Loading doc/Makefile +5 −4 Original line number Diff line number Diff line Loading @@ -95,9 +95,10 @@ spelling: $(OBJECTS) utils/sphinx-config/false_positives.txt @echo "Spell check finished." epub: $(OBJECTS) @mkdir -p epub @mkdir -p epub/JPG @rm -f LAMMPS.epub @cp src/JPG/lammps-logo.png epub/ @cp src/JPG/*.* epub/JPG @(\ . $(VENV)/bin/activate ;\ cp -r src/* $(RSTDIR)/ ;\ Loading @@ -123,9 +124,9 @@ pdf: utils/txt2html/txt2html.exe cd ..; \ ../utils/txt2html/txt2html.exe -b *.txt; \ htmldoc --batch lammps.book; \ for s in `echo *.txt | sed -e 's,\.txt,\.html,g'` ; \ do grep -q $$s lammps.book || \ echo doc file $$s missing in src/lammps.book; done; \ for s in `echo *.txt | sed -e 's/ \(pairs\|bonds\|angles\|dihedrals\|impropers\|commands_list\|fixes\|computes\).txt/ /g' | sed -e 's,\.txt,\.html,g'` ; \ do grep -q ^$$s lammps.book || \ echo WARNING: doc file $$s missing in src/lammps.book; done; \ rm *.html; \ ) Loading doc/src/Build_extras.txt +4 −4 Original line number Diff line number Diff line Loading @@ -563,9 +563,9 @@ file. VORONOI package :h4,link(voronoi) To build with this package, you must download and build the "Voro++ library"_voro_home. library"_voro-home. :link(voro_home,http://math.lbl.gov/voro++) :link(voro-home,http://math.lbl.gov/voro++) [CMake build]: Loading Loading @@ -932,9 +932,9 @@ successfully build on your system. USER-SCAFACOS package :h4,link(user-scafacos) To build with this package, you must download and build the "ScaFaCoS Coulomb solver library"_scafacos_home Coulomb solver library"_scafacos-home :link(scafacos_home,http://www.scafacos.de) :link(scafacos-home,http://www.scafacos.de) [CMake build]: Loading doc/src/Commands_bond.txt +7 −4 Original line number Diff line number Diff line Loading @@ -34,7 +34,7 @@ OPT. "fene (iko)"_bond_fene.html, "fene/expand (o)"_bond_fene_expand.html, "gromos (o)"_bond_gromos.html, "harmonic (ko)"_bond_harmonic.html, "harmonic (iko)"_bond_harmonic.html, "harmonic/shift (o)"_bond_harmonic_shift.html, "harmonic/shift/cut (o)"_bond_harmonic_shift_cut.html, "morse (o)"_bond_morse.html, Loading @@ -57,9 +57,11 @@ OPT. "zero"_angle_zero.html, "hybrid"_angle_hybrid.html :tb(c=3,ea=c) "charmm (ko)"_angle_charmm.html, "charmm (iko)"_angle_charmm.html, "class2 (ko)"_angle_class2.html, "class2/p6"_angle_class2.html, "cosine (o)"_angle_cosine.html, "cosine/buck6d"_angle_cosine_buck6d.html, "cosine/delta (o)"_angle_cosine_delta.html, "cosine/periodic (o)"_angle_cosine_periodic.html, "cosine/shift (o)"_angle_cosine_shift.html, Loading Loading @@ -97,7 +99,7 @@ OPT. "nharmonic (o)"_dihedral_nharmonic.html, "opls (iko)"_dihedral_opls.html, "quadratic (o)"_dihedral_quadratic.html, "spherical (o)"_dihedral_spherical.html, "spherical"_dihedral_spherical.html, "table (o)"_dihedral_table.html, "table/cut"_dihedral_table_cut.html :tb(c=4,ea=c) Loading @@ -120,5 +122,6 @@ OPT. "distance"_improper_distance.html, "fourier (o)"_improper_fourier.html, "harmonic (iko)"_improper_harmonic.html, "inversion/harmonic"_improper_inversion_harmonic.html, "ring (o)"_improper_ring.html, "umbrella (o)"_improper_umbrella.html :tb(c=4,ea=c) doc/src/Commands_compute.txt +5 −1 Original line number Diff line number Diff line Loading @@ -93,6 +93,7 @@ KOKKOS, o = USER-OMP, t = OPT. "pe/tally"_compute_tally.html, "plasticity/atom"_compute_plasticity_atom.html, "pressure"_compute_pressure.html, "pressure/cylinder"_compute_pressure_cylinder.html, "pressure/uef"_compute_pressure_uef.html, "property/atom"_compute_property_atom.html, "property/chunk"_compute_property_chunk.html, Loading @@ -119,7 +120,7 @@ KOKKOS, o = USER-OMP, t = OPT. "smd/tlsph/strain"_compute_smd_tlsph_strain.html, "smd/tlsph/strain/rate"_compute_smd_tlsph_strain_rate.html, "smd/tlsph/stress"_compute_smd_tlsph_stress.html, "smd/triangle/mesh/vertices"_compute_smd_triangle_vertices.html, "smd/triangle/vertices"_compute_smd_triangle_vertices.html, "smd/ulsph/num/neighs"_compute_smd_ulsph_num_neighs.html, "smd/ulsph/strain"_compute_smd_ulsph_strain.html, "smd/ulsph/strain/rate"_compute_smd_ulsph_strain_rate.html, Loading @@ -130,6 +131,8 @@ KOKKOS, o = USER-OMP, t = OPT. "snav/atom"_compute_sna_atom.html, "spin"_compute_spin.html, "stress/atom"_compute_stress_atom.html, "stress/mop"_compute_stress_mop.html, "stress/mop/profile"_compute_stress_mop.html, "stress/tally"_compute_tally.html, "tdpd/cc/atom"_compute_tdpd_cc_atom.html, "temp (k)"_compute_temp.html, Loading @@ -137,6 +140,7 @@ KOKKOS, o = USER-OMP, t = OPT. "temp/body"_compute_temp_body.html, "temp/chunk"_compute_temp_chunk.html, "temp/com"_compute_temp_com.html, "temp/cs"_compute_temp_cs.html, "temp/deform"_compute_temp_deform.html, "temp/deform/eff"_compute_temp_deform_eff.html, "temp/drude"_compute_temp_drude.html, Loading doc/src/Commands_fix.txt +15 −12 Original line number Diff line number Diff line Loading @@ -40,11 +40,13 @@ OPT. "ave/time"_fix_ave_time.html, "aveforce"_fix_aveforce.html, "balance"_fix_balance.html, "bocs"_fix_bocs.html, "bond/break"_fix_bond_break.html, "bond/create"_fix_bond_create.html, "bond/react"_fix_bond_react.html, "bond/swap"_fix_bond_swap.html, "box/relax"_fix_box_relax.html, "client/md"_fix_client_md.html, "cmap"_fix_cmap.html, "colvars"_fix_colvars.html, "controller"_fix_controller.html, Loading @@ -54,7 +56,7 @@ OPT. "drag"_fix_drag.html, "drude"_fix_drude.html, "drude/transform/direct"_fix_drude_transform.html, "drude/transform/reverse"_fix_drude_transform.html, "drude/transform/inverse"_fix_drude_transform.html, "dt/reset"_fix_dt_reset.html, "edpd/source"_fix_dpd_source.html, "efield"_fix_efield.html, Loading Loading @@ -107,15 +109,16 @@ OPT. "nph/eff"_fix_nh_eff.html, "nph/sphere (ko)"_fix_nph_sphere.html, "nphug (o)"_fix_nphug.html, "npt (kio)"_fix_nh.html, "npt (iko)"_fix_nh.html, "npt/asphere (o)"_fix_npt_asphere.html, "npt/body"_fix_npt_body.html, "npt/eff"_fix_nh_eff.html, "npt/sphere (o)"_fix_npt_sphere.html, "npt/uef"_fix_nh_uef.html, "nve (kio)"_fix_nve.html, "nve (iko)"_fix_nve.html, "nve/asphere (i)"_fix_nve_asphere.html, "nve/asphere/noforce"_fix_nve_asphere_noforce.html, "nve/awpmd"_fix_nve_awpmd.html, "nve/body"_fix_nve_body.html, "nve/dot"_fix_nve_dot.html, "nve/dotc/langevin"_fix_nve_dotc_langevin.html, Loading Loading @@ -170,26 +173,26 @@ OPT. "rhok"_fix_rhok.html, "rigid (o)"_fix_rigid.html, "rigid/nph (o)"_fix_rigid.html, "rigid/nph/small"_fix_rigid.html, "rigid/npt (o)"_fix_rigid.html, "rigid/npt/small"_fix_rigid.html, "rigid/nve (o)"_fix_rigid.html, "rigid/nve/small"_fix_rigid.html, "rigid/nvt (o)"_fix_rigid.html, "rigid/nvt/small"_fix_rigid.html, "rigid/small (o)"_fix_rigid.html, "rigid/small/nph"_fix_rigid.html, "rigid/small/npt"_fix_rigid.html, "rigid/small/nve"_fix_rigid.html, "rigid/small/nvt"_fix_rigid.html, "rx (k)"_fix_rx.html, "saed/vtk"_fix_saed_vtk.html, "setforce (k)"_fix_setforce.html, "shake"_fix_shake.html, "shardlow (k)"_fix_shardlow.html, "smd"_fix_smd.html, "smd/adjust/dt"_fix_smd_adjust_dt.html, "smd/integrate/tlsph"_fix_smd_integrate_tlsph.html, "smd/integrate/ulsph"_fix_smd_integrate_ulsph.html, "smd/move/triangulated/surface"_fix_smd_move_triangulated_surface.html, "smd/adjust_dt"_fix_smd_adjust_dt.html, "smd/integrate_tlsph"_fix_smd_integrate_tlsph.html, "smd/integrate_ulsph"_fix_smd_integrate_ulsph.html, "smd/move_tri_surf"_fix_smd_move_triangulated_surface.html, "smd/setvel"_fix_smd_setvel.html, "smd/wall/surface"_fix_smd_wall_surface.html, "smd/wall_surface"_fix_smd_wall_surface.html, "spring"_fix_spring.html, "spring/chunk"_fix_spring_chunk.html, "spring/rg"_fix_spring_rg.html, Loading Loading
doc/Makefile +5 −4 Original line number Diff line number Diff line Loading @@ -95,9 +95,10 @@ spelling: $(OBJECTS) utils/sphinx-config/false_positives.txt @echo "Spell check finished." epub: $(OBJECTS) @mkdir -p epub @mkdir -p epub/JPG @rm -f LAMMPS.epub @cp src/JPG/lammps-logo.png epub/ @cp src/JPG/*.* epub/JPG @(\ . $(VENV)/bin/activate ;\ cp -r src/* $(RSTDIR)/ ;\ Loading @@ -123,9 +124,9 @@ pdf: utils/txt2html/txt2html.exe cd ..; \ ../utils/txt2html/txt2html.exe -b *.txt; \ htmldoc --batch lammps.book; \ for s in `echo *.txt | sed -e 's,\.txt,\.html,g'` ; \ do grep -q $$s lammps.book || \ echo doc file $$s missing in src/lammps.book; done; \ for s in `echo *.txt | sed -e 's/ \(pairs\|bonds\|angles\|dihedrals\|impropers\|commands_list\|fixes\|computes\).txt/ /g' | sed -e 's,\.txt,\.html,g'` ; \ do grep -q ^$$s lammps.book || \ echo WARNING: doc file $$s missing in src/lammps.book; done; \ rm *.html; \ ) Loading
doc/src/Build_extras.txt +4 −4 Original line number Diff line number Diff line Loading @@ -563,9 +563,9 @@ file. VORONOI package :h4,link(voronoi) To build with this package, you must download and build the "Voro++ library"_voro_home. library"_voro-home. :link(voro_home,http://math.lbl.gov/voro++) :link(voro-home,http://math.lbl.gov/voro++) [CMake build]: Loading Loading @@ -932,9 +932,9 @@ successfully build on your system. USER-SCAFACOS package :h4,link(user-scafacos) To build with this package, you must download and build the "ScaFaCoS Coulomb solver library"_scafacos_home Coulomb solver library"_scafacos-home :link(scafacos_home,http://www.scafacos.de) :link(scafacos-home,http://www.scafacos.de) [CMake build]: Loading
doc/src/Commands_bond.txt +7 −4 Original line number Diff line number Diff line Loading @@ -34,7 +34,7 @@ OPT. "fene (iko)"_bond_fene.html, "fene/expand (o)"_bond_fene_expand.html, "gromos (o)"_bond_gromos.html, "harmonic (ko)"_bond_harmonic.html, "harmonic (iko)"_bond_harmonic.html, "harmonic/shift (o)"_bond_harmonic_shift.html, "harmonic/shift/cut (o)"_bond_harmonic_shift_cut.html, "morse (o)"_bond_morse.html, Loading @@ -57,9 +57,11 @@ OPT. "zero"_angle_zero.html, "hybrid"_angle_hybrid.html :tb(c=3,ea=c) "charmm (ko)"_angle_charmm.html, "charmm (iko)"_angle_charmm.html, "class2 (ko)"_angle_class2.html, "class2/p6"_angle_class2.html, "cosine (o)"_angle_cosine.html, "cosine/buck6d"_angle_cosine_buck6d.html, "cosine/delta (o)"_angle_cosine_delta.html, "cosine/periodic (o)"_angle_cosine_periodic.html, "cosine/shift (o)"_angle_cosine_shift.html, Loading Loading @@ -97,7 +99,7 @@ OPT. "nharmonic (o)"_dihedral_nharmonic.html, "opls (iko)"_dihedral_opls.html, "quadratic (o)"_dihedral_quadratic.html, "spherical (o)"_dihedral_spherical.html, "spherical"_dihedral_spherical.html, "table (o)"_dihedral_table.html, "table/cut"_dihedral_table_cut.html :tb(c=4,ea=c) Loading @@ -120,5 +122,6 @@ OPT. "distance"_improper_distance.html, "fourier (o)"_improper_fourier.html, "harmonic (iko)"_improper_harmonic.html, "inversion/harmonic"_improper_inversion_harmonic.html, "ring (o)"_improper_ring.html, "umbrella (o)"_improper_umbrella.html :tb(c=4,ea=c)
doc/src/Commands_compute.txt +5 −1 Original line number Diff line number Diff line Loading @@ -93,6 +93,7 @@ KOKKOS, o = USER-OMP, t = OPT. "pe/tally"_compute_tally.html, "plasticity/atom"_compute_plasticity_atom.html, "pressure"_compute_pressure.html, "pressure/cylinder"_compute_pressure_cylinder.html, "pressure/uef"_compute_pressure_uef.html, "property/atom"_compute_property_atom.html, "property/chunk"_compute_property_chunk.html, Loading @@ -119,7 +120,7 @@ KOKKOS, o = USER-OMP, t = OPT. "smd/tlsph/strain"_compute_smd_tlsph_strain.html, "smd/tlsph/strain/rate"_compute_smd_tlsph_strain_rate.html, "smd/tlsph/stress"_compute_smd_tlsph_stress.html, "smd/triangle/mesh/vertices"_compute_smd_triangle_vertices.html, "smd/triangle/vertices"_compute_smd_triangle_vertices.html, "smd/ulsph/num/neighs"_compute_smd_ulsph_num_neighs.html, "smd/ulsph/strain"_compute_smd_ulsph_strain.html, "smd/ulsph/strain/rate"_compute_smd_ulsph_strain_rate.html, Loading @@ -130,6 +131,8 @@ KOKKOS, o = USER-OMP, t = OPT. "snav/atom"_compute_sna_atom.html, "spin"_compute_spin.html, "stress/atom"_compute_stress_atom.html, "stress/mop"_compute_stress_mop.html, "stress/mop/profile"_compute_stress_mop.html, "stress/tally"_compute_tally.html, "tdpd/cc/atom"_compute_tdpd_cc_atom.html, "temp (k)"_compute_temp.html, Loading @@ -137,6 +140,7 @@ KOKKOS, o = USER-OMP, t = OPT. "temp/body"_compute_temp_body.html, "temp/chunk"_compute_temp_chunk.html, "temp/com"_compute_temp_com.html, "temp/cs"_compute_temp_cs.html, "temp/deform"_compute_temp_deform.html, "temp/deform/eff"_compute_temp_deform_eff.html, "temp/drude"_compute_temp_drude.html, Loading
doc/src/Commands_fix.txt +15 −12 Original line number Diff line number Diff line Loading @@ -40,11 +40,13 @@ OPT. "ave/time"_fix_ave_time.html, "aveforce"_fix_aveforce.html, "balance"_fix_balance.html, "bocs"_fix_bocs.html, "bond/break"_fix_bond_break.html, "bond/create"_fix_bond_create.html, "bond/react"_fix_bond_react.html, "bond/swap"_fix_bond_swap.html, "box/relax"_fix_box_relax.html, "client/md"_fix_client_md.html, "cmap"_fix_cmap.html, "colvars"_fix_colvars.html, "controller"_fix_controller.html, Loading @@ -54,7 +56,7 @@ OPT. "drag"_fix_drag.html, "drude"_fix_drude.html, "drude/transform/direct"_fix_drude_transform.html, "drude/transform/reverse"_fix_drude_transform.html, "drude/transform/inverse"_fix_drude_transform.html, "dt/reset"_fix_dt_reset.html, "edpd/source"_fix_dpd_source.html, "efield"_fix_efield.html, Loading Loading @@ -107,15 +109,16 @@ OPT. "nph/eff"_fix_nh_eff.html, "nph/sphere (ko)"_fix_nph_sphere.html, "nphug (o)"_fix_nphug.html, "npt (kio)"_fix_nh.html, "npt (iko)"_fix_nh.html, "npt/asphere (o)"_fix_npt_asphere.html, "npt/body"_fix_npt_body.html, "npt/eff"_fix_nh_eff.html, "npt/sphere (o)"_fix_npt_sphere.html, "npt/uef"_fix_nh_uef.html, "nve (kio)"_fix_nve.html, "nve (iko)"_fix_nve.html, "nve/asphere (i)"_fix_nve_asphere.html, "nve/asphere/noforce"_fix_nve_asphere_noforce.html, "nve/awpmd"_fix_nve_awpmd.html, "nve/body"_fix_nve_body.html, "nve/dot"_fix_nve_dot.html, "nve/dotc/langevin"_fix_nve_dotc_langevin.html, Loading Loading @@ -170,26 +173,26 @@ OPT. "rhok"_fix_rhok.html, "rigid (o)"_fix_rigid.html, "rigid/nph (o)"_fix_rigid.html, "rigid/nph/small"_fix_rigid.html, "rigid/npt (o)"_fix_rigid.html, "rigid/npt/small"_fix_rigid.html, "rigid/nve (o)"_fix_rigid.html, "rigid/nve/small"_fix_rigid.html, "rigid/nvt (o)"_fix_rigid.html, "rigid/nvt/small"_fix_rigid.html, "rigid/small (o)"_fix_rigid.html, "rigid/small/nph"_fix_rigid.html, "rigid/small/npt"_fix_rigid.html, "rigid/small/nve"_fix_rigid.html, "rigid/small/nvt"_fix_rigid.html, "rx (k)"_fix_rx.html, "saed/vtk"_fix_saed_vtk.html, "setforce (k)"_fix_setforce.html, "shake"_fix_shake.html, "shardlow (k)"_fix_shardlow.html, "smd"_fix_smd.html, "smd/adjust/dt"_fix_smd_adjust_dt.html, "smd/integrate/tlsph"_fix_smd_integrate_tlsph.html, "smd/integrate/ulsph"_fix_smd_integrate_ulsph.html, "smd/move/triangulated/surface"_fix_smd_move_triangulated_surface.html, "smd/adjust_dt"_fix_smd_adjust_dt.html, "smd/integrate_tlsph"_fix_smd_integrate_tlsph.html, "smd/integrate_ulsph"_fix_smd_integrate_ulsph.html, "smd/move_tri_surf"_fix_smd_move_triangulated_surface.html, "smd/setvel"_fix_smd_setvel.html, "smd/wall/surface"_fix_smd_wall_surface.html, "smd/wall_surface"_fix_smd_wall_surface.html, "spring"_fix_spring.html, "spring/chunk"_fix_spring_chunk.html, "spring/rg"_fix_spring_rg.html, Loading
