use User's Guide and Programmer's Guide. Normalize header level formatting
2020-10-12 23:31:03 -04:00
Install_git.rst
update installation instructions and remove references to patches which we don't provide anymore
2021-06-30 14:54:58 -04:00
Install_linux.rst
Use User's Guide and Programmer's Guide. Normalize header level formatting
2020-10-12 23:31:03 -04:00
Install_mac.rst
Use User's Guide and Programmer's Guide. Normalize header level formatting
2020-10-12 23:31:03 -04:00
Install_tarball.rst
update installation instructions and remove references to patches which we don't provide anymore
2021-06-30 14:54:58 -04:00
Install_windows.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
Install.rst
update installation instructions and remove references to patches which we don't provide anymore
2021-06-30 14:54:58 -04:00
Intro_authors.rst
some updates to authors list
2021-08-23 23:24:06 -04:00
Intro_citing.rst
update URLs in source code and manual
2021-05-24 14:18:20 -04:00
Intro_features.rst
whitespace
2021-08-26 01:05:25 -04:00
Intro_nonfeatures.rst
Merge branch 'master' into collected-small-changes
2021-07-27 11:15:00 -04:00
Intro_opensource.rst
clarify license terms description and reduce redundancy. mention LGPL verison
2021-08-23 23:24:47 -04:00
Intro_overview.rst
update overview text
2021-08-24 23:02:49 -04:00
Intro_website.rst
get rid of references to USER-MISC in the general discussion
2021-07-25 10:03:16 -04:00
Intro.rst
Use User's Guide and Programmer's Guide. Normalize header level formatting
2020-10-12 23:31:03 -04:00
jump.rst
big update
2020-08-24 16:54:16 +02:00
kim_commands.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
kspace_modify.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
kspace_style.rst
make ewald/disp/dipole an alias for ewald/disp for more obvious choices for users
2021-08-21 15:56:46 -04:00
label.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
lattice.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Library_add.rst
update section headlines
2020-10-08 10:32:02 -04:00
Library_atoms.rst
update titles as suggested by steve and move a few entries around
2020-10-07 20:07:30 -04:00
Library_config.rst
add GPU device query functions to library interface and its wrappers
2021-05-11 14:59:49 -04:00
Library_create.rst
treat Py_Finalize() more like MPI_Finalize()
2021-09-04 13:53:51 -04:00
Library_execute.rst
add comment to explain using the LAMMPS_LIB_MPI define in example
2020-10-09 11:50:53 -04:00
Library_neighbor.rst
update titles as suggested by steve and move a few entries around
2020-10-07 20:07:30 -04:00
Library_objects.rst
update section headlines
2020-10-08 10:32:02 -04:00
Library_properties.rst
update titles as suggested by steve and move a few entries around
2020-10-07 20:07:30 -04:00
Library_scatter.rst
add python interface with optional numpy support for lammps_gather_bonds()
2021-07-26 22:40:21 -04:00
Library_utility.rst
add support for set_vector for fix external in c-library, python and unittest
2021-07-16 23:41:25 -04:00
Library.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
log.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Manual_version.rst
spelling issues
2021-08-24 23:48:17 -04:00
Manual.rst
correct indentation
2021-06-21 09:45:35 -04:00
mass.rst
big update
2020-08-24 16:54:16 +02:00
mdi_engine.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
message.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
min_modify.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
min_spin.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
min_style.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
minimize.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Modify_atom.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Modify_body.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Modify_bond.rst
clarify tasks for single() for Bond and Angle classes
2020-10-16 10:48:00 -04:00
Modify_command.rst
update docs for change in class topology
2021-04-13 17:47:21 -04:00
Modify_compute.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
Modify_contribute.rst
spelling
2021-07-25 20:28:14 -04:00
Modify_dump.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Modify_fix.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Modify_kspace.rst
big update
2020-08-24 16:54:16 +02:00
Modify_min.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Modify_overview.rst
fix incorrectly formatted "notes"
2020-10-07 18:35:05 -04:00
Modify_pair.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Modify_region.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Modify_thermo.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Modify_variable.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
Modify.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
molecule.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
neb_spin.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
neb.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
neigh_modify.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
neighbor.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
newton.rst
big update
2020-08-24 16:54:16 +02:00
next.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
package.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Packages_details.rst
document hard package dependencies
2021-07-27 18:21:22 -04:00
Packages_list.rst
update package list and details for newly created packages and removed USER-MISC
2021-07-24 21:01:19 -04:00
Packages.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_adp.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_agni.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_airebo.rst
add a comment explaining the restriction to C and H elements in AIREBO/REBO
2021-08-27 10:02:53 -04:00
pair_atm.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_awpmd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_beck.rst
forgot to move pair style beck to EXTRA-PAIR
2021-07-28 18:33:33 -04:00
pair_body_nparticle.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_body_rounded_polygon.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_body_rounded_polyhedron.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_bop.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_born.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_brownian.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_buck6d_coul_gauss.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_buck_long.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_buck.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_charmm.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_class2.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_coeff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_colloid.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_comb.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_cosine_squared.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_coul_diel.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_coul_shield.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_coul_slater.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_coul_tt.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_coul.rst
add documentation for pair style coul/exclude
2021-08-19 05:25:36 -04:00
pair_cs.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_dielectric.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_dipole.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_dpd_ext.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_dpd_fdt.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_dpd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_drip.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_dsmc.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_e3b.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_eam.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_edip.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_eff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_eim.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_exp6_rx.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_extep.rst
big update
2020-08-24 16:54:16 +02:00
pair_fep_soft.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_gauss.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_gayberne.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_gran.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_granular.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_gromacs.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_gw.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_hbond_dreiding.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_hdnnp.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_hybrid.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_ilp_graphene_hbn.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_kim.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_kolmogorov_crespi_full.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_kolmogorov_crespi_z.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lcbop.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lebedeva_z.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_line_lj.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_list.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lj96.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lj_cubic.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lj_cut_coul.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lj_cut_tip4p.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lj_expand.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lj_long.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lj_relres.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lj_smooth_linear.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lj_smooth.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lj_switch3_coulgauss_long.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lj.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_local_density.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lubricate.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_lubricateU.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_mdf.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_meam_spline.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_meam_sw_spline.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_meam.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_mesocnt.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_mesodpd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_mesont_tpm.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
pair_mgpt.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_mie.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_mliap.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_modify.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_momb.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_morse.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_multi_lucy_rx.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_multi_lucy.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_nb3b_harmonic.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_nm.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_none.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_oxdna2.rst
Merge pull request #2924 from ohenrich/cg-dna
2021-09-07 14:12:07 -04:00
pair_oxdna.rst
Merge pull request #2924 from ohenrich/cg-dna
2021-09-07 14:12:07 -04:00
pair_oxrna2.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_pace.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_peri.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_polymorphic.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_python.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_quip.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_rann.rst
pair style rann does not support per-atom stress or pair_modify nofdotr
2021-07-11 20:03:52 -04:00
pair_reaxff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_resquared.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_sdk.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_sdpd_taitwater_isothermal.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_smd_hertz.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_smd_tlsph.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_smd_triangulated_surface.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_smd_ulsph.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_smtbq.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_snap.rst
fix spelling error and reformat paragraph
2021-08-29 22:08:49 -04:00
pair_soft.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_sph_heatconduction.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_sph_idealgas.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_sph_lj.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_sph_rhosum.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_sph_taitwater_morris.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_sph_taitwater.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_spin_dipole.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_spin_dmi.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_spin_exchange.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_spin_magelec.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_spin_neel.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_srp.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_style.rst
add documentation for pair style coul/exclude
2021-08-19 05:25:36 -04:00
pair_sw.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_table_rx.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_table.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_tersoff_mod.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_tersoff_zbl.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_tersoff.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_thole.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_tracker.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_tri_lj.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_ufm.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_vashishta.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_wf_cut.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_write.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_yukawa_colloid.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_yukawa.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_zbl.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pair_zero.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
pairs.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
partition.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
plugin.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
prd.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
print.rst
more conversion of parsed-literal to code-block and a bunch of other issues
2020-03-12 08:11:10 -04:00
processors.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Python_atoms.rst
Fix docs after PR #2592
2021-02-15 13:19:25 -05:00
Python_call.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Python_config.rst
add documentation for added keyword and library interface functions
2021-01-12 20:11:38 -05:00
Python_create.rst
add lammps_kokos_finalize() support to various LAMMPS wrappers and document
2021-06-27 17:07:42 -04:00
Python_error.rst
make headers more compact
2020-10-16 02:43:20 -04:00
Python_examples.rst
update Pizza.py URLs
2021-07-25 21:04:26 -04:00
Python_execute.rst
Update Python_execute.rst
2020-10-16 18:22:29 -04:00
Python_ext.rst
Update docs
2020-12-17 11:57:40 -05:00
Python_formats.rst
Fix bug in AvgChunkReader and add docs
2021-02-25 16:56:19 -05:00
Python_head.rst
Fix bug in AvgChunkReader and add docs
2021-02-25 16:56:19 -05:00
Python_install.rst
rename "minimal" preset to "basic"
2021-06-30 20:39:17 -04:00
Python_launch.rst
Add missing code-block language
2020-10-16 18:22:29 -04:00
Python_module.rst
fix errors/typos in manual
2021-04-02 21:00:42 -04:00
Python_neighbor.rst
address spelling and manual processing issues
2021-04-03 11:11:18 -04:00
Python_objects.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Python_overview.rst
Update docs
2020-12-17 11:57:40 -05:00
Python_properties.rst
Update Python docs
2020-10-15 18:19:57 -04:00
Python_run.rst
Add extra space in Python_run.rst
2020-10-16 17:20:38 -04:00
Python_scatter.rst
Update Python docs
2020-10-15 18:19:57 -04:00
Python_trouble.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
python.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
quit.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
read_data.rst
clarified doc pages for fix property/atom and read_data
2021-08-19 11:34:25 -06:00
read_dump.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
read_restart.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
region.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
replicate.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
rerun.rst
allow for command-line setting of initial temp
2021-08-26 11:52:07 -06:00
reset_atom_ids.rst
big update
2020-08-24 16:54:16 +02:00
reset_mol_ids.rst
big update
2020-08-24 16:54:16 +02:00
reset_timestep.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
restart.rst
remove unneeded escapes from input examples
2020-09-28 07:52:38 -04:00
Run_basics.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Run_head.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
Run_options.rst
add -skiprun command line flag that sets a timeout so that run and minimizations loops are skipped
2021-09-03 11:21:42 -04:00
Run_output.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
run_style.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Run_windows.rst
rename USER-OMP to OPENMP
2021-06-29 17:48:22 -04:00
run.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
server_mc.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
server_md.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
server.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
set.rst
resolved merge conflicts with master
2021-08-17 11:55:33 -06:00
shell.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
special_bonds.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Speed_bench.rst
update URLs in source code and manual
2021-05-24 14:18:20 -04:00
Speed_compare.rst
bulk rename of remaining USER- packages
2021-06-29 20:12:59 -04:00
Speed_gpu.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Speed_intel.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Speed_kokkos.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Speed_measure.rst
a few more cosmetic changes
2020-09-04 11:50:02 -04:00
Speed_omp.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Speed_opt.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Speed_packages.rst
recover building the manual
2021-06-29 21:49:21 -04:00
Speed_tips.rst
delete empty lines at the end of files
2020-01-31 14:03:52 -05:00
Speed.rst
update URLs in source code and manual
2021-05-24 14:18:20 -04:00
suffix.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
tad.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
temper_grem.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
temper_npt.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
temper.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
thermo_modify.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
thermo_style.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
thermo.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
third_order.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
timer.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
timestep.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
Tools.rst
convert chain.f to fortran 90+ style free format file chain.f90
2021-08-25 18:38:08 -04:00
uncompute.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
undump.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
unfix.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
units.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
variable.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
velocity.rst
allow for command-line setting of initial temp
2021-08-26 11:52:07 -06:00
write_coeff.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
write_data.rst
fix up some more package designations and clean up some legacy formatting
2021-07-25 20:23:37 -04:00
write_dump.rst
Update docs for COMPRESS styles
2020-09-01 12:17:08 -04:00
write_restart.rst
document both, CMake and traditional procedure to enable MPIIO
2020-10-11 12:18:26 -04:00