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e924fc6d6e3cce280c21848010867674cc1e967c
lammps/doc/src
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Axel Kohlmeyer e924fc6d6e Merge pull request #2347 from jewettaij/math_eigen 
Replace eigensolver code in LAMMPS with math_eigen.h and updated docs
2020-09-17 00:28:12 -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
Refactor changes to documentation build
2020-08-25 13:41:31 -04:00
PDF
Update Colvars to version 2020-07-07
2020-09-09 18:19:21 -04:00
.gitignore
start more detailed CMake howto document
2020-04-11 11:55:13 -04:00
accel_styles.rst
big update
2020-08-24 16:54:16 +02:00
angle_charmm.rst
Update headers in angle_*.rst files
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angle_class2.rst
Update headers in angle_*.rst files
2020-09-02 12:43:48 -04:00
angle_coeff.rst
Undo lost headers
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angle_cosine_buck6d.rst
convert remaining style doc sections to be a logical header
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angle_cosine_delta.rst
Update headers in angle_*.rst files
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angle_cosine_periodic.rst
Update headers in angle_*.rst files
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angle_cosine_shift_exp.rst
Update headers in angle_*.rst files
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angle_cosine_shift.rst
Update headers in angle_*.rst files
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angle_cosine_squared.rst
Update headers in angle_*.rst files
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angle_cosine.rst
Update headers in angle_*.rst files
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angle_cross.rst
Update headers in angle_*.rst files
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angle_dipole.rst
Update headers in angle_*.rst files
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angle_fourier_simple.rst
Update headers in angle_*.rst files
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angle_fourier.rst
Update headers in angle_*.rst files
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angle_harmonic.rst
Update headers in angle_*.rst files
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angle_hybrid.rst
convert remaining style doc sections to be a logical header
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angle_mm3.rst
big update
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angle_none.rst
convert remaining style doc sections to be a logical header
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angle_quartic.rst
Update headers in angle_*.rst files
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angle_sdk.rst
Update headers in angle_*.rst files
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angle_style.rst
Undo lost headers
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angle_table.rst
Update headers in angle_*.rst files
2020-09-02 12:43:48 -04:00
angle_zero.rst
convert remaining style doc sections to be a logical header
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angles.rst
collapse multiple empty lines into a single empty line
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atc_add_molecule.rst
final batch of converted AtC doc files
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atc_add_species.rst
final batch of converted AtC doc files
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atc_atom_element_map.rst
next batch of converted files
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atc_atom_weight.rst
next batch of converted files
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atc_atomic_charge.rst
final batch of converted AtC doc files
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atc_boundary_dynamics.rst
final batch of converted AtC doc files
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atc_boundary_faceset.rst
fix rst formatting issues
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atc_boundary_type.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_consistent_fe_initialization.rst
final batch of converted AtC doc files
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atc_control_localized_lambda.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_control_momentum.rst
big update
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atc_control_thermal.rst
big update
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atc_decomposition.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_electron_integration.rst
next chunk of converted html files
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atc_equilibrium_start.rst
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atc_extrinsic_exchange.rst
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atc_fe_md_boundary.rst
next batch of converted files
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atc_filter_scale.rst
next chunk of converted html files
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atc_filter_type.rst
next chunk of converted html files
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atc_fix_flux.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_fix.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_hardy_computes.rst
next chunk of converted atc doc files
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atc_hardy_fields.rst
big update
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atc_hardy_gradients.rst
big update
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atc_hardy_kernel.rst
big update
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atc_hardy_on_the_fly.rst
next batch of converted files
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atc_hardy_rates.rst
big update
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atc_initial.rst
next batch of converted files
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atc_internal_element_set.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_internal_quadrature.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_kernel_bandwidth.rst
next batch of converted files
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atc_lumped_lambda_solve.rst
next chunk of converted html files
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atc_mask_direction.rst
next chunk of converted html files
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atc_mass_matrix.rst
final batch of converted AtC doc files
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atc_material.rst
final batch of converted AtC doc files
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atc_mesh_add_to_nodeset.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_mesh_create_elementset.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_mesh_create_faceset_box.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_mesh_create_faceset_plane.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_mesh_create_nodeset.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_mesh_create.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_mesh_delete_elements.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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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
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atc_mesh_quadrature.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_mesh_read.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_mesh_write.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_output_boundary_integral.rst
some more converted atc fix_modify docs
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atc_output_contour_integral.rst
some more converted atc fix_modify docs
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atc_output_nodeset.rst
some more converted atc fix_modify docs
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atc_output_volume_integral.rst
some more converted atc fix_modify docs
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atc_output.rst
some more converted atc fix_modify docs
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atc_pair_interactions.rst
next batch of converted files
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atc_poisson_solver.rst
next chunk of converted html files
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atc_read_restart.rst
some more converted atc fix_modify docs
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atc_remove_molecule.rst
final batch of converted AtC doc files
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atc_remove_source.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_remove_species.rst
big update
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atc_reset_atomic_reference.rst
next batch of converted files
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atc_reset_time.rst
next batch of converted files
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atc_sample_frequency.rst
next batch of converted files
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atc_set_reference_pe.rst
big update
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atc_source_integration.rst
final batch of converted AtC doc files
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atc_source.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_temperature_definition.rst
final batch of converted AtC doc files
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atc_time_filter.rst
next chunk of converted html files
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atc_time_integration.rst
big update
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atc_track_displacement.rst
final batch of converted AtC doc files
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atc_unfix_flux.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_unfix.rst
add reference to the fix_modify command overview in fix atc docs into all atc subcommand docs
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atc_write_atom_weights.rst
next batch of converted files
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atc_write_restart.rst
some more converted atc fix_modify docs
2020-03-18 06:29:17 -04:00
atom_modify.rst
convert remaining style doc sections to be a logical header
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atom_style.rst
big update
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balance.rst
big update
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bond_class2.rst
Update headers in bond_*.rst files
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bond_coeff.rst
big update
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bond_fene_expand.rst
Update headers in bond_*.rst files
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bond_fene.rst
Update headers in bond_*.rst files
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bond_gromos.rst
Update headers in bond_*.rst files
2020-09-02 12:55:18 -04:00
bond_harmonic_shift_cut.rst
Update headers in bond_*.rst files
2020-09-02 12:55:18 -04:00
bond_harmonic_shift.rst
Update headers in bond_*.rst files
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bond_harmonic.rst
Update headers in bond_*.rst files
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bond_hybrid.rst
convert remaining style doc sections to be a logical header
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bond_mm3.rst
convert remaining style doc sections to be a logical header
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bond_morse.rst
Update headers in bond_*.rst files
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bond_none.rst
big update
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bond_nonlinear.rst
Update headers in bond_*.rst files
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bond_oxdna.rst
Update headers in bond_*.rst files
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bond_quartic.rst
Update headers in bond_*.rst files
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bond_special.rst
Update headers in bond_*.rst files
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bond_style.rst
big update
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bond_table.rst
Update headers in bond_*.rst files
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bond_write.rst
big update
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bond_zero.rst
convert remaining style doc sections to be a logical header
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bonds.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
boundary.rst
big update
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box.rst
big update
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Build_basics.rst
update/refactor a few more build documentation files for using tabs
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Build_cmake.rst
big update
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Build_development.rst
Merge branch 'master' into doc-updates
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Build_extras.rst
move test to avoid issues with indentation from having tabs follow directly a list-table
2020-09-10 16:16:58 -04:00
Build_link.rst
use tabs for CMake vs. GNU make in LAMMPS library linking page
2020-09-06 16:50:28 -04:00
Build_make.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Build_package.rst
update/refactor a few more build documentation files for using tabs
2020-09-08 11:40:21 -04:00
Build_settings.rst
fix typo
2020-09-11 17:49:06 -04:00
Build_windows.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Build.rst
update build overview
2020-04-11 22:20:35 -04:00
change_box.rst
document the image flag reset for switching boundaries
2020-04-27 10:51:53 -04:00
clear.rst
convert remaining style doc sections to be a logical header
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comm_modify.rst
replace '\_' with '_' in plain text where possible
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comm_style.rst
big update
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Commands_all.rst
big update
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Commands_bond.rst
big update
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Commands_category.rst
convert lists to tables for more compact presentation
2020-02-28 18:52:13 +01:00
Commands_compute.rst
big update
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Commands_fix.rst
final steps
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Commands_input.rst
big update
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Commands_kspace.rst
remove backslash escapes for underscore in doc references
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commands_list.rst
big update
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Commands_pair.rst
big update
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Commands_parse.rst
replace '\_' with '_' in plain text where possible
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Commands_removed.rst
first chunk of revised updates to the manual addressing link issues.
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Commands_structure.rst
remove trailing whitespace from documentation sources
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Commands.rst
collapse multiple empty lines into a single empty line
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compute_ackland_atom.rst
convert remaining style doc sections to be a logical header
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compute_adf.rst
big update
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compute_angle_local.rst
convert remaining style doc sections to be a logical header
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compute_angle.rst
convert remaining style doc sections to be a logical header
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compute_angmom_chunk.rst
convert remaining style doc sections to be a logical header
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compute_basal_atom.rst
convert remaining style doc sections to be a logical header
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compute_body_local.rst
convert remaining style doc sections to be a logical header
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compute_bond_local.rst
convert remaining style doc sections to be a logical header
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compute_bond.rst
convert remaining style doc sections to be a logical header
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compute_centro_atom.rst
convert remaining style doc sections to be a logical header
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compute_chunk_atom.rst
big update
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compute_chunk_spread_atom.rst
convert remaining style doc sections to be a logical header
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compute_cluster_atom.rst
Update headers in compute_*.rst files
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compute_cna_atom.rst
convert remaining style doc sections to be a logical header
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compute_cnp_atom.rst
convert remaining style doc sections to be a logical header
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compute_com_chunk.rst
convert remaining style doc sections to be a logical header
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compute_com.rst
convert remaining style doc sections to be a logical header
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compute_contact_atom.rst
convert remaining style doc sections to be a logical header
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compute_coord_atom.rst
Update headers in compute_*.rst files
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compute_damage_atom.rst
convert remaining style doc sections to be a logical header
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compute_dihedral_local.rst
convert remaining style doc sections to be a logical header
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compute_dihedral.rst
convert remaining style doc sections to be a logical header
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compute_dilatation_atom.rst
convert remaining style doc sections to be a logical header
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compute_dipole_chunk.rst
convert remaining style doc sections to be a logical header
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compute_displace_atom.rst
big update
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compute_dpd_atom.rst
convert remaining style doc sections to be a logical header
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compute_dpd.rst
convert remaining style doc sections to be a logical header
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compute_edpd_temp_atom.rst
convert remaining style doc sections to be a logical header
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compute_entropy_atom.rst
convert remaining style doc sections to be a logical header
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compute_erotate_asphere.rst
convert remaining style doc sections to be a logical header
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compute_erotate_rigid.rst
convert remaining style doc sections to be a logical header
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compute_erotate_sphere_atom.rst
convert remaining style doc sections to be a logical header
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compute_erotate_sphere.rst
convert remaining style doc sections to be a logical header
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compute_event_displace.rst
convert remaining style doc sections to be a logical header
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compute_fep.rst
big update
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compute_global_atom.rst
convert remaining style doc sections to be a logical header
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compute_group_group.rst
big update
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compute_gyration_chunk.rst
convert remaining style doc sections to be a logical header
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compute_gyration_shape_chunk.rst
big update
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compute_gyration_shape.rst
convert remaining style doc sections to be a logical header
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compute_gyration.rst
convert remaining style doc sections to be a logical header
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compute_heat_flux.rst
convert remaining style doc sections to be a logical header
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compute_hexorder_atom.rst
convert remaining style doc sections to be a logical header
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compute_hma.rst
convert remaining style doc sections to be a logical header
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compute_improper_local.rst
convert remaining style doc sections to be a logical header
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compute_improper.rst
convert remaining style doc sections to be a logical header
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compute_inertia_chunk.rst
convert remaining style doc sections to be a logical header
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compute_ke_atom_eff.rst
convert remaining style doc sections to be a logical header
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compute_ke_atom.rst
convert remaining style doc sections to be a logical header
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compute_ke_eff.rst
convert remaining style doc sections to be a logical header
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compute_ke_rigid.rst
convert remaining style doc sections to be a logical header
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compute_ke.rst
convert remaining style doc sections to be a logical header
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compute_mesont.rst
Update headers in compute_*.rst files
2020-09-02 12:56:24 -04:00
compute_mliap.rst
big update
2020-08-24 16:54:16 +02:00
compute_modify.rst
collapse multiple empty lines into a single empty line
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compute_momentum.rst
convert remaining style doc sections to be a logical header
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compute_msd_chunk.rst
big update
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compute_msd_nongauss.rst
big update
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compute_msd.rst
big update
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compute_omega_chunk.rst
convert remaining style doc sections to be a logical header
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compute_orientorder_atom.rst
Update headers in compute_*.rst files
2020-09-02 12:56:24 -04:00
compute_pair_local.rst
convert remaining style doc sections to be a logical header
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compute_pair.rst
convert remaining style doc sections to be a logical header
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compute_pe_atom.rst
convert remaining style doc sections to be a logical header
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compute_pe.rst
convert remaining style doc sections to be a logical header
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compute_plasticity_atom.rst
convert remaining style doc sections to be a logical header
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compute_pressure_cylinder.rst
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compute_pressure_uef.rst
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compute_pressure.rst
big update
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compute_property_atom.rst
final steps
2020-08-24 17:04:35 +02:00
compute_property_chunk.rst
big update
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compute_property_local.rst
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compute_ptm_atom.rst
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compute_rdf.rst
big update
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compute_reduce_chunk.rst
convert remaining style doc sections to be a logical header
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compute_reduce.rst
correct formatting of examples
2020-09-14 17:15:53 -04:00
compute_rigid_local.rst
convert remaining style doc sections to be a logical header
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compute_saed.rst
big update
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compute_slice.rst
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compute_smd_contact_radius.rst
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compute_smd_damage.rst
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compute_smd_hourglass_error.rst
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compute_smd_internal_energy.rst
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compute_smd_plastic_strain_rate.rst
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compute_smd_plastic_strain.rst
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compute_smd_rho.rst
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compute_smd_tlsph_defgrad.rst
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compute_smd_tlsph_dt.rst
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compute_smd_tlsph_num_neighs.rst
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compute_smd_tlsph_shape.rst
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compute_smd_tlsph_strain_rate.rst
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compute_smd_tlsph_strain.rst
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compute_smd_tlsph_stress.rst
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compute_smd_triangle_vertices.rst
convert remaining style doc sections to be a logical header
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compute_smd_ulsph_effm.rst
Update headers in compute_*.rst files
2020-09-02 12:56:24 -04:00
compute_smd_ulsph_num_neighs.rst
convert remaining style doc sections to be a logical header
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compute_smd_ulsph_strain_rate.rst
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compute_smd_ulsph_strain.rst
convert remaining style doc sections to be a logical header
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compute_smd_ulsph_stress.rst
convert remaining style doc sections to be a logical header
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compute_smd_vol.rst
convert remaining style doc sections to be a logical header
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compute_sna_atom.rst
Update headers in compute_*.rst files
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compute_sph_e_atom.rst
Update headers in compute_*.rst files
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compute_sph_rho_atom.rst
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2020-09-02 12:56:24 -04:00
compute_sph_t_atom.rst
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2020-09-02 12:56:24 -04:00
compute_spin.rst
convert remaining style doc sections to be a logical header
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compute_stress_atom.rst
Update headers in compute_*.rst files
2020-09-02 12:56:24 -04:00
compute_stress_mop.rst
correct formatting of examples
2020-09-14 17:15:53 -04:00
compute_tally.rst
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2020-09-02 12:56:24 -04:00
compute_tdpd_cc_atom.rst
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compute_temp_asphere.rst
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compute_temp_body.rst
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compute_temp_chunk.rst
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compute_temp_com.rst
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compute_temp_cs.rst
big update
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compute_temp_deform_eff.rst
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compute_temp_deform.rst
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compute_temp_drude.rst
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compute_temp_eff.rst
convert remaining style doc sections to be a logical header
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compute_temp_partial.rst
big update
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compute_temp_profile.rst
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compute_temp_ramp.rst
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compute_temp_region_eff.rst
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compute_temp_region.rst
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compute_temp_rotate.rst
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compute_temp_sphere.rst
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compute_temp_uef.rst
convert remaining style doc sections to be a logical header
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compute_temp.rst
Update headers in compute_*.rst files
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compute_ti.rst
big update
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compute_torque_chunk.rst
convert remaining style doc sections to be a logical header
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compute_vacf.rst
big update
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compute_vcm_chunk.rst
convert remaining style doc sections to be a logical header
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compute_viscosity_cos.rst
big update
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compute_voronoi_atom.rst
convert remaining style doc sections to be a logical header
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compute_xrd.rst
big update
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compute.rst
big update
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computes.rst
collapse multiple empty lines into a single empty line
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create_atoms.rst
big update
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create_bonds.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
create_box.rst
convert remaining style doc sections to be a logical header
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delete_atoms.rst
big update
2020-08-24 16:54:16 +02:00
delete_bonds.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
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
Update headers in dihedral_*.rst files
2020-09-02 12:57:44 -04:00
dihedral_class2.rst
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2020-09-02 12:57:44 -04:00
dihedral_coeff.rst
big update
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dihedral_cosine_shift_exp.rst
Update headers in dihedral_*.rst files
2020-09-02 12:57:44 -04:00
dihedral_fourier.rst
Update headers in dihedral_*.rst files
2020-09-02 12:57:44 -04:00
dihedral_harmonic.rst
Update headers in dihedral_*.rst files
2020-09-02 12:57:44 -04:00
dihedral_helix.rst
Update headers in dihedral_*.rst files
2020-09-02 12:57:44 -04:00
dihedral_hybrid.rst
convert remaining style doc sections to be a logical header
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dihedral_multi_harmonic.rst
Update headers in dihedral_*.rst files
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dihedral_nharmonic.rst
Update headers in dihedral_*.rst files
2020-09-02 12:57:44 -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
Update headers in dihedral_*.rst files
2020-09-02 12:57:44 -04:00
dihedral_spherical.rst
convert remaining style doc sections to be a logical header
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dihedral_style.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
dihedral_table_cut.rst
big update
2020-08-24 16:54:16 +02:00
dihedral_table.rst
Update headers in dihedral_*.rst files
2020-09-02 12:57:44 -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
convert all remaining compute styles to use code-block instead of parsed literal
2020-03-12 01:56:13 -04:00
displace_atoms.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
dump_adios.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
dump_cfg_uef.rst
convert remaining style doc sections to be a logical header
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dump_h5md.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
dump_image.rst
big update
2020-08-24 16:54:16 +02:00
dump_modify.rst
Update docs for COMPRESS styles
2020-09-01 12:17:08 -04:00
dump_molfile.rst
more conversion of parsed-literal to code-block and a bunch of other issues
2020-03-12 08:11:10 -04:00
dump_netcdf.rst
more conversion of parsed-literal to code-block and a bunch of other issues
2020-03-12 08:11:10 -04:00
dump_vtk.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
dump.rst
fix for zstd support. add styles to list at top and document .zst extension requirement
2020-09-14 17:07:09 -04:00
dynamical_matrix.rst
big update
2020-08-24 16:54:16 +02:00
echo.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
Errors_bugs.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Errors_common.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Errors_debug.rst
big update
2020-08-24 16:54:16 +02:00
Errors_messages.rst
Merge branch 'master' of github.com:tomswinburne/lammps
2020-09-01 11:12:29 +02:00
Errors_warnings.rst
big update
2020-08-24 16:54:16 +02:00
Errors.rst
provide info about including debug support in executable and a stack trace debug tutorial
2020-04-12 15:34:00 -04:00
Examples.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
fix_accelerate_cos.rst
big update
2020-08-24 16:54:16 +02:00
fix_adapt_fep.rst
big update
2020-08-24 16:54:16 +02:00
fix_adapt.rst
big update
2020-08-24 16:54:16 +02:00
fix_addforce.rst
big update
2020-08-24 16:54:16 +02:00
fix_addtorque.rst
convert remaining style doc sections to be a logical header
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fix_append_atoms.rst
convert remaining style doc sections to be a logical header
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fix_atc.rst
convert remaining style doc sections to be a logical header
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fix_atom_swap.rst
convert remaining style doc sections to be a logical header
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fix_ave_atom.rst
convert remaining style doc sections to be a logical header
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fix_ave_chunk.rst
big update
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fix_ave_correlate_long.rst
big update
2020-08-24 16:54:16 +02:00
fix_ave_correlate.rst
big update
2020-08-24 16:54:16 +02:00
fix_ave_histo.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_ave_time.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_aveforce.rst
big update
2020-08-24 16:54:16 +02:00
fix_balance.rst
big update
2020-08-24 16:54:16 +02:00
fix_bocs.rst
convert remaining style doc sections to be a logical header
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fix_bond_break.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_bond_create.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_bond_react.rst
bond/react: make rmsd constraint lowercase
2020-08-28 11:06:27 -04:00
fix_bond_swap.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_box_relax.rst
big update
2020-08-24 16:54:16 +02:00
fix_client_md.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_cmap.rst
big update
2020-08-24 16:54:16 +02:00
fix_colvars.rst
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2020-08-21 23:33:41 -04:00
fix_controller.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_deform.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_deposit.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_dpd_energy.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_dpd_source.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_drag.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_drude_transform.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_drude.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_dt_reset.rst
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2020-08-21 23:33:41 -04:00
fix_efield.rst
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fix_ehex.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_electron_stopping.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -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
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_eos_table_rx.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_eos_table.rst
big update
2020-08-24 16:54:16 +02:00
fix_evaporate.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_external.rst
big update
2020-08-24 16:54:16 +02:00
fix_ffl.rst
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2020-08-21 23:33:41 -04:00
fix_filter_corotate.rst
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2020-08-21 23:33:41 -04:00
fix_flow_gauss.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_freeze.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_gcmc.rst
big update
2020-08-24 16:54:16 +02:00
fix_gld.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_gle.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_gravity.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_grem.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_halt.rst
big update
2020-08-24 16:54:16 +02:00
fix_heat.rst
big update
2020-08-24 16:54:16 +02:00
fix_hyper_global.rst
convert remaining style doc sections to be a logical header
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fix_hyper_local.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_imd.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_indent.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_ipi.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_langevin_drude.rst
big update
2020-08-24 16:54:16 +02:00
fix_langevin_eff.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_langevin_spin.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_langevin.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_latte.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_lb_fluid.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_lb_momentum.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_lb_pc.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_lb_rigid_pc_sphere.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_lb_viscous.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -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
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_meso_move.rst
big update
2020-08-24 16:54:16 +02:00
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
Undo lost headers
2020-09-02 12:54:08 -04:00
fix_momentum.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_move.rst
big update
2020-08-24 16:54:16 +02:00
fix_mscg.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_msst.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_mvv_dpd.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -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
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_nh_eff.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_nh_uef.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_nh.rst
fix typo
2020-09-12 19:06:58 -04:00
fix_nph_asphere.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_nph_body.rst
big update
2020-08-24 16:54:16 +02:00
fix_nph_sphere.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_nphug.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_npt_asphere.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_npt_body.rst
big update
2020-08-24 16:54:16 +02:00
fix_npt_cauchy.rst
big update
2020-08-24 16:54:16 +02:00
fix_npt_sphere.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_numdiff.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_nve_asphere_noforce.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_nve_asphere.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_nve_awpmd.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_nve_body.rst
convert remaining style doc sections to be a logical header
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fix_nve_dot.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_nve_dotc_langevin.rst
big update
2020-08-24 16:54:16 +02:00
fix_nve_eff.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -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
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_nve_manifold_rattle.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_nve_noforce.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -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
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
fix_nve_tri.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_nve.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_nvk.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_nvt_asphere.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_nvt_body.rst
big update
2020-08-24 16:54:16 +02:00
fix_nvt_manifold_rattle.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_nvt_sllod_eff.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_nvt_sllod.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_nvt_sphere.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_oneway.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_orient_eco.rst
Fix typo
2020-09-02 13:48:11 -04:00
fix_orient.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_pafi.rst
citation update
2020-05-01 16:19:03 +02:00
fix_phonon.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_pimd.rst
finish updating docs for fixes using code-block plus a few other improvements
2020-03-11 12:58:57 -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
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_poems.rst
big update
2020-08-24 16:54:16 +02:00
fix_pour.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_precession_spin.rst
big update
2020-08-24 16:54:16 +02:00
fix_press_berendsen.rst
big update
2020-08-24 16:54:16 +02:00
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
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_property_atom.rst
Merge branch 'master' into collected-small-changes
2020-09-04 13:32:47 -04:00
fix_python_invoke.rst
Revert "Add missing index entries"
2020-09-02 14:02:53 -04:00
fix_python_move.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_qbmsst.rst
big update
2020-08-24 16:54:16 +02:00
fix_qeq_comb.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_qeq_reax.rst
update formatting of keyword summary
2020-09-12 19:06:30 -04:00
fix_qeq.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_qmmm.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_qtb.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_reaxc_bonds.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_reaxc_species.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_recenter.rst
big update
2020-08-24 16:54:16 +02:00
fix_restrain.rst
Merge pull request #2304 from akohlmey/collected-small-changes
2020-08-24 11:43:42 -04:00
fix_rhok.rst
big update
2020-08-24 16:54:16 +02:00
fix_rigid_meso.rst
big update
2020-08-24 16:54:16 +02:00
fix_rigid.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_rx.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_saed_vtk.rst
big update
2020-08-24 16:54:16 +02:00
fix_setforce.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_shake.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_shardlow.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_smd_adjust_dt.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_smd_integrate_tlsph.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_smd_integrate_ulsph.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_smd_move_triangulated_surface.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_smd_setvel.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_smd_wall_surface.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_smd.rst
big update
2020-08-24 16:54:16 +02:00
fix_sph_stationary.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_sph.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_spring_chunk.rst
big update
2020-08-24 16:54:16 +02:00
fix_spring_rg.rst
big update
2020-08-24 16:54:16 +02:00
fix_spring_self.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_spring.rst
big update
2020-08-24 16:54:16 +02:00
fix_srd.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -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
add comments/warnings to docs of fix property/atom and fix store/state about restarting
2020-09-04 00:14:01 -04:00
fix_temp_berendsen.rst
big update
2020-08-24 16:54:16 +02:00
fix_temp_csvr.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_temp_rescale_eff.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_temp_rescale.rst
big update
2020-08-24 16:54:16 +02:00
fix_tfmc.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_thermal_conductivity.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_ti_spring.rst
big update
2020-08-24 16:54:16 +02:00
fix_tmd.rst
big update
2020-08-24 16:54:16 +02:00
fix_ttm.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_tune_kspace.rst
big update
2020-08-24 16:54:16 +02:00
fix_vector.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_viscosity.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -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
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_wall_body_polyhedron.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_wall_ees.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_wall_gran_region.rst
big update
2020-08-24 16:54:16 +02:00
fix_wall_gran.rst
big update
2020-08-24 16:54:16 +02:00
fix_wall_piston.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_wall_reflect_stochastic.rst
replace parsed-literal with code-block where appropriate. typeset keywords in cursive
2020-03-10 16:54:04 -04:00
fix_wall_reflect.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_wall_region.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_wall_srd.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
fix_wall.rst
Apply header fix to all remaining fix styles docs
2020-09-02 11:05:33 -04:00
fix_widom.rst
big update
2020-08-24 16:54:16 +02:00
fix.rst
final steps
2020-08-24 17:04:35 +02:00
fixes.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
group2ndx.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
group.rst
big update
2020-08-24 16:54:16 +02:00
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
delete empty lines at the end of files
2020-01-31 14:03:52 -05:00
Howto_bioFF.rst
big update
2020-08-24 16:54:16 +02:00
Howto_body.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Howto_chunk.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Howto_client_server.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Howto_cmake.rst
Remove targets to JPG images
2020-08-25 16:44:50 -04:00
Howto_coreshell.rst
big update
2020-08-24 16:54:16 +02:00
Howto_couple.rst
port over more of the framework of the programmer guide and remove programming details from user guide
2020-08-28 16:32:23 -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
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Howto_drude.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Howto_elastic.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Howto_github.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Howto_granular.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Howto_kappa.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Howto_library.rst
port over more of the framework of the programmer guide and remove programming details from user guide
2020-08-28 16:32:23 -04:00
Howto_manifold.rst
some more fixups
2020-03-13 17:02:59 -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
big update
2020-08-24 16:54:16 +02:00
Howto_polarizable.rst
delete empty lines at the end of files
2020-01-31 14:03:52 -05:00
Howto_pylammps.rst
add links to ctypes, ipython, and jupyter
2020-03-18 07:01:06 -04:00
Howto_replica.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -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
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
Howto_temperature.rst
delete empty lines at the end of files
2020-01-31 14:03:52 -05:00
Howto_thermostat.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -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
big update
2020-08-24 16:54:16 +02:00
Howto_viscosity.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Howto_viz.rst
next chunk of converted html files
2020-03-16 07:34:56 -04:00
Howto_walls.rst
delete empty lines at the end of files
2020-01-31 14:03:52 -05:00
Howto_wsl.rst
big update
2020-08-24 16:54:16 +02:00
Howto.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
hyper.rst
big update
2020-08-24 16:54:16 +02:00
if.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -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
Update headers in improper_*.rst files
2020-09-02 13:03:03 -04:00
improper_cvff.rst
Update headers in improper_*.rst files
2020-09-02 13:03:03 -04:00
improper_distance.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
improper_distharm.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
improper_fourier.rst
Update headers in improper_*.rst files
2020-09-02 13:03:03 -04:00
improper_harmonic.rst
Update headers in improper_*.rst files
2020-09-02 13:03:03 -04:00
improper_hybrid.rst
big update
2020-08-24 16:54:16 +02:00
improper_inversion_harmonic.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -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
Update headers in improper_*.rst files
2020-09-02 13:03:03 -04:00
improper_sqdistharm.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
improper_style.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -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
more conversion of parsed-literal to code-block and a bunch of other issues
2020-03-12 08:11:10 -04:00
Install_conda.rst
use the name MacOS consistently
2020-03-11 19:32:43 -04:00
Install_git.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Install_linux.rst
document changes to LAMMPS_POTENTIALS environment variable
2020-08-29 22:22:27 -04:00
Install_mac.rst
tweaks
2020-04-11 02:02:15 -04:00
Install_patch.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Install_tarball.rst
some more typesetting improvements
2020-03-13 19:41:33 -04:00
Install_windows.rst
some more typesetting improvements
2020-03-13 19:41:33 -04:00
Install.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
Intro_authors.rst
update lammps.sandia.gov URLs to use https://
2020-03-12 00:28:28 -04:00
Intro_features.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Intro_nonfeatures.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Intro_opensource.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
Intro_overview.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Intro_website.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Intro.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
jump.rst
big update
2020-08-24 16:54:16 +02:00
kim_commands.rst
correct spelling
2020-03-17 21:13:03 -04:00
kspace_modify.rst
big update
2020-08-24 16:54:16 +02:00
kspace_style.rst
Update index for kspace_style commands
2020-09-02 13:40:24 -04:00
label.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
lattice.rst
big update
2020-08-24 16:54:16 +02:00
log.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
Manual_build.rst
remove doxygen tool folder and references to it in the input as it is no longer compatible and needed
2020-08-30 19:59:52 -04:00
Manual_version.rst
update lammps.sandia.gov URLs to use https://
2020-03-12 00:28:28 -04:00
Manual.rst
split developer guide into multiple files
2020-09-08 16:38:06 -04:00
mass.rst
big update
2020-08-24 16:54:16 +02:00
message.rst
big update
2020-08-24 16:54:16 +02:00
min_modify.rst
add missing option
2020-09-14 09:27:49 -04:00
min_spin.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
min_style.rst
big update
2020-08-24 16:54:16 +02:00
minimize.rst
big update
2020-08-24 16:54:16 +02:00
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
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Modify_bond.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Modify_command.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Modify_compute.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Modify_contribute.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Modify_dump.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
Modify_fix.rst
big update
2020-08-24 16:54:16 +02:00
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
replace "xxxn't" with "xxx not"
2020-03-18 07:02:34 -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
big update
2020-08-24 16:54:16 +02:00
neb_spin.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
neb.rst
big update
2020-08-24 16:54:16 +02:00
neigh_modify.rst
replace "xxxn't" with "xxx not"
2020-03-18 07:02:34 -04:00
neighbor.rst
more conversion of parsed-literal to code-block and a bunch of other issues
2020-03-12 08:11:10 -04:00
newton.rst
big update
2020-08-24 16:54:16 +02:00
next.rst
big update
2020-08-24 16:54:16 +02:00
package.rst
big update
2020-08-24 16:54:16 +02:00
Packages_details.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Packages_standard.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Packages_user.rst
use consistent style when referencing packages
2020-08-27 17:44:49 -04:00
Packages.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
pair_adp.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_agni.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_airebo.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_atm.rst
big update
2020-08-24 16:54:16 +02:00
pair_awpmd.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
pair_beck.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_body_nparticle.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
pair_body_rounded_polygon.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
pair_body_rounded_polyhedron.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
pair_bop.rst
big update
2020-08-24 16:54:16 +02:00
pair_born.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_brownian.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_buck6d_coul_gauss.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_buck_long.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_buck.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_charmm.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_class2.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_coeff.rst
Undo lost headers
2020-09-02 12:54:08 -04:00
pair_colloid.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_comb.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_cosine_squared.rst
use consistent style when referencing packages
2020-08-27 17:44:49 -04:00
pair_coul_diel.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_coul_shield.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
pair_coul_slater.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_coul.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_cs.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_dipole.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_dpd_fdt.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_dpd.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_drip.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
pair_dsmc.rst
convert remaining style doc sections to be a logical header
2020-08-21 23:33:41 -04:00
pair_e3b.rst
big update
2020-08-24 16:54:16 +02:00
pair_eam.rst
Apply header fix to all remaining pair styles docs
2020-09-02 10:59:01 -04:00
pair_edip.rst
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pair_eff.rst
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pair_eim.rst
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pair_exp6_rx.rst
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pair_extep.rst
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pair_fep_soft.rst
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pair_gauss.rst
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pair_gayberne.rst
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pair_gran.rst
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2020-09-02 10:59:01 -04:00
pair_granular.rst
Merge pull request #2196 from jibril-b-coulibaly/mindlin_rescale
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pair_gromacs.rst
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pair_gw.rst
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pair_hbond_dreiding.rst
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pair_hybrid.rst
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pair_ilp_graphene_hbn.rst
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pair_kim.rst
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pair_kolmogorov_crespi_full.rst
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pair_kolmogorov_crespi_z.rst
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pair_lcbop.rst
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pair_lebedeva_z.rst
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pair_line_lj.rst
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pair_list.rst
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pair_lj96.rst
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pair_lj_cubic.rst
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pair_lj_cut_coul.rst
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pair_lj_cut_tip4p.rst
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pair_lj_expand.rst
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pair_lj_long.rst
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pair_lj_smooth_linear.rst
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pair_lj_smooth.rst
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pair_lj_switch3_coulgauss_long.rst
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pair_lj.rst
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pair_local_density.rst
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pair_lubricate.rst
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pair_lubricateU.rst
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pair_mdf.rst
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pair_meam_spline.rst
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pair_meam_sw_spline.rst
big update
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pair_meamc.rst
Revert "Add missing index entries"
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pair_mesocnt.rst
big update
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pair_mesodpd.rst
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pair_mesont_tpm.rst
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pair_mgpt.rst
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pair_mie.rst
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pair_mliap.rst
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pair_mm3_switch3_coulgauss_long.rst
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pair_modify.rst
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pair_momb.rst
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pair_morse.rst
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pair_multi_lucy_rx.rst
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pair_multi_lucy.rst
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pair_nb3b_harmonic.rst
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pair_nm.rst
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pair_none.rst
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pair_oxdna2.rst
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pair_oxdna.rst
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pair_oxrna2.rst
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pair_peri.rst
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pair_polymorphic.rst
big update
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pair_python.rst
document changes to LAMMPS_POTENTIALS environment variable
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pair_quip.rst
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pair_reaxc.rst
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pair_resquared.rst
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pair_sdk.rst
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pair_sdpd_taitwater_isothermal.rst
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pair_smd_hertz.rst
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pair_smd_tlsph.rst
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pair_smd_triangulated_surface.rst
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pair_smd_ulsph.rst
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pair_smtbq.rst
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pair_snap.rst
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pair_soft.rst
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pair_sph_heatconduction.rst
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pair_sph_idealgas.rst
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pair_sph_lj.rst
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pair_sph_rhosum.rst
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pair_sph_taitwater_morris.rst
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pair_sph_taitwater.rst
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pair_spin_dipole.rst
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pair_spin_dmi.rst
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pair_spin_exchange.rst
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pair_spin_magelec.rst
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pair_spin_neel.rst
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pair_srp.rst
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pair_style.rst
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pair_sw.rst
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pair_table_rx.rst
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pair_table.rst
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pair_tersoff_mod.rst
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pair_tersoff_zbl.rst
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pair_tersoff.rst
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pair_thole.rst
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pair_tri_lj.rst
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pair_ufm.rst
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pair_vashishta.rst
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pair_write.rst
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pair_yukawa_colloid.rst
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pair_yukawa.rst
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pair_zbl.rst
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pair_zero.rst
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pairs.rst
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partition.rst
big update
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pg_atom.rst
split developer guide into multiple files
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pg_cplusplus.rst
add more existing programmer guide docs
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pg_dev_classes.rst
swap order of classes in toctree
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pg_dev_flow.rst
split developer guide into multiple files
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pg_dev_org.rst
split developer guide into multiple files
2020-09-08 16:38:06 -04:00
pg_dev_utils.rst
add URLs to upstream projects for eigensolvers
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pg_dev_write.rst
split developer guide into multiple files
2020-09-08 16:38:06 -04:00
pg_developer.rst
split developer guide into multiple files
2020-09-08 16:38:06 -04:00
pg_fortran.rst
fix spelling
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pg_input.rst
remove unwanted docs
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pg_lammps.rst
remove unwanted docs
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pg_lib_add.rst
update a few links in the programmer guide
2020-09-04 11:59:04 -04:00
pg_lib_config.rst
update lammps config settings calls example
2020-09-14 17:11:27 -04:00
pg_lib_create.rst
add more existing programmer guide docs
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pg_lib_execute.rst
add more existing programmer guide docs
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pg_lib_neighbor.rst
add more existing programmer guide docs
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pg_lib_objects.rst
add more existing programmer guide docs
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pg_lib_properties.rst
Merge branch 'master' into consistent-memory-usage
2020-09-15 12:25:16 -04:00
pg_lib_scatter.rst
add more existing programmer guide docs
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pg_lib_utility.rst
add more existing programmer guide docs
2020-08-28 20:25:09 -04:00
pg_library.rst
fix typo
2020-08-28 21:22:06 -04:00
pg_python.rst
update a few links in the programmer guide
2020-09-04 11:59:04 -04:00
prd.rst
big update
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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
replace '\_' with '_' in plain text where possible
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Python_call.rst
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Python_examples.rst
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Python_head.rst
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Python_install.rst
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Python_library.rst
big update
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Python_mpi.rst
Some more code-blocks instead of parsed-literal
2020-03-13 18:38:47 -04:00
Python_overview.rst
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Python_pylammps.rst
delete empty lines at the end of files
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Python_run.rst
delete empty lines at the end of files
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Python_shlib.rst
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Python_test.rst
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python.rst
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quit.rst
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read_data.rst
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read_dump.rst
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read_restart.rst
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region.rst
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replicate.rst
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rerun.rst
replace "xxxn't" with "xxx not"
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reset_atom_ids.rst
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reset_mol_ids.rst
big update
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reset_timestep.rst
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restart.rst
big update
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Run_basics.rst
first chunk of revised updates to the manual addressing link issues.
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Run_head.rst
collapse multiple empty lines into a single empty line
2020-03-10 15:56:11 -04:00
Run_options.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Run_output.rst
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run_style.rst
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Run_windows.rst
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run.rst
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server_mc.rst
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server_md.rst
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server.rst
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set.rst
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shell.rst
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special_bonds.rst
big update
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Speed_bench.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Speed_compare.rst
use consistent capitalization with NVIDIA
2020-04-10 23:20:10 -04:00
Speed_gpu.rst
big update
2020-08-24 16:54:16 +02:00
Speed_intel.rst
merge error fix
2020-08-24 17:10:33 +02:00
Speed_kokkos.rst
first chunk of revised updates to the manual addressing link issues.
2020-09-04 11:39:38 -04:00
Speed_measure.rst
a few more cosmetic changes
2020-09-04 11:50:02 -04:00
Speed_omp.rst
a few more cosmetic changes
2020-09-04 11:50:02 -04:00
Speed_opt.rst
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Speed_packages.rst
use consistent capitalization with NVIDIA
2020-04-10 23:20:10 -04:00
Speed_tips.rst
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Speed.rst
update lammps.sandia.gov URLs to use https://
2020-03-12 00:28:28 -04:00
suffix.rst
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tad.rst
big update
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temper_grem.rst
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temper_npt.rst
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temper.rst
big update
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thermo_modify.rst
big update
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thermo_style.rst
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thermo.rst
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third_order.rst
replace '\_' with '_' in plain text where possible
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timer.rst
more conversion of parsed-literal to code-block and a bunch of other issues
2020-03-12 08:11:10 -04:00
timestep.rst
big update
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Tools.rst
remove doxygen tool folder and references to it in the input as it is no longer compatible and needed
2020-08-30 19:59:52 -04:00
uncompute.rst
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undump.rst
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unfix.rst
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units.rst
big update
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variable.rst
big update
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velocity.rst
big update
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write_coeff.rst
replace '\_' with '_' in plain text where possible
2020-03-13 16:34:57 -04:00
write_data.rst
small tweak to address formal issues
2020-09-03 18:30:35 -04:00
write_dump.rst
Update docs for COMPRESS styles
2020-09-01 12:17:08 -04:00
write_restart.rst
big update
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