2016-05-10 01:33:12 +08:00
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2016-09-14 08:22:17 +08:00
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2016-05-10 01:33:12 +08:00
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< li class = "toctree-l1" > < a class = "reference internal" href = "Section_intro.html" > 1. Introduction< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "Section_start.html" > 2. Getting Started< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "Section_commands.html" > 3. Commands< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "Section_packages.html" > 4. Packages< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "Section_accelerate.html" > 5. Accelerating LAMMPS performance< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "Section_howto.html" > 6. How-to discussions< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "Section_example.html" > 7. Example problems< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "Section_perf.html" > 8. Performance & scalability< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "Section_tools.html" > 9. Additional tools< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "Section_modify.html" > 10. Modifying & extending LAMMPS< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "Section_python.html" > 11. Python interface to LAMMPS< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "Section_errors.html" > 12. Errors< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "Section_history.html" > 13. Future and history< / a > < / li >
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2016-09-14 08:22:17 +08:00
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< li class = "toctree-l1" > < a class = "reference internal" href = "tutorials.html" > Tutorials< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "commands.html" > Commands< / a > < / li >
< li class = "toctree-l1 current" > < a class = "reference internal" href = "fixes.html" > Fixes< / a > < ul class = "current" >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_adapt.html" > fix adapt command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_adapt_fep.html" > fix adapt/fep command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_addforce.html" > fix addforce command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_addtorque.html" > fix addtorque command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_append_atoms.html" > fix append/atoms command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_atc.html" > fix atc command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_atom_swap.html" > fix atom/swap command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_ave_atom.html" > fix ave/atom command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_ave_chunk.html" > fix ave/chunk command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_ave_correlate.html" > fix ave/correlate command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_ave_correlate_long.html" > fix ave/correlate/long command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_ave_histo.html" > fix ave/histo command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_ave_histo.html#fix-ave-histo-weight-command" > fix ave/histo/weight command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_ave_time.html" > fix ave/time command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_aveforce.html" > fix aveforce command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_balance.html" > fix balance command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_bond_break.html" > fix bond/break command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_bond_create.html" > fix bond/create command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_bond_swap.html" > fix bond/swap command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_box_relax.html" > fix box/relax command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_colvars.html" > fix colvars command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_controller.html" > fix controller command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_deform.html" > fix deform command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_deform.html#fix-deform-kk-command" > fix deform/kk command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_deposit.html" > fix deposit command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_drag.html" > fix drag command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_drude.html" > fix drude command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_drude_transform.html" > fix drude/transform/direct command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_drude_transform.html#fix-drude-transform-inverse-command" > fix drude/transform/inverse command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_dt_reset.html" > fix dt/reset command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_efield.html" > fix efield command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_ehex.html" > fix ehex command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_enforce2d.html" > fix enforce2d command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_eos_cv.html" > fix eos/cv command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_eos_table.html" > fix eos/table command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_eos_table_rx.html" > fix eos/table/rx command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_evaporate.html" > fix evaporate command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_external.html" > fix external command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_flow_gauss.html" > fix flow/gauss command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_freeze.html" > fix freeze command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_gcmc.html" > fix gcmc command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_gld.html" > fix gld command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_gle.html" > fix gle command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_gravity.html" > fix gravity command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_gravity.html#fix-gravity-omp-command" > fix gravity/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_heat.html" > fix heat command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_imd.html" > fix imd command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_indent.html" > fix indent command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_ipi.html" > fix ipi command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_langevin.html" > fix langevin command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_langevin.html#fix-langevin-kk-command" > fix langevin/kk command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_langevin_drude.html" > fix langevin/drude command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_langevin_eff.html" > fix langevin/eff command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_lb_fluid.html" > fix lb/fluid command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_lb_momentum.html" > fix lb/momentum command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_lb_pc.html" > fix lb/pc command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_lb_rigid_pc_sphere.html" > fix lb/rigid/pc/sphere command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_lb_viscous.html" > fix lb/viscous command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_lineforce.html" > fix lineforce command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_manifoldforce.html" > fix manifoldforce command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_meso.html" > fix meso command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_meso_stationary.html" > fix meso/stationary command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_momentum.html" > fix momentum command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_move.html" > fix move command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_msst.html" > fix msst command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_neb.html" > fix neb command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh.html" > fix nvt command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh.html#fix-nvt-intel-command" > fix nvt/intel command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh.html#fix-nvt-kk-command" > fix nvt/kk command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh.html#fix-nvt-omp-command" > fix nvt/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh.html#fix-npt-command" > fix npt command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh.html#fix-npt-intel-command" > fix npt/intel command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh.html#fix-npt-kk-command" > fix npt/kk command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh.html#fix-npt-omp-command" > fix npt/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh.html#fix-nph-command" > fix nph command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh.html#fix-nph-kk-command" > fix nph/kk command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh.html#fix-nph-omp-command" > fix nph/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh_eff.html" > fix nvt/eff command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh_eff.html#fix-npt-eff-command" > fix npt/eff command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nh_eff.html#fix-nph-eff-command" > fix nph/eff command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nph_asphere.html" > fix nph/asphere command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nph_asphere.html#fix-nph-asphere-omp-command" > fix nph/asphere/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nph_body.html" > fix nph/body command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nph_sphere.html" > fix nph/sphere command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nph_sphere.html#fix-nph-sphere-omp-command" > fix nph/sphere/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nphug.html" > fix nphug command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nphug.html#fix-nphug-omp-command" > fix nphug/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_npt_asphere.html" > fix npt/asphere command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_npt_asphere.html#fix-npt-asphere-omp-command" > fix npt/asphere/omp command< / a > < / li >
< li class = "toctree-l2 current" > < a class = "current reference internal" href = "#" > fix npt/body command< / a > < ul >
< li class = "toctree-l3" > < a class = "reference internal" href = "#syntax" > Syntax< / a > < / li >
< li class = "toctree-l3" > < a class = "reference internal" href = "#examples" > Examples< / a > < / li >
< li class = "toctree-l3" > < a class = "reference internal" href = "#description" > Description< / a > < / li >
< li class = "toctree-l3" > < a class = "reference internal" href = "#restrictions" > Restrictions< / a > < / li >
< li class = "toctree-l3" > < a class = "reference internal" href = "#related-commands" > Related commands< / a > < / li >
< / ul >
< / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_npt_sphere.html" > fix npt/sphere command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_npt_sphere.html#fix-npt-sphere-omp-command" > fix npt/sphere/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve.html" > fix nve command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve.html#fix-nve-intel-command" > fix nve/intel command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve.html#fix-nve-kk-command" > fix nve/kk command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve.html#fix-nve-omp-command" > fix nve/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve_asphere.html" > fix nve/asphere command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve_asphere.html#fix-nve-asphere-intel-command" > fix nve/asphere/intel command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve_asphere_noforce.html" > fix nve/asphere/noforce command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve_body.html" > fix nve/body command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve_eff.html" > fix nve/eff command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve_limit.html" > fix nve/limit command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve_line.html" > fix nve/line command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve_manifold_rattle.html" > fix nve/manifold/rattle command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve_noforce.html" > fix nve/noforce command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve_sphere.html" > fix nve/sphere command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve_sphere.html#fix-nve-sphere-omp-command" > fix nve/sphere/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nve_tri.html" > fix nve/tri command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nvt_asphere.html" > fix nvt/asphere command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nvt_asphere.html#fix-nvt-asphere-omp-command" > fix nvt/asphere/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nvt_body.html" > fix nvt/body command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nvt_manifold_rattle.html" > fix nvt/manifold/rattle command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nvt_sllod.html" > fix nvt/sllod command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nvt_sllod.html#fix-nvt-sllod-intel-command" > fix nvt/sllod/intel command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nvt_sllod.html#fix-nvt-sllod-omp-command" > fix nvt/sllod/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nvt_sllod_eff.html" > fix nvt/sllod/eff command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nvt_sphere.html" > fix nvt/sphere command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_nvt_sphere.html#fix-nvt-sphere-omp-command" > fix nvt/sphere/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_oneway.html" > fix oneway command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_orient.html" > fix orient/fcc command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_orient.html#fix-orient-bcc-command" > fix orient/bcc command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_phonon.html" > fix phonon command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_pimd.html" > fix pimd command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_planeforce.html" > fix planeforce command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_poems.html" > fix poems< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_pour.html" > fix pour command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_press_berendsen.html" > fix press/berendsen command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_print.html" > fix print command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_property_atom.html" > fix property/atom command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_qbmsst.html" > fix qbmsst command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_qeq.html" > fix qeq/point command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_qeq.html#fix-qeq-shielded-command" > fix qeq/shielded command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_qeq.html#fix-qeq-slater-command" > fix qeq/slater command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_qeq.html#fix-qeq-dynamic-command" > fix qeq/dynamic command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_qeq.html#fix-qeq-fire-command" > fix qeq/fire command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_qeq_comb.html" > fix qeq/comb command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_qeq_comb.html#fix-qeq-comb-omp-command" > fix qeq/comb/omp command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_qeq_reax.html" > fix qeq/reax command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_qeq_reax.html#fix-qeq-reax-kk-command" > fix qeq/reax/kk command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_qmmm.html" > fix qmmm command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_qtb.html" > fix qtb command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_reax_bonds.html" > fix reax/bonds command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_reax_bonds.html#fix-reax-c-bonds-command" > fix reax/c/bonds command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_reaxc_species.html" > fix reax/c/species command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_recenter.html" > fix recenter command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_restrain.html" > fix restrain command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_rigid.html" > fix rigid command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_rigid.html#fix-rigid-nve-command" > fix rigid/nve command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_rigid.html#fix-rigid-nvt-command" > fix rigid/nvt command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_rigid.html#fix-rigid-npt-command" > fix rigid/npt command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_rigid.html#fix-rigid-nph-command" > fix rigid/nph command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_rigid.html#fix-rigid-small-command" > fix rigid/small command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_rigid.html#fix-rigid-nve-small-command" > fix rigid/nve/small command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_rigid.html#fix-rigid-nvt-small-command" > fix rigid/nvt/small command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_rigid.html#fix-rigid-npt-small-command" > fix rigid/npt/small command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_rigid.html#fix-rigid-nph-small-command" > fix rigid/nph/small command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_rx.html" > fix rx command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_saed_vtk.html" > fix saed/vtk command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_setforce.html" > fix setforce command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_setforce.html#fix-setforce-kk-command" > fix setforce/kk command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_shake.html" > fix shake command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_shake.html#fix-rattle-command" > fix rattle command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_shardlow.html" > fix shardlow command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_smd.html" > fix smd command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_smd_adjust_dt.html" > fix smd/adjust_dt command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_smd_integrate_tlsph.html" > fix smd/integrate_tlsph command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_smd_integrate_ulsph.html" > fix smd/integrate_ulsph command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_smd_move_triangulated_surface.html" > fix smd/move_tri_surf command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_smd_setvel.html" > fix smd/setvel command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_smd_wall_surface.html" > fix smd/wall_surface command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_spring.html" > fix spring command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_spring_chunk.html" > fix spring/chunk command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_spring_rg.html" > fix spring/rg command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_spring_self.html" > fix spring/self command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_srd.html" > fix srd command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_store_force.html" > fix store/force command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_store_state.html" > fix store/state command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_temp_berendsen.html" > fix temp/berendsen command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_temp_csvr.html" > fix temp/csvr command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_temp_csvr.html#fix-temp-csld-command" > fix temp/csld command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_temp_rescale.html" > fix temp/rescale command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_temp_rescale_eff.html" > fix temp/rescale/eff command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_tfmc.html" > fix tfmc command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_thermal_conductivity.html" > fix thermal/conductivity command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_ti_rs.html" > fix ti/rs command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_ti_spring.html" > fix ti/spring command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_tmd.html" > fix tmd command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_ttm.html" > fix ttm command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_ttm.html#fix-ttm-mod-command" > fix ttm/mod command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_tune_kspace.html" > fix tune/kspace command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_vector.html" > fix vector command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_viscosity.html" > fix viscosity command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_viscous.html" > fix viscous command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_wall.html" > fix wall/lj93 command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_wall.html#fix-wall-lj126-command" > fix wall/lj126 command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_wall.html#fix-wall-lj1043-command" > fix wall/lj1043 command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_wall.html#fix-wall-colloid-command" > fix wall/colloid command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_wall.html#fix-wall-harmonic-command" > fix wall/harmonic command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_wall_gran.html" > fix wall/gran command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_wall_piston.html" > fix wall/piston command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_wall_reflect.html" > fix wall/reflect command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_wall_reflect.html#fix-wall-reflect-kk-command" > fix wall/reflect/kk command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_wall_region.html" > fix wall/region command< / a > < / li >
< li class = "toctree-l2" > < a class = "reference internal" href = "fix_wall_srd.html" > fix wall/srd command< / a > < / li >
< / ul >
< / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "computes.html" > Computes< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "pairs.html" > Pair Styles< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "bonds.html" > Bonds< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "angles.html" > Angle Styles< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "dihedrals.html" > Dihedral Styles< / a > < / li >
< li class = "toctree-l1" > < a class = "reference internal" href = "impropers.html" > Improper Styles< / a > < / li >
< / ul >
2016-05-10 01:33:12 +08:00
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2016-09-14 08:22:17 +08:00
< li > < a href = "fixes.html" > Fixes< / a > » < / li >
2016-05-10 01:33:12 +08:00
< li > fix npt/body command< / li >
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2016-09-14 08:22:17 +08:00
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< a href = "fix_npt_sphere.html" class = "btn btn-neutral float-right" title = "fix npt/sphere command" accesskey = "n" > Next < span class = "fa fa-arrow-circle-right" > < / span > < / a >
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< div class = "section" id = "fix-npt-body-command" >
< span id = "index-0" > < / span > < h1 > fix npt/body command< / h1 >
< div class = "section" id = "syntax" >
< h2 > Syntax< / h2 >
< div class = "highlight-default" > < div class = "highlight" > < pre > < span > < / span > < span class = "n" > fix< / span > < span class = "n" > ID< / span > < span class = "n" > group< / span > < span class = "o" > -< / span > < span class = "n" > ID< / span > < span class = "n" > npt< / span > < span class = "o" > /< / span > < span class = "n" > body< / span > < span class = "n" > keyword< / span > < span class = "n" > value< / span > < span class = "o" > ...< / span >
< / pre > < / div >
< / div >
< ul class = "simple" >
< li > ID, group-ID are documented in < a class = "reference internal" href = "fix.html" > < span class = "doc" > fix< / span > < / a > command< / li >
< li > npt/body = style name of this fix command< / li >
< li > additional thermostat and barostat related keyword/value pairs from the < a class = "reference internal" href = "fix_nh.html" > < span class = "doc" > fix npt< / span > < / a > command can be appended< / li >
< / ul >
< / div >
< div class = "section" id = "examples" >
< h2 > Examples< / h2 >
< div class = "highlight-default" > < div class = "highlight" > < pre > < span > < / span > < span class = "n" > fix< / span > < span class = "mi" > 1< / span > < span class = "nb" > all< / span > < span class = "n" > npt< / span > < span class = "o" > /< / span > < span class = "n" > body< / span > < span class = "n" > temp< / span > < span class = "mf" > 300.0< / span > < span class = "mf" > 300.0< / span > < span class = "mf" > 100.0< / span > < span class = "n" > iso< / span > < span class = "mf" > 0.0< / span > < span class = "mf" > 0.0< / span > < span class = "mf" > 1000.0< / span >
< span class = "n" > fix< / span > < span class = "mi" > 2< / span > < span class = "nb" > all< / span > < span class = "n" > npt< / span > < span class = "o" > /< / span > < span class = "n" > body< / span > < span class = "n" > temp< / span > < span class = "mf" > 300.0< / span > < span class = "mf" > 300.0< / span > < span class = "mf" > 100.0< / span > < span class = "n" > x< / span > < span class = "mf" > 5.0< / span > < span class = "mf" > 5.0< / span > < span class = "mf" > 1000.0< / span >
< span class = "n" > fix< / span > < span class = "mi" > 2< / span > < span class = "nb" > all< / span > < span class = "n" > npt< / span > < span class = "o" > /< / span > < span class = "n" > body< / span > < span class = "n" > temp< / span > < span class = "mf" > 300.0< / span > < span class = "mf" > 300.0< / span > < span class = "mf" > 100.0< / span > < span class = "n" > x< / span > < span class = "mf" > 5.0< / span > < span class = "mf" > 5.0< / span > < span class = "mf" > 1000.0< / span > < span class = "n" > drag< / span > < span class = "mf" > 0.2< / span >
< span class = "n" > fix< / span > < span class = "mi" > 2< / span > < span class = "n" > water< / span > < span class = "n" > npt< / span > < span class = "o" > /< / span > < span class = "n" > body< / span > < span class = "n" > temp< / span > < span class = "mf" > 300.0< / span > < span class = "mf" > 300.0< / span > < span class = "mf" > 100.0< / span > < span class = "n" > aniso< / span > < span class = "mf" > 0.0< / span > < span class = "mf" > 0.0< / span > < span class = "mf" > 1000.0< / span > < span class = "n" > dilate< / span > < span class = "n" > partial< / span >
< / pre > < / div >
< / div >
< / div >
< div class = "section" id = "description" >
< h2 > Description< / h2 >
< p > Perform constant NPT integration to update position, velocity,
orientation, and angular velocity each timestep for body
particles in the group using a Nose/Hoover temperature
thermostat and Nose/Hoover pressure barostat. P is pressure; T is
temperature. This creates a system trajectory consistent with the
isothermal-isobaric ensemble.< / p >
< p > This fix differs from the < a class = "reference internal" href = "fix_nh.html" > < span class = "doc" > fix npt< / span > < / a > command, which
assumes point particles and only updates their position and velocity.< / p >
< p > The thermostat is applied to both the translational and rotational
degrees of freedom for the body particles, assuming a compute is
used which calculates a temperature that includes the rotational
degrees of freedom (see below). The translational degrees of freedom
can also have a bias velocity removed from them before thermostatting
takes place; see the description below.< / p >
< p > Additional parameters affecting the thermostat and barostat are
specified by keywords and values documented with the < a class = "reference internal" href = "fix_nh.html" > < span class = "doc" > fix npt< / span > < / a > command. See, for example, discussion of the < em > temp< / em > ,
< em > iso< / em > , < em > aniso< / em > , and < em > dilate< / em > keywords.< / p >
< p > The particles in the fix group are the only ones whose velocities and
positions are updated by the velocity/position update portion of the
NPT integration.< / p >
< p > Regardless of what particles are in the fix group, a global pressure is
computed for all particles. Similarly, when the size of the simulation
box is changed, all particles are re-scaled to new positions, unless the
keyword < em > dilate< / em > is specified with a value of < em > partial< / em > , in which case
only the particles in the fix group are re-scaled. The latter can be
useful for leaving the coordinates of particles in a solid substrate
unchanged and controlling the pressure of a surrounding fluid.< / p >
< hr class = "docutils" / >
< p > This fix computes a temperature and pressure each timestep. To do
this, the fix creates its own computes of style “ temp/body” and
“ pressure” , as if these commands had been issued:< / p >
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< pre class = "literal-block" >
compute fix-ID_temp all temp/body
compute fix-ID_press all pressure fix-ID_temp
< / pre >
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< p > See the < a class = "reference internal" href = "compute_temp_body.html" > < span class = "doc" > compute temp/body< / span > < / a > and < a class = "reference internal" href = "compute_pressure.html" > < span class = "doc" > compute pressure< / span > < / a > commands for details. Note that the
IDs of the new computes are the fix-ID + underscore + “ temp” or fix_ID
+ underscore + “ press” , and the group for the new computes is “ all”
since pressure is computed for the entire system.< / p >
< p > Note that these are NOT the computes used by thermodynamic output (see
the < a class = "reference internal" href = "thermo_style.html" > < span class = "doc" > thermo_style< / span > < / a > command) with ID = < em > thermo_temp< / em >
and < em > thermo_press< / em > . This means you can change the attributes of this
fix’ s temperature or pressure via the
< a class = "reference internal" href = "compute_modify.html" > < span class = "doc" > compute_modify< / span > < / a > command or print this temperature
or pressure during thermodynamic output via the < a class = "reference internal" href = "thermo_style.html" > < span class = "doc" > thermo_style custom< / span > < / a > command using the appropriate compute-ID.
It also means that changing attributes of < em > thermo_temp< / em > or
< em > thermo_press< / em > will have no effect on this fix.< / p >
< p > Like other fixes that perform thermostatting, this fix can be used
with < a class = "reference internal" href = "compute.html" > < span class = "doc" > compute commands< / span > < / a > that calculate a temperature
after removing a “ bias” from the atom velocities. E.g. removing the
center-of-mass velocity from a group of atoms or only calculating
temperature on the x-component of velocity or only calculating
temperature for atoms in a geometric region. This is not done by
default, but only if the < a class = "reference internal" href = "fix_modify.html" > < span class = "doc" > fix_modify< / span > < / a > command is used
to assign a temperature compute to this fix that includes such a bias
term. See the doc pages for individual < a class = "reference internal" href = "compute.html" > < span class = "doc" > compute commands< / span > < / a > to determine which ones include a bias. In
this case, the thermostat works in the following manner: the current
temperature is calculated taking the bias into account, bias is
removed from each atom, thermostatting is performed on the remaining
thermal degrees of freedom, and the bias is added back in.< / p >
< hr class = "docutils" / >
2016-06-01 00:07:15 +08:00
< p > Styles with a < em > gpu< / em > , < em > intel< / em > , < em > kk< / em > , < em > omp< / em > , or < em > opt< / em > suffix are
2016-05-10 01:33:12 +08:00
functionally the same as the corresponding style without the suffix.
They have been optimized to run faster, depending on your available
2016-09-11 09:15:44 +08:00
hardware, as discussed in < a class = "reference internal" href = "Section_accelerate.html" > < span class = "doc" > Section 5< / span > < / a >
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of the manual. The accelerated styles take the same arguments and
should produce the same results, except for round-off and precision
issues.< / p >
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< p > These accelerated styles are part of the GPU, USER-INTEL, KOKKOS,
USER-OMP and OPT packages, respectively. They are only enabled if
LAMMPS was built with those packages. See the < a class = "reference internal" href = "Section_start.html#start-3" > < span class = "std std-ref" > Making LAMMPS< / span > < / a > section for more info.< / p >
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< p > You can specify the accelerated styles explicitly in your input script
by including their suffix, or you can use the < a class = "reference internal" href = "Section_start.html#start-7" > < span class = "std std-ref" > -suffix command-line switch< / span > < / a > when you invoke LAMMPS, or you can
use the < a class = "reference internal" href = "suffix.html" > < span class = "doc" > suffix< / span > < / a > command in your input script.< / p >
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< p > See < a class = "reference internal" href = "Section_accelerate.html" > < span class = "doc" > Section 5< / span > < / a > of the manual for
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more instructions on how to use the accelerated styles effectively.< / p >
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< p > < strong > Restart, fix_modify, output, run start/stop, minimize info:< / strong > < / p >
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< p > This fix writes the state of the Nose/Hoover thermostat and barostat
to < a class = "reference internal" href = "restart.html" > < span class = "doc" > binary restart files< / span > < / a > . See the
< a class = "reference internal" href = "read_restart.html" > < span class = "doc" > read_restart< / span > < / a > command for info on how to re-specify
a fix in an input script that reads a restart file, so that the
operation of the fix continues in an uninterrupted fashion.< / p >
< p > The < a class = "reference internal" href = "fix_modify.html" > < span class = "doc" > fix_modify< / span > < / a > < em > temp< / em > and < em > press< / em > options are
supported by this fix. You can use them to assign a
< a class = "reference internal" href = "compute.html" > < span class = "doc" > compute< / span > < / a > you have defined to this fix which will be used
in its thermostatting or barostatting procedure. If you do this, note
that the kinetic energy derived from the compute temperature should be
consistent with the virial term computed using all atoms for the
pressure. LAMMPS will warn you if you choose to compute temperature
on a subset of atoms.< / p >
< p > The < a class = "reference internal" href = "fix_modify.html" > < span class = "doc" > fix_modify< / span > < / a > < em > energy< / em > option is supported by this
fix to add the energy change induced by Nose/Hoover thermostatting and
barostatting to the system’ s potential energy as part of
< a class = "reference internal" href = "thermo_style.html" > < span class = "doc" > thermodynamic output< / span > < / a > .< / p >
< p > This fix computes the same global scalar and global vector of
quantities as does the < a class = "reference internal" href = "fix_nh.html" > < span class = "doc" > fix npt< / span > < / a > command.< / p >
< p > This fix can ramp its target temperature and pressure over multiple
runs, using the < em > start< / em > and < em > stop< / em > keywords of the < a class = "reference internal" href = "run.html" > < span class = "doc" > run< / span > < / a >
command. See the < a class = "reference internal" href = "run.html" > < span class = "doc" > run< / span > < / a > command for details of how to do
this.< / p >
< p > This fix is not invoked during < a class = "reference internal" href = "minimize.html" > < span class = "doc" > energy minimization< / span > < / a > .< / p >
< / div >
< div class = "section" id = "restrictions" >
< h2 > Restrictions< / h2 >
< p > This fix is part of the BODY package. It is only enabled if LAMMPS
was built with that package. See the < a class = "reference internal" href = "Section_start.html#start-3" > < span class = "std std-ref" > Making LAMMPS< / span > < / a > section for more info.< / p >
< p > This fix requires that atoms store torque and angular momementum and a
quaternion as defined by the < a class = "reference internal" href = "atom_style.html" > < span class = "doc" > atom_style body< / span > < / a >
command.< / p >
< / div >
< div class = "section" id = "related-commands" >
< h2 > Related commands< / h2 >
< p > < a class = "reference internal" href = "fix_nh.html" > < span class = "doc" > fix npt< / span > < / a > , < a class = "reference internal" href = "fix_nve_body.html" > < span class = "doc" > fix nve_body< / span > < / a > , < a class = "reference internal" href = "fix_nvt_body.html" > < span class = "doc" > fix nvt_body< / span > < / a > , < a class = "reference internal" href = "fix_modify.html" > < span class = "doc" > fix_modify< / span > < / a > < / p >
< p > < strong > Default:< / strong > none< / p >
< / div >
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