From ce10fd01a8cba6a0143b025e8b17b4cce85a3b7f Mon Sep 17 00:00:00 2001 From: Axel Kohlmeyer Date: Fri, 31 Jan 2020 14:00:53 -0500 Subject: [PATCH] remove redundant/obsolete link definitions --- doc/src/Build.rst | 3 --- doc/src/Build_basics.rst | 3 --- doc/src/Build_cmake.rst | 3 --- doc/src/Build_development.rst | 3 --- doc/src/Build_extras.rst | 3 --- doc/src/Build_link.rst | 3 --- doc/src/Build_make.rst | 3 --- doc/src/Build_package.rst | 3 --- doc/src/Build_settings.rst | 3 --- doc/src/Build_windows.rst | 3 --- doc/src/Commands_removed.rst | 3 --- doc/src/Errors.rst | 3 --- doc/src/Errors_bugs.rst | 3 --- doc/src/Errors_common.rst | 3 --- doc/src/Errors_messages.rst | 3 --- doc/src/Errors_warnings.rst | 3 --- doc/src/Examples.rst | 3 --- doc/src/Howto.rst | 3 --- doc/src/Howto_2d.rst | 3 --- doc/src/Howto_barostat.rst | 3 --- doc/src/Howto_bash.rst | 3 --- doc/src/Howto_bioFF.rst | 3 --- doc/src/Howto_body.rst | 3 --- doc/src/Howto_chunk.rst | 3 --- doc/src/Howto_client_server.rst 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doc/src/pair_gromacs.rst | 3 --- doc/src/pair_gw.rst | 3 --- doc/src/pair_hbond_dreiding.rst | 3 --- doc/src/pair_hybrid.rst | 3 --- doc/src/pair_ilp_graphene_hbn.rst | 3 --- doc/src/pair_kim.rst | 3 --- doc/src/pair_kolmogorov_crespi_full.rst | 3 --- doc/src/pair_kolmogorov_crespi_z.rst | 3 --- doc/src/pair_lcbop.rst | 3 --- doc/src/pair_lebedeva_z.rst | 3 --- doc/src/pair_line_lj.rst | 3 --- doc/src/pair_lj.rst | 3 --- doc/src/pair_lj96.rst | 3 --- doc/src/pair_lj_cubic.rst | 3 --- doc/src/pair_lj_expand.rst | 3 --- doc/src/pair_lj_long.rst | 3 --- doc/src/pair_lj_smooth.rst | 3 --- doc/src/pair_lj_smooth_linear.rst | 3 --- doc/src/pair_lj_switch3_coulgauss_long.rst | 3 --- doc/src/pair_local_density.rst | 3 --- doc/src/pair_lubricate.rst | 3 --- doc/src/pair_lubricateU.rst | 3 --- doc/src/pair_mdf.rst | 3 --- doc/src/pair_meam_spline.rst | 3 --- doc/src/pair_meam_sw_spline.rst | 3 --- doc/src/pair_meamc.rst | 3 --- doc/src/pair_meso.rst | 3 --- doc/src/pair_mesocnt.rst | 3 --- doc/src/pair_mgpt.rst | 3 --- doc/src/pair_mie.rst | 3 --- doc/src/pair_mm3_switch3_coulgauss_long.rst | 3 --- doc/src/pair_modify.rst | 3 --- doc/src/pair_momb.rst | 3 --- doc/src/pair_morse.rst | 3 --- doc/src/pair_multi_lucy.rst | 3 --- doc/src/pair_multi_lucy_rx.rst | 3 --- doc/src/pair_nb3b_harmonic.rst | 3 --- doc/src/pair_nm.rst | 3 --- doc/src/pair_none.rst | 3 --- doc/src/pair_oxdna.rst | 3 --- doc/src/pair_oxdna2.rst | 3 --- doc/src/pair_peri.rst | 3 --- doc/src/pair_polymorphic.rst | 3 --- doc/src/pair_python.rst | 3 --- doc/src/pair_quip.rst | 3 --- doc/src/pair_reaxc.rst | 3 --- doc/src/pair_resquared.rst | 3 --- doc/src/pair_sdk.rst | 3 --- doc/src/pair_sdpd_taitwater_isothermal.rst | 3 --- doc/src/pair_smd_hertz.rst | 3 --- doc/src/pair_smd_tlsph.rst | 3 --- doc/src/pair_smd_triangulated_surface.rst | 3 --- doc/src/pair_smd_ulsph.rst | 3 --- doc/src/pair_smtbq.rst | 3 --- doc/src/pair_snap.rst | 3 --- doc/src/pair_soft.rst | 3 --- doc/src/pair_sph_heatconduction.rst | 3 --- doc/src/pair_sph_idealgas.rst | 3 --- doc/src/pair_sph_lj.rst | 3 --- doc/src/pair_sph_rhosum.rst | 3 --- doc/src/pair_sph_taitwater.rst | 3 --- doc/src/pair_sph_taitwater_morris.rst | 3 --- doc/src/pair_spin_dipole.rst | 3 --- doc/src/pair_spin_dmi.rst | 3 --- doc/src/pair_spin_magelec.rst | 3 --- doc/src/pair_srp.rst | 3 --- doc/src/pair_style.rst | 3 --- doc/src/pair_sw.rst | 3 --- doc/src/pair_table.rst | 3 --- doc/src/pair_table_rx.rst | 3 --- doc/src/pair_tersoff.rst | 3 --- doc/src/pair_tersoff_mod.rst | 3 --- doc/src/pair_tersoff_zbl.rst | 3 --- doc/src/pair_thole.rst | 3 --- doc/src/pair_tri_lj.rst | 3 --- doc/src/pair_ufm.rst | 3 --- doc/src/pair_vashishta.rst | 3 --- doc/src/pair_write.rst | 3 --- doc/src/pair_yukawa.rst | 3 --- doc/src/pair_yukawa_colloid.rst | 3 --- doc/src/pair_zbl.rst | 3 --- doc/src/pair_zero.rst | 3 --- doc/src/partition.rst | 3 --- doc/src/prd.rst | 3 --- doc/src/print.rst | 3 --- doc/src/processors.rst | 3 --- doc/src/python.rst | 3 --- doc/src/quit.rst | 3 --- doc/src/read_data.rst | 3 --- doc/src/read_dump.rst | 3 --- doc/src/read_restart.rst | 3 --- doc/src/region.rst | 3 --- doc/src/replicate.rst | 3 --- doc/src/rerun.rst | 3 --- doc/src/reset_ids.rst | 3 --- doc/src/reset_timestep.rst | 3 --- doc/src/restart.rst | 3 --- doc/src/run.rst | 3 --- doc/src/run_style.rst | 3 --- doc/src/server.rst | 3 --- doc/src/server_mc.rst | 3 --- doc/src/server_md.rst | 3 --- doc/src/set.rst | 3 --- doc/src/shell.rst | 3 --- doc/src/special_bonds.rst | 3 --- doc/src/suffix.rst | 3 --- doc/src/tad.rst | 3 --- doc/src/temper.rst | 3 --- doc/src/temper_grem.rst | 3 --- doc/src/temper_npt.rst | 3 --- doc/src/thermo.rst | 3 --- doc/src/thermo_modify.rst | 3 --- doc/src/thermo_style.rst | 3 --- doc/src/third_order.rst | 3 --- doc/src/timer.rst | 3 --- doc/src/timestep.rst | 3 --- doc/src/uncompute.rst | 3 --- doc/src/undump.rst | 3 --- doc/src/unfix.rst | 3 --- doc/src/units.rst | 3 --- doc/src/variable.rst | 3 --- doc/src/velocity.rst | 3 --- doc/src/write_coeff.rst | 3 --- doc/src/write_data.rst | 3 --- doc/src/write_dump.rst | 3 --- doc/src/write_restart.rst | 5 ----- 691 files changed, 2086 deletions(-) diff --git a/doc/src/Build.rst b/doc/src/Build.rst index 2eba3ddd48..750f6df68e 100644 --- a/doc/src/Build.rst +++ b/doc/src/Build.rst @@ -23,6 +23,3 @@ as described on the :doc:`Install ` doc page. Build_development -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Build_basics.rst b/doc/src/Build_basics.rst index cf77c81e69..bb2c522c45 100644 --- a/doc/src/Build_basics.rst +++ b/doc/src/Build_basics.rst @@ -432,6 +432,3 @@ wish to do this you will need to first build LAMMPS, then manually copy the desired LAMMPS files to the appropriate system directories. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Build_cmake.rst b/doc/src/Build_cmake.rst index 78459bb990..394ed2c130 100644 --- a/doc/src/Build_cmake.rst +++ b/doc/src/Build_cmake.rst @@ -240,6 +240,3 @@ Instructions on how to install it on various platforms can be found `on this page `_. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Build_development.rst b/doc/src/Build_development.rst index 7286caf7b3..61ca21b188 100644 --- a/doc/src/Build_development.rst +++ b/doc/src/Build_development.rst @@ -115,6 +115,3 @@ These reports require GCOVR to be installed. The easiest way to do this to insta -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Build_extras.rst b/doc/src/Build_extras.rst index 951e094c12..e59d05d25c 100644 --- a/doc/src/Build_extras.rst +++ b/doc/src/Build_extras.rst @@ -1416,6 +1416,3 @@ Makefile.lammps. If none of the provided files work, you will need to edit the Makefile.lammps file. See lib/vtk/README for details. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Build_link.rst b/doc/src/Build_link.rst index 8306fcb86f..c79536e041 100644 --- a/doc/src/Build_link.rst +++ b/doc/src/Build_link.rst @@ -86,6 +86,3 @@ Other examples in the COUPLE directory use coupling ideas discussed on the :doc:`Howto couple ` doc page. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Build_make.rst b/doc/src/Build_make.rst index 8f1966f101..62ed156eeb 100644 --- a/doc/src/Build_make.rst +++ b/doc/src/Build_make.rst @@ -89,6 +89,3 @@ settings may become outdated: make kokkos_phi # build with the KOKKOS package for KNLs -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Build_package.rst b/doc/src/Build_package.rst index 9f56f3f329..22ae9ba82c 100644 --- a/doc/src/Build_package.rst +++ b/doc/src/Build_package.rst @@ -260,6 +260,3 @@ Type "make package-diff" to list all differences between pairs of files in both the src dir and a package dir. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Build_settings.rst b/doc/src/Build_settings.rst index cdb8016f57..a4cc65db65 100644 --- a/doc/src/Build_settings.rst +++ b/doc/src/Build_settings.rst @@ -490,6 +490,3 @@ e.g. to Python. LMP_INC = -DLAMMPS_EXCEPTIONS -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Build_windows.rst b/doc/src/Build_windows.rst index fd96b37983..190bcf00f8 100644 --- a/doc/src/Build_windows.rst +++ b/doc/src/Build_windows.rst @@ -106,6 +106,3 @@ style build environment, but the LAMMPS code itself is not fully ported to support Visual C++. Volunteers to take on this task are welcome. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Commands_removed.rst b/doc/src/Commands_removed.rst index b7f48a9c36..e40869294e 100644 --- a/doc/src/Commands_removed.rst +++ b/doc/src/Commands_removed.rst @@ -62,6 +62,3 @@ combination of the commands :doc:`read_restart ` and convenience this conversion can also be triggered by :doc:`command line flags ` -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Errors.rst b/doc/src/Errors.rst index eccb94b7b0..32f0a849b1 100644 --- a/doc/src/Errors.rst +++ b/doc/src/Errors.rst @@ -17,6 +17,3 @@ additional details for many of them. Errors_warnings -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Errors_bugs.rst b/doc/src/Errors_bugs.rst index 5c297a3a1a..83f101fa89 100644 --- a/doc/src/Errors_bugs.rst +++ b/doc/src/Errors_bugs.rst @@ -27,6 +27,3 @@ causing the problem. this page needs to have GitHub issues info added -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Errors_common.rst b/doc/src/Errors_common.rst index 2da3e623dc..835dcdd8fa 100644 --- a/doc/src/Errors_common.rst +++ b/doc/src/Errors_common.rst @@ -123,6 +123,3 @@ setting or two (usually via an environment variable) to enable buffering or boost the sizes of messages that can be buffered. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Errors_messages.rst b/doc/src/Errors_messages.rst index 8c457bba83..e4b438e421 100644 --- a/doc/src/Errors_messages.rst +++ b/doc/src/Errors_messages.rst @@ -8419,6 +8419,3 @@ keyword to allow for additional bonds to be formed -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Errors_warnings.rst b/doc/src/Errors_warnings.rst index 7b8f85dc9a..4d1681d889 100644 --- a/doc/src/Errors_warnings.rst +++ b/doc/src/Errors_warnings.rst @@ -800,6 +800,3 @@ This will most likely cause errors in kinetic fluctuations. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Examples.rst b/doc/src/Examples.rst index 993090baf1..8916b3b4fe 100644 --- a/doc/src/Examples.rst +++ b/doc/src/Examples.rst @@ -232,6 +232,3 @@ page for more info on specific USER packages. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto.rst b/doc/src/Howto.rst index 9f310a4645..4b9fd76760 100644 --- a/doc/src/Howto.rst +++ b/doc/src/Howto.rst @@ -101,6 +101,3 @@ Packages howto Howto_spins -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_2d.rst b/doc/src/Howto_2d.rst index d4fce71230..a003c1d8c1 100644 --- a/doc/src/Howto_2d.rst +++ b/doc/src/Howto_2d.rst @@ -43,6 +43,3 @@ are for 2d models. commands. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_barostat.rst b/doc/src/Howto_barostat.rst index 7f016e0c14..2c6949d9b9 100644 --- a/doc/src/Howto_barostat.rst +++ b/doc/src/Howto_barostat.rst @@ -63,6 +63,3 @@ re-define what pressure compute is used for default thermodynamic output. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_bash.rst b/doc/src/Howto_bash.rst index 20d808f22a..0b26b34cdf 100644 --- a/doc/src/Howto_bash.rst +++ b/doc/src/Howto_bash.rst @@ -286,6 +286,3 @@ the PATH variable should be tutorials explaining Bash and Basic Unix commands (e.g., `Linux Journey `_) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_bioFF.rst b/doc/src/Howto_bioFF.rst index fe8f6482aa..9ae459230d 100644 --- a/doc/src/Howto_bioFF.rst +++ b/doc/src/Howto_bioFF.rst @@ -146,6 +146,3 @@ Spellmeyer, Fox, Caldwell, Kollman, JACS 117, 5179-5197 (1995). (1990). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_body.rst b/doc/src/Howto_body.rst index f929b9f439..ee1805f0fa 100644 --- a/doc/src/Howto_body.rst +++ b/doc/src/Howto_body.rst @@ -514,6 +514,3 @@ Particuology, 6, 455 (2008). Matter, 13, 1 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_chunk.rst b/doc/src/Howto_chunk.rst index 337a24c9b7..53dff2a723 100644 --- a/doc/src/Howto_chunk.rst +++ b/doc/src/Howto_chunk.rst @@ -214,6 +214,3 @@ on the :doc:`compute chunk/spread/atom ` command doc page. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_client_server.rst b/doc/src/Howto_client_server.rst index 26f14e8e5b..a969a33341 100644 --- a/doc/src/Howto_client_server.rst +++ b/doc/src/Howto_client_server.rst @@ -159,6 +159,3 @@ the multiple executables that the mpirun command launches. In this example the client was colored with a 0, and the server with a 1. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_coreshell.rst b/doc/src/Howto_coreshell.rst index 8b2ba38306..aae83f983b 100644 --- a/doc/src/Howto_coreshell.rst +++ b/doc/src/Howto_coreshell.rst @@ -266,6 +266,3 @@ The additional section in the date file would be formatted like this: 6, 393-404 (1994). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_couple.rst b/doc/src/Howto_couple.rst index e92e985ab4..d415b7740f 100644 --- a/doc/src/Howto_couple.rst +++ b/doc/src/Howto_couple.rst @@ -120,6 +120,3 @@ described on the :doc:`Howto client/server ` doc page. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_diffusion.rst b/doc/src/Howto_diffusion.rst index 8c5dbd7a8f..ebf0d0c2f6 100644 --- a/doc/src/Howto_diffusion.rst +++ b/doc/src/Howto_diffusion.rst @@ -27,6 +27,3 @@ and thus extract D. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_dispersion.rst b/doc/src/Howto_dispersion.rst index c6a0813516..6aea99b0c5 100644 --- a/doc/src/Howto_dispersion.rst +++ b/doc/src/Howto_dispersion.rst @@ -100,6 +100,3 @@ rule is fulfilled. If mixing rules do not apply, the user will have to specify this command explicitly. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_drude.rst b/doc/src/Howto_drude.rst index 78eb7ba49f..425575fd80 100644 --- a/doc/src/Howto_drude.rst +++ b/doc/src/Howto_drude.rst @@ -67,6 +67,3 @@ too close, which can cause numerical issues. **(Lamoureux and Roux)** G. Lamoureux, B. Roux, J. Chem. Phys 119, 3025 (2003) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_drude2.rst b/doc/src/Howto_drude2.rst index e1572df6c6..3d22d6030d 100644 --- a/doc/src/Howto_drude2.rst +++ b/doc/src/Howto_drude2.rst @@ -537,6 +537,3 @@ NPT ensemble using Nose-Hoover thermostat: Let, 418, 245-249 (2006) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_elastic.rst b/doc/src/Howto_elastic.rst index 389c8e19de..4d4f01f5f0 100644 --- a/doc/src/Howto_elastic.rst +++ b/doc/src/Howto_elastic.rst @@ -44,6 +44,3 @@ converge and requires careful post-processing :ref:`(Shinoda) ` **(Shinoda)** Shinoda, Shiga, and Mikami, Phys Rev B, 69, 134103 (2004). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_github.rst b/doc/src/Howto_github.rst index d4925a8324..299b36fb71 100644 --- a/doc/src/Howto_github.rst +++ b/doc/src/Howto_github.rst @@ -494,6 +494,3 @@ A discussion of the LAMMPS developer GitHub workflow can be found in the file `doc/github-development-workflow.md `_ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_granular.rst b/doc/src/Howto_granular.rst index 0bd4fa0349..8e387bea3a 100644 --- a/doc/src/Howto_granular.rst +++ b/doc/src/Howto_granular.rst @@ -50,6 +50,3 @@ computations between frozen atoms by using this command: doc page, where 2d simulations are discussed. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_kappa.rst b/doc/src/Howto_kappa.rst index d7fb3b3ee2..fe2dd99bf3 100644 --- a/doc/src/Howto_kappa.rst +++ b/doc/src/Howto_kappa.rst @@ -81,6 +81,3 @@ formalism. (2015). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_library.rst b/doc/src/Howto_library.rst index b3ae917a6d..fe8d4f5ad6 100644 --- a/doc/src/Howto_library.rst +++ b/doc/src/Howto_library.rst @@ -247,6 +247,3 @@ assigned via the lammps\_scatter\_atoms() or lammps\_extract\_atom() functions. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_manifold.rst b/doc/src/Howto_manifold.rst index 4e3893993f..dc1b69455b 100644 --- a/doc/src/Howto_manifold.rst +++ b/doc/src/Howto_manifold.rst @@ -52,6 +52,3 @@ to the relevant fixes. preprint available at `arXiv:1411.3019 `_. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_multiple.rst b/doc/src/Howto_multiple.rst index 5f36863fa4..b1d3dca024 100644 --- a/doc/src/Howto_multiple.rst +++ b/doc/src/Howto_multiple.rst @@ -98,6 +98,3 @@ partition. When one finished, that partition would then start the 4th simulation, and so forth, until all 8 were completed. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_nemd.rst b/doc/src/Howto_nemd.rst index c29065e672..97529eafd2 100644 --- a/doc/src/Howto_nemd.rst +++ b/doc/src/Howto_nemd.rst @@ -55,6 +55,3 @@ using the :doc:`fix flow/gauss ` command. Cambridge University Press, https://doi.org/10.1017/9781139017848, (2017). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_output.rst b/doc/src/Howto_output.rst index 617447fc04..9eda1987a6 100644 --- a/doc/src/Howto_output.rst +++ b/doc/src/Howto_output.rst @@ -344,6 +344,3 @@ vector input could be a column of an array. +--------------------------------------------------------+----------------------------------------------+-------------------------------------------+ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_polarizable.rst b/doc/src/Howto_polarizable.rst index e9bca43128..b60cc4c2d9 100644 --- a/doc/src/Howto_polarizable.rst +++ b/doc/src/Howto_polarizable.rst @@ -73,6 +73,3 @@ relative core-Drude particle motion is thermostatted separately as well. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_pylammps.rst b/doc/src/Howto_pylammps.rst index 2711e26914..cb323d647c 100644 --- a/doc/src/Howto_pylammps.rst +++ b/doc/src/Howto_pylammps.rst @@ -579,6 +579,3 @@ want to encourage people to write tutorial style IPython notebooks showcasing LA and maybe their latest research results. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_replica.rst b/doc/src/Howto_replica.rst index 885cdf050e..aa5dae840e 100644 --- a/doc/src/Howto_replica.rst +++ b/doc/src/Howto_replica.rst @@ -55,6 +55,3 @@ a multi-replica simulation on more replicas than you have physical processors. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_restart.rst b/doc/src/Howto_restart.rst index c6dc818816..79b0c30221 100644 --- a/doc/src/Howto_restart.rst +++ b/doc/src/Howto_restart.rst @@ -100,6 +100,3 @@ LAMMPS the current timestep. This value is stored in restart files, but not in data files. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_spc.rst b/doc/src/Howto_spc.rst index 353f32c193..c0f255ce84 100644 --- a/doc/src/Howto_spc.rst +++ b/doc/src/Howto_spc.rst @@ -52,6 +52,3 @@ Wikipedia also has a nice article on `water models `. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_spins.rst b/doc/src/Howto_spins.rst index eb1cf1e956..87763d9405 100644 --- a/doc/src/Howto_spins.rst +++ b/doc/src/Howto_spins.rst @@ -68,6 +68,3 @@ magnetic spin, or the magnetic force acting on this spin. Journal of Computational Physics, 372, 406-425, (2018). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_temperature.rst b/doc/src/Howto_temperature.rst index ec9cdae2e6..dce83534ac 100644 --- a/doc/src/Howto_temperature.rst +++ b/doc/src/Howto_temperature.rst @@ -33,6 +33,3 @@ velocity bias. This allows the translational velocity of spherical or aspherical particles to be adjusted in prescribed ways. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_thermostat.rst b/doc/src/Howto_thermostat.rst index 273876c9fd..5a87356893 100644 --- a/doc/src/Howto_thermostat.rst +++ b/doc/src/Howto_thermostat.rst @@ -94,6 +94,3 @@ temperature compute is used for default thermodynamic output. Cambridge University Press, https://doi.org/10.1017/9781139017848, (2017). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_tip3p.rst b/doc/src/Howto_tip3p.rst index a83fa0dd0d..4c03c719ec 100644 --- a/doc/src/Howto_tip3p.rst +++ b/doc/src/Howto_tip3p.rst @@ -76,6 +76,3 @@ Phys, 79, 926 (1983). **(Price)** Price and Brooks, J Chem Phys, 121, 10096 (2004). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_tip4p.rst b/doc/src/Howto_tip4p.rst index c55e22ba60..c527f5642c 100644 --- a/doc/src/Howto_tip4p.rst +++ b/doc/src/Howto_tip4p.rst @@ -111,6 +111,3 @@ Wikipedia also has a nice article on `water models ` - `LAMMPS WWW Site `_ - `LAMMPS Documentation `_ - `LAMMPS Commands `_ - -.. _lws: http://lammps.sandia.gov - - - -.. _ld: Manual.html - - - -.. _lc: Commands\_all.html - - - Triclinic (non-orthogonal) simulation boxes =========================================== diff --git a/doc/src/Howto_viscosity.rst b/doc/src/Howto_viscosity.rst index 0b74784534..748e9af910 100644 --- a/doc/src/Howto_viscosity.rst +++ b/doc/src/Howto_viscosity.rst @@ -143,6 +143,3 @@ with time at sufficiently long times. Cambridge University Press, https://doi.org/10.1017/9781139017848, (2017). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_viz.rst b/doc/src/Howto_viz.rst index c2cdc56b48..8b0316c216 100644 --- a/doc/src/Howto_viz.rst +++ b/doc/src/Howto_viz.rst @@ -38,6 +38,3 @@ snapshots. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Howto_walls.rst b/doc/src/Howto_walls.rst index eed28f2ed1..4f53b8e92a 100644 --- a/doc/src/Howto_walls.rst +++ b/doc/src/Howto_walls.rst @@ -71,6 +71,3 @@ command. At some point we plan to allow regoin surfaces to be used as frictional walls, as well as triangulated surfaces. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Install.rst b/doc/src/Install.rst index 4a403a336d..3b2eba9be4 100644 --- a/doc/src/Install.rst +++ b/doc/src/Install.rst @@ -53,6 +53,3 @@ some of them if you download executables, as explained on the pages listed above. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Install_conda.rst b/doc/src/Install_conda.rst index 33188e2540..547513e42d 100644 --- a/doc/src/Install_conda.rst +++ b/doc/src/Install_conda.rst @@ -43,6 +43,3 @@ up the Conda capability. .. _mini_conda_install: https://docs.conda.io/en/latest/miniconda.html -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Install_git.rst b/doc/src/Install_git.rst index 9d9d36f8f6..85b919bf38 100644 --- a/doc/src/Install_git.rst +++ b/doc/src/Install_git.rst @@ -123,6 +123,3 @@ gmail.com) and Richard Berger (Temple U, richard.berger at temple.edu). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Install_linux.rst b/doc/src/Install_linux.rst index e690afdd58..fe3aac24ea 100644 --- a/doc/src/Install_linux.rst +++ b/doc/src/Install_linux.rst @@ -264,6 +264,3 @@ Note that the AUR provides build-scripts that download the source and the build the package on your machine. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Install_mac.rst b/doc/src/Install_mac.rst index cc8bbc9a92..f9a1adcf87 100644 --- a/doc/src/Install_mac.rst +++ b/doc/src/Install_mac.rst @@ -49,6 +49,3 @@ up the Homebrew capability. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Install_patch.rst b/doc/src/Install_patch.rst index 537d8ae4b9..e7e5d36aa8 100644 --- a/doc/src/Install_patch.rst +++ b/doc/src/Install_patch.rst @@ -63,6 +63,3 @@ up to date. package-update". -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Install_svn.rst b/doc/src/Install_svn.rst index 097caf5cce..1310a8d930 100644 --- a/doc/src/Install_svn.rst +++ b/doc/src/Install_svn.rst @@ -97,6 +97,3 @@ gmail.com) and Richard Berger (Temple U, richard.berger at temple.edu). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Install_tarball.rst b/doc/src/Install_tarball.rst index 37db83157a..de874c967f 100644 --- a/doc/src/Install_tarball.rst +++ b/doc/src/Install_tarball.rst @@ -79,6 +79,3 @@ in the new patch release. Instructions for applying a patch file are on the :doc:`Install patch ` doc page. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Install_windows.rst b/doc/src/Install_windows.rst index aed6d935c2..17edf1c3f8 100644 --- a/doc/src/Install_windows.rst +++ b/doc/src/Install_windows.rst @@ -44,6 +44,3 @@ Thanks to Axel Kohlmeyer (Temple U, akohlmey at gmail.com) for setting up this Windows capability. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Intro.rst b/doc/src/Intro.rst index 218dd4653a..0c6fc3e74e 100644 --- a/doc/src/Intro.rst +++ b/doc/src/Intro.rst @@ -16,6 +16,3 @@ These pages provide a brief introduction to LAMMPS. Intro_website -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Intro_authors.rst b/doc/src/Intro_authors.rst index 26a6f6846e..e51ea67430 100644 --- a/doc/src/Intro_authors.rst +++ b/doc/src/Intro_authors.rst @@ -64,6 +64,3 @@ version of LAMMPS were the following: * Jim Belak and Roy Pollock (LLNL) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Intro_features.rst b/doc/src/Intro_features.rst index aa41f2d488..a3beffafe2 100644 --- a/doc/src/Intro_features.rst +++ b/doc/src/Intro_features.rst @@ -226,6 +226,3 @@ classical MD options: * :doc:`two-temperature electron model ` -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Intro_nonfeatures.rst b/doc/src/Intro_nonfeatures.rst index 9c09eb0466..4f44f6e989 100644 --- a/doc/src/Intro_nonfeatures.rst +++ b/doc/src/Intro_nonfeatures.rst @@ -82,6 +82,3 @@ Here are suggestions on how to perform these tasks: and is available for download from `this page `_. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Intro_opensource.rst b/doc/src/Intro_opensource.rst index 211e812eaa..b481611166 100644 --- a/doc/src/Intro_opensource.rst +++ b/doc/src/Intro_opensource.rst @@ -44,6 +44,3 @@ source file headers (including the copyright and GPL notices) should remain part of the code. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Intro_overview.rst b/doc/src/Intro_overview.rst index a97adc8235..5379231b9c 100644 --- a/doc/src/Intro_overview.rst +++ b/doc/src/Intro_overview.rst @@ -49,6 +49,3 @@ Processors communicate and store "ghost" atom information for atoms that border their sub-domain. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Intro_website.rst b/doc/src/Intro_website.rst index 6adbd05e8c..eb054f2bea 100644 --- a/doc/src/Intro_website.rst +++ b/doc/src/Intro_website.rst @@ -34,6 +34,3 @@ this Intr are included in this list. * `Funding for LAMMPS `_ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Manual.rst b/doc/src/Manual.rst index dd67a13427..b6a670b6a8 100644 --- a/doc/src/Manual.rst +++ b/doc/src/Manual.rst @@ -87,6 +87,3 @@ Indices and tables -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Manual_build.rst b/doc/src/Manual_build.rst index c1cd1aabb9..9351356e0a 100644 --- a/doc/src/Manual_build.rst +++ b/doc/src/Manual_build.rst @@ -136,6 +136,3 @@ software installed. `http://calibre-ebook.com/ `_ You first create the ePUB file and then convert it with 'make mobi' -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Manual_version.rst b/doc/src/Manual_version.rst index ca3819aed8..167f674dc0 100644 --- a/doc/src/Manual_version.rst +++ b/doc/src/Manual_version.rst @@ -23,6 +23,3 @@ first page of the :doc:`manual `. describe the version you have, which may be older. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify.rst b/doc/src/Modify.rst index f875084d50..312bc9dba4 100644 --- a/doc/src/Modify.rst +++ b/doc/src/Modify.rst @@ -35,6 +35,3 @@ as a pull request on our `GitHub site `_, afte Modify_variable -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_atom.rst b/doc/src/Modify_atom.rst index d44a805161..d0cfd3b867 100644 --- a/doc/src/Modify_atom.rst +++ b/doc/src/Modify_atom.rst @@ -119,6 +119,3 @@ Ivector or dvector are vectors of length Nlocal = # of owned atoms, which store the attributes of individual atoms. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_body.rst b/doc/src/Modify_body.rst index 5e40e237fc..82114acbad 100644 --- a/doc/src/Modify_body.rst +++ b/doc/src/Modify_body.rst @@ -35,6 +35,3 @@ class. See body.h for details. +----------------------+-----------------------------------------------------------+ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_bond.rst b/doc/src/Modify_bond.rst index f1fd0894a0..1582e921b6 100644 --- a/doc/src/Modify_bond.rst +++ b/doc/src/Modify_bond.rst @@ -36,6 +36,3 @@ for details and specific additional methods. +-----------------------+---------------------------------------------------------------------------+ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_command.rst b/doc/src/Modify_command.rst index 9487f4c35b..4b6e36b131 100644 --- a/doc/src/Modify_command.rst +++ b/doc/src/Modify_command.rst @@ -20,6 +20,3 @@ Of course, the new class can define other methods and variables as needed. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_compute.rst b/doc/src/Modify_compute.rst index 81c55b5ed2..55d9db88df 100644 --- a/doc/src/Modify_compute.rst +++ b/doc/src/Modify_compute.rst @@ -57,6 +57,3 @@ compute\_vector or compute\_peratom methods. The USER-TALLY package provides *examples*\ \_compute\_tally.html for utilizing this mechanism. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_contribute.rst b/doc/src/Modify_contribute.rst index 740ddb555d..a83a7d830f 100644 --- a/doc/src/Modify_contribute.rst +++ b/doc/src/Modify_contribute.rst @@ -198,6 +198,3 @@ easier you make it for people to get started, e.g. by providing example scripts, the more likely it is that users will try out your new feature. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_dump.rst b/doc/src/Modify_dump.rst index c44aa0a96a..275b0417e7 100644 --- a/doc/src/Modify_dump.rst +++ b/doc/src/Modify_dump.rst @@ -32,6 +32,3 @@ added to the :doc:`dump custom ` command. Instead they are added to the :doc:`compute property/atom ` command. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_fix.rst b/doc/src/Modify_fix.rst index d4c4fa046f..4ab8a2065a 100644 --- a/doc/src/Modify_fix.rst +++ b/doc/src/Modify_fix.rst @@ -153,6 +153,3 @@ enables a fix to contribute values to thermodynamic output, as printed quantities and/or to be summed to the potential energy of the system. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_kspace.rst b/doc/src/Modify_kspace.rst index 41ad5a3602..f7a7fde802 100644 --- a/doc/src/Modify_kspace.rst +++ b/doc/src/Modify_kspace.rst @@ -21,6 +21,3 @@ class. See kspace.h for details. +---------------+----------------------------------------------+ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_min.rst b/doc/src/Modify_min.rst index 2cdd620f0e..f6cf570f03 100644 --- a/doc/src/Modify_min.rst +++ b/doc/src/Modify_min.rst @@ -19,6 +19,3 @@ class. See min.h for details. +---------------+------------------------------------------+ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_overview.rst b/doc/src/Modify_overview.rst index 85a0677513..5f54e3f2af 100644 --- a/doc/src/Modify_overview.rst +++ b/doc/src/Modify_overview.rst @@ -102,6 +102,3 @@ functionality: **(Foo)** Foo, Morefoo, and Maxfoo, J of Classic Potentials, 75, 345 (1997). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_pair.rst b/doc/src/Modify_pair.rst index 84292bd10f..2ea57ccaf4 100644 --- a/doc/src/Modify_pair.rst +++ b/doc/src/Modify_pair.rst @@ -35,6 +35,3 @@ Here is a brief description of the class methods in pair.h: The inner/middle/outer routines are optional. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_region.rst b/doc/src/Modify_region.rst index 196f97c4ea..071840b17e 100644 --- a/doc/src/Modify_region.rst +++ b/doc/src/Modify_region.rst @@ -22,6 +22,3 @@ class. See region.h for details. +-------------------+---------------------------------------------------------------------+ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_thermo.rst b/doc/src/Modify_thermo.rst index d95b98ab40..18ddacc3be 100644 --- a/doc/src/Modify_thermo.rst +++ b/doc/src/Modify_thermo.rst @@ -27,6 +27,3 @@ be simpler to compute what you wish via one of those constructs, than by adding a new keyword to the thermo command. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Modify_variable.rst b/doc/src/Modify_variable.rst index 40e2e9e6a3..e746ab363a 100644 --- a/doc/src/Modify_variable.rst +++ b/doc/src/Modify_variable.rst @@ -40,6 +40,3 @@ Adding new :doc:`compute styles ` (whose calculated values can then be accessed by variables) is discussed on the :doc:`Modify compute ` doc page. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Packages.rst b/doc/src/Packages.rst index ded2ae27e0..acc1c3c873 100644 --- a/doc/src/Packages.rst +++ b/doc/src/Packages.rst @@ -20,6 +20,3 @@ LAMMPS build process. Packages_details -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Packages_details.rst b/doc/src/Packages_details.rst index fc0175433b..9e96d80252 100644 --- a/doc/src/Packages_details.rst +++ b/doc/src/Packages_details.rst @@ -2448,6 +2448,3 @@ which discuss the `QuickFF `_ methodology. * examples/USER/yaff -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Packages_standard.rst b/doc/src/Packages_standard.rst index c7993cf947..e6d953a193 100644 --- a/doc/src/Packages_standard.rst +++ b/doc/src/Packages_standard.rst @@ -91,6 +91,3 @@ package: +----------------------------------+--------------------------------------+----------------------------------------------------+-----------------------------------------------------+---------+ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Packages_user.rst b/doc/src/Packages_user.rst index d705c8273d..72a8763443 100644 --- a/doc/src/Packages_user.rst +++ b/doc/src/Packages_user.rst @@ -115,6 +115,3 @@ package: .. _MOFplus: https://www.mofplus.org/content/show/MOF-FF .. _PLUMED: http://www.plumed.org -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Python_call.rst b/doc/src/Python_call.rst index 2ce0b88cb5..561ce30249 100644 --- a/doc/src/Python_call.rst +++ b/doc/src/Python_call.rst @@ -79,6 +79,3 @@ library and insure that Python can find the python/lammps.py file and the shared library. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Python_examples.rst b/doc/src/Python_examples.rst index f3d9e4983e..38f24d36e2 100644 --- a/doc/src/Python_examples.rst +++ b/doc/src/Python_examples.rst @@ -111,6 +111,3 @@ different visualization package options. Click to see larger images: :target: JPG/screenshot_vmd.jpg -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Python_head.rst b/doc/src/Python_head.rst index a9b79b5305..1f3ffda389 100644 --- a/doc/src/Python_head.rst +++ b/doc/src/Python_head.rst @@ -44,6 +44,3 @@ a pull request to our `GitHub site `_, and they can be added to the LAMMPS distribution or webpage. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Python_install.rst b/doc/src/Python_install.rst index 83b9a4dd9d..1171f70ae3 100644 --- a/doc/src/Python_install.rst +++ b/doc/src/Python_install.rst @@ -70,6 +70,3 @@ system directory. This is not needed if you set the LD\_LIBRARY\_PATH environment variable as described above. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Python_library.rst b/doc/src/Python_library.rst index e079df1a04..7500de4399 100644 --- a/doc/src/Python_library.rst +++ b/doc/src/Python_library.rst @@ -275,6 +275,3 @@ following steps: :members: :no-undoc-members: -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Python_mpi.rst b/doc/src/Python_mpi.rst index b72a0161a2..cf8975649c 100644 --- a/doc/src/Python_mpi.rst +++ b/doc/src/Python_mpi.rst @@ -76,6 +76,3 @@ and see one line of output for each processor you run on. the right one. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Python_overview.rst b/doc/src/Python_overview.rst index 173ab06ade..a73d78094a 100644 --- a/doc/src/Python_overview.rst +++ b/doc/src/Python_overview.rst @@ -25,6 +25,3 @@ LAMMPS. When used in this mode, Python can perform script operations that the simple LAMMPS input script syntax can not. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Python_pylammps.rst b/doc/src/Python_pylammps.rst index f8f653afae..63c49d4007 100644 --- a/doc/src/Python_pylammps.rst +++ b/doc/src/Python_pylammps.rst @@ -5,6 +5,3 @@ PyLammps is a Python wrapper class which can be created on its own or use an existing lammps Python object. It has its own :doc:`Howto pylammps ` doc page. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Python_run.rst b/doc/src/Python_run.rst index 31ce016612..164ea9fade 100644 --- a/doc/src/Python_run.rst +++ b/doc/src/Python_run.rst @@ -32,6 +32,3 @@ for versions 2.5 and later. You can check which version of Python you have by simply typing "python" at a shell prompt. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Python_shlib.rst b/doc/src/Python_shlib.rst index 9dd1fbde6d..5be6002da2 100644 --- a/doc/src/Python_shlib.rst +++ b/doc/src/Python_shlib.rst @@ -81,6 +81,3 @@ Starting Python outside (!) of your build directory, but with the virtualenv enabled and with the LD\_LIBRARY\_PATH set gives you access to LAMMPS via Python. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Python_test.rst b/doc/src/Python_test.rst index 562ab88986..e840445a20 100644 --- a/doc/src/Python_test.rst +++ b/doc/src/Python_test.rst @@ -165,6 +165,3 @@ mentioned above, you can only run Python interactively when running Python on a single processor, not in parallel. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Run_basics.rst b/doc/src/Run_basics.rst index fb5ca1736f..029fbdd95a 100644 --- a/doc/src/Run_basics.rst +++ b/doc/src/Run_basics.rst @@ -91,6 +91,3 @@ Some of the examples or benchmarks require LAMMPS to be built with optional packages. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Run_head.rst b/doc/src/Run_head.rst index 02db16bf25..18aa49d3c2 100644 --- a/doc/src/Run_head.rst +++ b/doc/src/Run_head.rst @@ -16,6 +16,3 @@ they can contain. Run_windows -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Run_options.rst b/doc/src/Run_options.rst index e45a4d3053..8992f6c5f5 100644 --- a/doc/src/Run_options.rst +++ b/doc/src/Run_options.rst @@ -641,6 +641,3 @@ input scripts. "-", since it is automatically skipped. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Run_output.rst b/doc/src/Run_output.rst index b8cdf6cc29..c1170800f3 100644 --- a/doc/src/Run_output.rst +++ b/doc/src/Run_output.rst @@ -192,6 +192,3 @@ FFTs). Thus you can estimate what fraction of your FFT time was spent in communication, roughly 75% in the example above. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Run_windows.rst b/doc/src/Run_windows.rst index 7892079029..5c97d37887 100644 --- a/doc/src/Run_windows.rst +++ b/doc/src/Run_windows.rst @@ -76,6 +76,3 @@ multi-threading, which can be combined with MPI using something like: mpiexec -localonly 2 lmp_mpi -in in.lj -pk omp 2 -sf omp -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Speed.rst b/doc/src/Speed.rst index 4953a9fdda..9c3ca0aeaa 100644 --- a/doc/src/Speed.rst +++ b/doc/src/Speed.rst @@ -30,6 +30,3 @@ hardware platforms. Speed_compare -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Speed_bench.rst b/doc/src/Speed_bench.rst index 8de5ee5d07..de781c4d72 100644 --- a/doc/src/Speed_bench.rst +++ b/doc/src/Speed_bench.rst @@ -77,6 +77,3 @@ as for all-MPI mode, except that now you will typically need many more atoms/node to achieve good scalability. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Speed_compare.rst b/doc/src/Speed_compare.rst index 4e97ecd264..d8a80cb620 100644 --- a/doc/src/Speed_compare.rst +++ b/doc/src/Speed_compare.rst @@ -96,6 +96,3 @@ section below for examples where this has been done. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Speed_gpu.rst b/doc/src/Speed_gpu.rst index f9ade13401..c5622336f3 100644 --- a/doc/src/Speed_gpu.rst +++ b/doc/src/Speed_gpu.rst @@ -180,6 +180,3 @@ Restrictions None. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Speed_intel.rst b/doc/src/Speed_intel.rst index 95a7ef9e6b..feb4b849d1 100644 --- a/doc/src/Speed_intel.rst +++ b/doc/src/Speed_intel.rst @@ -548,6 +548,3 @@ supported. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Speed_kokkos.rst b/doc/src/Speed_kokkos.rst index 6d3828ee68..051e1eba23 100644 --- a/doc/src/Speed_kokkos.rst +++ b/doc/src/Speed_kokkos.rst @@ -446,6 +446,3 @@ Currently, there are no precision options with the KOKKOS package. All compilation and computation is performed in double precision. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Speed_measure.rst b/doc/src/Speed_measure.rst index 9d538616eb..90fe5246e1 100644 --- a/doc/src/Speed_measure.rst +++ b/doc/src/Speed_measure.rst @@ -46,6 +46,3 @@ uncomment the MPI\_Barrier() lines in src/timer.cpp, and re-compile LAMMPS, to obtain synchronized timings. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Speed_omp.rst b/doc/src/Speed_omp.rst index 1b9a1caaf5..364db907ec 100644 --- a/doc/src/Speed_omp.rst +++ b/doc/src/Speed_omp.rst @@ -162,6 +162,3 @@ Restrictions None. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Speed_opt.rst b/doc/src/Speed_opt.rst index 8e7b3e7ffd..6c9e74e2bf 100644 --- a/doc/src/Speed_opt.rst +++ b/doc/src/Speed_opt.rst @@ -53,6 +53,3 @@ Restrictions None. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Speed_packages.rst b/doc/src/Speed_packages.rst index 6c62d40706..2948ffcd7b 100644 --- a/doc/src/Speed_packages.rst +++ b/doc/src/Speed_packages.rst @@ -190,6 +190,3 @@ The individual accelerator package doc pages explain: * restrictions -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Speed_tips.rst b/doc/src/Speed_tips.rst index ed7eef5b28..55ee0ae7e7 100644 --- a/doc/src/Speed_tips.rst +++ b/doc/src/Speed_tips.rst @@ -56,6 +56,3 @@ relative accuracy of slightly greater than 1e-5 and above. when using a barostat. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/Tools.rst b/doc/src/Tools.rst index 1f9661191f..e404f30c9f 100644 --- a/doc/src/Tools.rst +++ b/doc/src/Tools.rst @@ -743,6 +743,3 @@ See the README file for details. These files were provided by Vikas Varshney (vv0210 at gmail.com) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/balance.rst b/doc/src/balance.rst index 9da86342ec..0282f74149 100644 --- a/doc/src/balance.rst +++ b/doc/src/balance.rst @@ -569,6 +569,3 @@ Related commands -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/boundary.rst b/doc/src/boundary.rst index 2a9896c2c8..bdc0d52075 100644 --- a/doc/src/boundary.rst +++ b/doc/src/boundary.rst @@ -121,6 +121,3 @@ Default boundary p p p -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/box.rst b/doc/src/box.rst index 9ef8316dae..ceaad02e89 100644 --- a/doc/src/box.rst +++ b/doc/src/box.rst @@ -71,6 +71,3 @@ Default The default value is tilt = small. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/change_box.rst b/doc/src/change_box.rst index 3430d25c72..0bd61c435d 100644 --- a/doc/src/change_box.rst +++ b/doc/src/change_box.rst @@ -382,6 +382,3 @@ Default The option default is units = lattice. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/clear.rst b/doc/src/clear.rst index dac4ba8fa4..62696d1529 100644 --- a/doc/src/clear.rst +++ b/doc/src/clear.rst @@ -44,6 +44,3 @@ Restrictions **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/comm_modify.rst b/doc/src/comm_modify.rst index 5526646261..9174a03f7c 100644 --- a/doc/src/comm_modify.rst +++ b/doc/src/comm_modify.rst @@ -182,6 +182,3 @@ no. The cutoff default of 0.0 means that ghost cutoff = neighbor cutoff = pairwise force cutoff + neighbor skin. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/comm_style.rst b/doc/src/comm_style.rst index 528f05ecf1..0e2758d55f 100644 --- a/doc/src/comm_style.rst +++ b/doc/src/comm_style.rst @@ -73,6 +73,3 @@ Default The default style is brick. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute.rst b/doc/src/compute.rst index 56de4f4225..10e47d8c73 100644 --- a/doc/src/compute.rst +++ b/doc/src/compute.rst @@ -334,6 +334,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_ackland_atom.rst b/doc/src/compute_ackland_atom.rst index c86ca121db..c2d919b652 100644 --- a/doc/src/compute_ackland_atom.rst +++ b/doc/src/compute_ackland_atom.rst @@ -99,6 +99,3 @@ The keyword *legacy* defaults to *no*\ . **(Ackland)** Ackland, Jones, Phys Rev B, 73, 054104 (2006). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_adf.rst b/doc/src/compute_adf.rst index 363091a033..e92f9e43a9 100644 --- a/doc/src/compute_adf.rst +++ b/doc/src/compute_adf.rst @@ -229,6 +229,3 @@ Default The keyword default is ordinate = degree. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_angle.rst b/doc/src/compute_angle.rst index 49b9849f05..c165aa2943 100644 --- a/doc/src/compute_angle.rst +++ b/doc/src/compute_angle.rst @@ -57,6 +57,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_angle_local.rst b/doc/src/compute_angle_local.rst index e6efe50b42..3a61f68388 100644 --- a/doc/src/compute_angle_local.rst +++ b/doc/src/compute_angle_local.rst @@ -153,6 +153,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_angmom_chunk.rst b/doc/src/compute_angmom_chunk.rst index 2637e4774a..0b8f896e5e 100644 --- a/doc/src/compute_angmom_chunk.rst +++ b/doc/src/compute_angmom_chunk.rst @@ -95,6 +95,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_basal_atom.rst b/doc/src/compute_basal_atom.rst index 5c2cea3958..8dd55b8ad2 100644 --- a/doc/src/compute_basal_atom.rst +++ b/doc/src/compute_basal_atom.rst @@ -85,6 +85,3 @@ Related commands **(Barrett)** Barrett, Tschopp, El Kadiri, Scripta Mat. 66, p.666 (2012). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_body_local.rst b/doc/src/compute_body_local.rst index 5d6a492c66..52ded3ff60 100644 --- a/doc/src/compute_body_local.rst +++ b/doc/src/compute_body_local.rst @@ -105,6 +105,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_bond.rst b/doc/src/compute_bond.rst index 43e9a64cbb..2ba5fc27a1 100644 --- a/doc/src/compute_bond.rst +++ b/doc/src/compute_bond.rst @@ -57,6 +57,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_bond_local.rst b/doc/src/compute_bond_local.rst index 9559dd0f35..b7723f2a12 100644 --- a/doc/src/compute_bond_local.rst +++ b/doc/src/compute_bond_local.rst @@ -209,6 +209,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_centro_atom.rst b/doc/src/compute_centro_atom.rst index 48a9ddd03c..0d31a292a7 100644 --- a/doc/src/compute_centro_atom.rst +++ b/doc/src/compute_centro_atom.rst @@ -175,6 +175,3 @@ The default value for the optional keyword is axes = no. **(Kelchner)** Kelchner, Plimpton, Hamilton, Phys Rev B, 58, 11085 (1998). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_chunk_atom.rst b/doc/src/compute_chunk_atom.rst index a88d5fa61b..1d75905e96 100644 --- a/doc/src/compute_chunk_atom.rst +++ b/doc/src/compute_chunk_atom.rst @@ -702,6 +702,3 @@ The option defaults are as follows: * units = lattice -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_chunk_spread_atom.rst b/doc/src/compute_chunk_spread_atom.rst index d2a2f7498a..7e71e71840 100644 --- a/doc/src/compute_chunk_spread_atom.rst +++ b/doc/src/compute_chunk_spread_atom.rst @@ -232,6 +232,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_cluster_atom.rst b/doc/src/compute_cluster_atom.rst index cab2e60ecc..ea442202b9 100644 --- a/doc/src/compute_cluster_atom.rst +++ b/doc/src/compute_cluster_atom.rst @@ -112,6 +112,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_cna_atom.rst b/doc/src/compute_cna_atom.rst index f75506eb90..61b2dc8626 100644 --- a/doc/src/compute_cna_atom.rst +++ b/doc/src/compute_cna_atom.rst @@ -114,6 +114,3 @@ Related commands **(Tsuzuki)** Tsuzuki, Branicio, Rino, Comput Phys Comm, 177, 518 (2007). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_cnp_atom.rst b/doc/src/compute_cnp_atom.rst index ba31448776..021360a087 100644 --- a/doc/src/compute_cnp_atom.rst +++ b/doc/src/compute_cnp_atom.rst @@ -128,6 +128,3 @@ Related commands **(Tsuzuki)** Tsuzuki, Branicio, Rino, Comput Phys Comm, 177, 518 (2007). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_com.rst b/doc/src/compute_com.rst index ac20b3cb73..5ad94d4f51 100644 --- a/doc/src/compute_com.rst +++ b/doc/src/compute_com.rst @@ -64,6 +64,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_com_chunk.rst b/doc/src/compute_com_chunk.rst index 15cf528517..b7732ab488 100644 --- a/doc/src/compute_com_chunk.rst +++ b/doc/src/compute_com_chunk.rst @@ -93,6 +93,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_contact_atom.rst b/doc/src/compute_contact_atom.rst index c6c58a5ea4..ab2678c909 100644 --- a/doc/src/compute_contact_atom.rst +++ b/doc/src/compute_contact_atom.rst @@ -61,6 +61,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_coord_atom.rst b/doc/src/compute_coord_atom.rst index db87284cc2..b83c9100ef 100644 --- a/doc/src/compute_coord_atom.rst +++ b/doc/src/compute_coord_atom.rst @@ -157,6 +157,3 @@ group = all J. Chem. Phys. 104, 9932 (1996). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_damage_atom.rst b/doc/src/compute_damage_atom.rst index 2b498a3fb5..6718922545 100644 --- a/doc/src/compute_damage_atom.rst +++ b/doc/src/compute_damage_atom.rst @@ -67,6 +67,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_dihedral.rst b/doc/src/compute_dihedral.rst index 695031e05e..faf0d650e5 100644 --- a/doc/src/compute_dihedral.rst +++ b/doc/src/compute_dihedral.rst @@ -56,6 +56,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_dihedral_local.rst b/doc/src/compute_dihedral_local.rst index ce7a9ede84..302e496c33 100644 --- a/doc/src/compute_dihedral_local.rst +++ b/doc/src/compute_dihedral_local.rst @@ -146,6 +146,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_dilatation_atom.rst b/doc/src/compute_dilatation_atom.rst index 84e4d48a1c..67cefb82c2 100644 --- a/doc/src/compute_dilatation_atom.rst +++ b/doc/src/compute_dilatation_atom.rst @@ -70,6 +70,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_dipole_chunk.rst b/doc/src/compute_dipole_chunk.rst index 8d70f1ef13..213df9aebd 100644 --- a/doc/src/compute_dipole_chunk.rst +++ b/doc/src/compute_dipole_chunk.rst @@ -98,6 +98,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_displace_atom.rst b/doc/src/compute_displace_atom.rst index 797e132480..2ece320606 100644 --- a/doc/src/compute_displace_atom.rst +++ b/doc/src/compute_displace_atom.rst @@ -155,6 +155,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_dpd.rst b/doc/src/compute_dpd.rst index 39b07865c2..5aaf6ae139 100644 --- a/doc/src/compute_dpd.rst +++ b/doc/src/compute_dpd.rst @@ -85,6 +85,3 @@ Particle Dynamics (DPD-E)", ARL-TR-6863, U.S. Army Research Laboratory, Aberdeen Proving Ground, MD (2014). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_dpd_atom.rst b/doc/src/compute_dpd_atom.rst index a517f572be..3fae8502ea 100644 --- a/doc/src/compute_dpd_atom.rst +++ b/doc/src/compute_dpd_atom.rst @@ -74,6 +74,3 @@ Particle Dynamics (DPD-E)", ARL-TR-6863, U.S. Army Research Laboratory, Aberdeen Proving Ground, MD (2014). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_edpd_temp_atom.rst b/doc/src/compute_edpd_temp_atom.rst index ce9a4e26b2..38609878e0 100644 --- a/doc/src/compute_edpd_temp_atom.rst +++ b/doc/src/compute_edpd_temp_atom.rst @@ -75,6 +75,3 @@ Related commands 113-127 (2014). DOI: 10.1016/j.jcp.2014.02.003. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_entropy_atom.rst b/doc/src/compute_entropy_atom.rst index c43c73814c..e095a07358 100644 --- a/doc/src/compute_entropy_atom.rst +++ b/doc/src/compute_entropy_atom.rst @@ -159,6 +159,3 @@ The default values for the optional keywords are avg = no and local = no. **(Nettleton)** Nettleton and Green, J Chem Phys, 29, 6 (1958). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_erotate_asphere.rst b/doc/src/compute_erotate_asphere.rst index be17f8bedc..01ed3193bb 100644 --- a/doc/src/compute_erotate_asphere.rst +++ b/doc/src/compute_erotate_asphere.rst @@ -77,6 +77,3 @@ particles. **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_erotate_rigid.rst b/doc/src/compute_erotate_rigid.rst index 2f74dd425c..316712a6d3 100644 --- a/doc/src/compute_erotate_rigid.rst +++ b/doc/src/compute_erotate_rigid.rst @@ -65,6 +65,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_erotate_sphere.rst b/doc/src/compute_erotate_sphere.rst index d1df476435..79db7fda02 100644 --- a/doc/src/compute_erotate_sphere.rst +++ b/doc/src/compute_erotate_sphere.rst @@ -66,6 +66,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_erotate_sphere_atom.rst b/doc/src/compute_erotate_sphere_atom.rst index 31a90bc282..e18bfb0aca 100644 --- a/doc/src/compute_erotate_sphere_atom.rst +++ b/doc/src/compute_erotate_sphere_atom.rst @@ -62,6 +62,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_event_displace.rst b/doc/src/compute_event_displace.rst index 55555c46bd..1b88184d73 100644 --- a/doc/src/compute_event_displace.rst +++ b/doc/src/compute_event_displace.rst @@ -71,6 +71,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_fep.rst b/doc/src/compute_fep.rst index 7d6c76bb45..dcf827d383 100644 --- a/doc/src/compute_fep.rst +++ b/doc/src/compute_fep.rst @@ -344,6 +344,3 @@ The option defaults are *tail* = *no*\ , *volume* = *no*\ . Liquids, Oxford University Press (1987) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_global_atom.rst b/doc/src/compute_global_atom.rst index 5ff6f1775f..5b929ff706 100644 --- a/doc/src/compute_global_atom.rst +++ b/doc/src/compute_global_atom.rst @@ -245,6 +245,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_group_group.rst b/doc/src/compute_group_group.rst index 390f4f7c6a..232f9a3d73 100644 --- a/doc/src/compute_group_group.rst +++ b/doc/src/compute_group_group.rst @@ -182,6 +182,3 @@ molecule = off. Bogusz et al, J Chem Phys, 108, 7070 (1998) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_gyration.rst b/doc/src/compute_gyration.rst index 89d11799e0..c0da59495e 100644 --- a/doc/src/compute_gyration.rst +++ b/doc/src/compute_gyration.rst @@ -81,6 +81,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_gyration_chunk.rst b/doc/src/compute_gyration_chunk.rst index 7ed70e0968..403fa7c922 100644 --- a/doc/src/compute_gyration_chunk.rst +++ b/doc/src/compute_gyration_chunk.rst @@ -121,6 +121,3 @@ Restrictions **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_gyration_shape.rst b/doc/src/compute_gyration_shape.rst index bfabd48132..043d31e619 100644 --- a/doc/src/compute_gyration_shape.rst +++ b/doc/src/compute_gyration_shape.rst @@ -106,6 +106,3 @@ Related commands **(Theodorou)** Theodorou, Suter, Macromolecules, 18, 1206 (1985). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_gyration_shape_chunk.rst b/doc/src/compute_gyration_shape_chunk.rst index 5b88cbd4dc..ceb6f23871 100644 --- a/doc/src/compute_gyration_shape_chunk.rst +++ b/doc/src/compute_gyration_shape_chunk.rst @@ -108,6 +108,3 @@ Related commands **(Theodorou)** Theodorou, Suter, Macromolecules, 18, 1206 (1985). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_heat_flux.rst b/doc/src/compute_heat_flux.rst index cb36d30da4..e780eeaf77 100644 --- a/doc/src/compute_heat_flux.rst +++ b/doc/src/compute_heat_flux.rst @@ -253,6 +253,3 @@ Related commands **(Boone)** Boone, Babaei, Wilmer, J Chem Theory Comput, 15, 5579--5587 (2019). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_hexorder_atom.rst b/doc/src/compute_hexorder_atom.rst index 16ecaf5b41..72960cd845 100644 --- a/doc/src/compute_hexorder_atom.rst +++ b/doc/src/compute_hexorder_atom.rst @@ -134,6 +134,3 @@ The option defaults are *cutoff* = pair style cutoff, *nnn* = 6, *degree* = 6 **(Nelson)** Nelson, Halperin, Phys Rev B, 19, 2457 (1979). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_hma.rst b/doc/src/compute_hma.rst index d122fceea1..b9aaa34d6e 100644 --- a/doc/src/compute_hma.rst +++ b/doc/src/compute_hma.rst @@ -207,6 +207,3 @@ this compute. `Phys. Rev. E [92], 043303 (2015) `_ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_improper.rst b/doc/src/compute_improper.rst index aec2bfbbf5..27b4a8426f 100644 --- a/doc/src/compute_improper.rst +++ b/doc/src/compute_improper.rst @@ -56,6 +56,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_improper_local.rst b/doc/src/compute_improper_local.rst index fc651d324a..0b085bc85c 100644 --- a/doc/src/compute_improper_local.rst +++ b/doc/src/compute_improper_local.rst @@ -90,6 +90,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_inertia_chunk.rst b/doc/src/compute_inertia_chunk.rst index a60c98b3c3..c5c89dc477 100644 --- a/doc/src/compute_inertia_chunk.rst +++ b/doc/src/compute_inertia_chunk.rst @@ -94,6 +94,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_ke.rst b/doc/src/compute_ke.rst index baccf848b5..026e701f3d 100644 --- a/doc/src/compute_ke.rst +++ b/doc/src/compute_ke.rst @@ -66,6 +66,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_ke_atom.rst b/doc/src/compute_ke_atom.rst index a377903866..ec0767068a 100644 --- a/doc/src/compute_ke_atom.rst +++ b/doc/src/compute_ke_atom.rst @@ -55,6 +55,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_ke_atom_eff.rst b/doc/src/compute_ke_atom_eff.rst index bbe7aa1013..23e389d890 100644 --- a/doc/src/compute_ke_atom_eff.rst +++ b/doc/src/compute_ke_atom_eff.rst @@ -86,6 +86,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_ke_eff.rst b/doc/src/compute_ke_eff.rst index 981e238bbe..15f1ab5ad1 100644 --- a/doc/src/compute_ke_eff.rst +++ b/doc/src/compute_ke_eff.rst @@ -85,6 +85,3 @@ LAMMPS was built with that package. See the :doc:`Build package **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_ke_rigid.rst b/doc/src/compute_ke_rigid.rst index 9d1b4fa9b6..be177f9cb2 100644 --- a/doc/src/compute_ke_rigid.rst +++ b/doc/src/compute_ke_rigid.rst @@ -64,6 +64,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_meso_e_atom.rst b/doc/src/compute_meso_e_atom.rst index 2417ab1265..02d4543d43 100644 --- a/doc/src/compute_meso_e_atom.rst +++ b/doc/src/compute_meso_e_atom.rst @@ -62,6 +62,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_meso_rho_atom.rst b/doc/src/compute_meso_rho_atom.rst index 57fcd4e2fe..232b83e6c5 100644 --- a/doc/src/compute_meso_rho_atom.rst +++ b/doc/src/compute_meso_rho_atom.rst @@ -62,6 +62,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_meso_t_atom.rst b/doc/src/compute_meso_t_atom.rst index b148516039..01b0dcb570 100644 --- a/doc/src/compute_meso_t_atom.rst +++ b/doc/src/compute_meso_t_atom.rst @@ -64,6 +64,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_modify.rst b/doc/src/compute_modify.rst index 331887829e..82a75269d9 100644 --- a/doc/src/compute_modify.rst +++ b/doc/src/compute_modify.rst @@ -82,6 +82,3 @@ The option defaults are extra/dof = 2 or 3 for 2d or 3d systems and dynamic/dof = no. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_momentum.rst b/doc/src/compute_momentum.rst index d09c8a31eb..f90b6e7611 100644 --- a/doc/src/compute_momentum.rst +++ b/doc/src/compute_momentum.rst @@ -54,6 +54,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_msd.rst b/doc/src/compute_msd.rst index 4b472566e7..08a7fcf02e 100644 --- a/doc/src/compute_msd.rst +++ b/doc/src/compute_msd.rst @@ -124,6 +124,3 @@ Default The option default are com = no, average = no. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_msd_chunk.rst b/doc/src/compute_msd_chunk.rst index f8a2ee1dc1..615d2bf123 100644 --- a/doc/src/compute_msd_chunk.rst +++ b/doc/src/compute_msd_chunk.rst @@ -132,6 +132,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_msd_nongauss.rst b/doc/src/compute_msd_nongauss.rst index 56407e1dde..5a0190a569 100644 --- a/doc/src/compute_msd_nongauss.rst +++ b/doc/src/compute_msd_nongauss.rst @@ -91,6 +91,3 @@ Default The option default is com = no. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_omega_chunk.rst b/doc/src/compute_omega_chunk.rst index dd8a3be806..75feaeba21 100644 --- a/doc/src/compute_omega_chunk.rst +++ b/doc/src/compute_omega_chunk.rst @@ -95,6 +95,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_orientorder_atom.rst b/doc/src/compute_orientorder_atom.rst index 70b96a9fc5..504b9d70d3 100644 --- a/doc/src/compute_orientorder_atom.rst +++ b/doc/src/compute_orientorder_atom.rst @@ -192,6 +192,3 @@ J. Chem. Phys. 138, 044501 (2013). J. Chem. Phys. 104, 9932 (1996). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_pair.rst b/doc/src/compute_pair.rst index 03da8acddb..59804ad090 100644 --- a/doc/src/compute_pair.rst +++ b/doc/src/compute_pair.rst @@ -102,6 +102,3 @@ Default The keyword defaults are *evalue* = *epair*\ , nsub = 0. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_pair_local.rst b/doc/src/compute_pair_local.rst index 39abd67f6c..5d9e962a00 100644 --- a/doc/src/compute_pair_local.rst +++ b/doc/src/compute_pair_local.rst @@ -174,6 +174,3 @@ Default The keyword default is cutoff = type. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_pe.rst b/doc/src/compute_pe.rst index d3d23e590c..884a1b4dd0 100644 --- a/doc/src/compute_pe.rst +++ b/doc/src/compute_pe.rst @@ -92,6 +92,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_pe_atom.rst b/doc/src/compute_pe_atom.rst index bd4dcd2d57..13df88c915 100644 --- a/doc/src/compute_pe_atom.rst +++ b/doc/src/compute_pe_atom.rst @@ -118,6 +118,3 @@ Related commands **(Heyes)** Heyes, Phys Rev B 49, 755 (1994), -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_plasticity_atom.rst b/doc/src/compute_plasticity_atom.rst index 10dc82df16..95309200c9 100644 --- a/doc/src/compute_plasticity_atom.rst +++ b/doc/src/compute_plasticity_atom.rst @@ -77,6 +77,3 @@ viscoelasticity model for peridynamics", Sandia National Lab Report, 8064:1-28 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_pressure.rst b/doc/src/compute_pressure.rst index 3ee7f86fbd..389b2b2fae 100644 --- a/doc/src/compute_pressure.rst +++ b/doc/src/compute_pressure.rst @@ -171,6 +171,3 @@ Related commands **(Thompson)** Thompson, Plimpton, Mattson, J Chem Phys, 131, 154107 (2009). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_pressure_cylinder.rst b/doc/src/compute_pressure_cylinder.rst index 8d5cbb7b25..48f41c4604 100644 --- a/doc/src/compute_pressure_cylinder.rst +++ b/doc/src/compute_pressure_cylinder.rst @@ -91,6 +91,3 @@ Related commands **(Addington)** Addington, Long, Gubbins, J Chem Phys, 149, 084109 (2018). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_pressure_uef.rst b/doc/src/compute_pressure_uef.rst index 59f7608f44..4eaae2e2bf 100644 --- a/doc/src/compute_pressure_uef.rst +++ b/doc/src/compute_pressure_uef.rst @@ -65,6 +65,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_property_atom.rst b/doc/src/compute_property_atom.rst index f78798e6f5..5a8fdd0000 100644 --- a/doc/src/compute_property_atom.rst +++ b/doc/src/compute_property_atom.rst @@ -193,6 +193,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_property_chunk.rst b/doc/src/compute_property_chunk.rst index a0832a33be..c2d9d5ec41 100644 --- a/doc/src/compute_property_chunk.rst +++ b/doc/src/compute_property_chunk.rst @@ -124,6 +124,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_property_local.rst b/doc/src/compute_property_local.rst index ff4388f989..d230360c45 100644 --- a/doc/src/compute_property_local.rst +++ b/doc/src/compute_property_local.rst @@ -174,6 +174,3 @@ Default The keyword default is cutoff = type. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_ptm_atom.rst b/doc/src/compute_ptm_atom.rst index e414e8d2aa..546cf38c9e 100644 --- a/doc/src/compute_ptm_atom.rst +++ b/doc/src/compute_ptm_atom.rst @@ -130,6 +130,3 @@ Related commands **(Larsen)** Larsen, Schmidt, Schiotz, Modelling Simul Mater Sci Eng, 24, 055007 (2016). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_rdf.rst b/doc/src/compute_rdf.rst index a11e1a1c97..75908b4406 100644 --- a/doc/src/compute_rdf.rst +++ b/doc/src/compute_rdf.rst @@ -219,6 +219,3 @@ Default The keyword defaults are cutoff = 0.0 (use the pairwise force cutoff). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_reduce.rst b/doc/src/compute_reduce.rst index 283c5da95d..0b8c1cc922 100644 --- a/doc/src/compute_reduce.rst +++ b/doc/src/compute_reduce.rst @@ -239,6 +239,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_reduce_chunk.rst b/doc/src/compute_reduce_chunk.rst index 4f4384d91c..ae0cff42b3 100644 --- a/doc/src/compute_reduce_chunk.rst +++ b/doc/src/compute_reduce_chunk.rst @@ -200,6 +200,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_rigid_local.rst b/doc/src/compute_rigid_local.rst index 1960814e0e..f5657f6776 100644 --- a/doc/src/compute_rigid_local.rst +++ b/doc/src/compute_rigid_local.rst @@ -200,6 +200,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_saed.rst b/doc/src/compute_saed.rst index d42c35abcd..87172213e6 100644 --- a/doc/src/compute_saed.rst +++ b/doc/src/compute_saed.rst @@ -209,6 +209,3 @@ Volume C: Mathematical and Chemical Tables, 554-95 (2004). (1989). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_slice.rst b/doc/src/compute_slice.rst index e98048b912..6e3d4af532 100644 --- a/doc/src/compute_slice.rst +++ b/doc/src/compute_slice.rst @@ -132,6 +132,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_contact_radius.rst b/doc/src/compute_smd_contact_radius.rst index 82cb381692..e31b037310 100644 --- a/doc/src/compute_smd_contact_radius.rst +++ b/doc/src/compute_smd_contact_radius.rst @@ -61,6 +61,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_damage.rst b/doc/src/compute_smd_damage.rst index d828888b47..19e2b2114e 100644 --- a/doc/src/compute_smd_damage.rst +++ b/doc/src/compute_smd_damage.rst @@ -54,6 +54,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_hourglass_error.rst b/doc/src/compute_smd_hourglass_error.rst index e8ea6573c1..9068202e9a 100644 --- a/doc/src/compute_smd_hourglass_error.rst +++ b/doc/src/compute_smd_hourglass_error.rst @@ -67,6 +67,3 @@ Default """"""" -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_internal_energy.rst b/doc/src/compute_smd_internal_energy.rst index b04494a415..8825bf1aa0 100644 --- a/doc/src/compute_smd_internal_energy.rst +++ b/doc/src/compute_smd_internal_energy.rst @@ -55,6 +55,3 @@ Default """"""" -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_plastic_strain.rst b/doc/src/compute_smd_plastic_strain.rst index 8f27b039ca..8bfb6d4d55 100644 --- a/doc/src/compute_smd_plastic_strain.rst +++ b/doc/src/compute_smd_plastic_strain.rst @@ -60,6 +60,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_plastic_strain_rate.rst b/doc/src/compute_smd_plastic_strain_rate.rst index bf1b8a8530..a2a8633a47 100644 --- a/doc/src/compute_smd_plastic_strain_rate.rst +++ b/doc/src/compute_smd_plastic_strain_rate.rst @@ -60,6 +60,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_rho.rst b/doc/src/compute_smd_rho.rst index f3c2e1cc47..bc3d38909c 100644 --- a/doc/src/compute_smd_rho.rst +++ b/doc/src/compute_smd_rho.rst @@ -57,6 +57,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_tlsph_defgrad.rst b/doc/src/compute_smd_tlsph_defgrad.rst index ddff4ba4c2..72027f02f0 100644 --- a/doc/src/compute_smd_tlsph_defgrad.rst +++ b/doc/src/compute_smd_tlsph_defgrad.rst @@ -62,6 +62,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_tlsph_dt.rst b/doc/src/compute_smd_tlsph_dt.rst index 5a4f35e8b0..94d5322f88 100644 --- a/doc/src/compute_smd_tlsph_dt.rst +++ b/doc/src/compute_smd_tlsph_dt.rst @@ -64,6 +64,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_tlsph_num_neighs.rst b/doc/src/compute_smd_tlsph_num_neighs.rst index cfa122aae6..75481cd226 100644 --- a/doc/src/compute_smd_tlsph_num_neighs.rst +++ b/doc/src/compute_smd_tlsph_num_neighs.rst @@ -59,6 +59,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_tlsph_shape.rst b/doc/src/compute_smd_tlsph_shape.rst index 0161e5e6e5..bfb662bf3a 100644 --- a/doc/src/compute_smd_tlsph_shape.rst +++ b/doc/src/compute_smd_tlsph_shape.rst @@ -66,6 +66,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_tlsph_strain.rst b/doc/src/compute_smd_tlsph_strain.rst index 965d69a938..1719b8c5a6 100644 --- a/doc/src/compute_smd_tlsph_strain.rst +++ b/doc/src/compute_smd_tlsph_strain.rst @@ -63,6 +63,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_tlsph_strain_rate.rst b/doc/src/compute_smd_tlsph_strain_rate.rst index 554706382a..5e88ddbb8c 100644 --- a/doc/src/compute_smd_tlsph_strain_rate.rst +++ b/doc/src/compute_smd_tlsph_strain_rate.rst @@ -61,6 +61,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_tlsph_stress.rst b/doc/src/compute_smd_tlsph_stress.rst index db26b6b6b7..740964e4eb 100644 --- a/doc/src/compute_smd_tlsph_stress.rst +++ b/doc/src/compute_smd_tlsph_stress.rst @@ -63,6 +63,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_triangle_vertices.rst b/doc/src/compute_smd_triangle_vertices.rst index 61bd5ed97c..4b042a4299 100644 --- a/doc/src/compute_smd_triangle_vertices.rst +++ b/doc/src/compute_smd_triangle_vertices.rst @@ -67,6 +67,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_ulsph_num_neighs.rst b/doc/src/compute_smd_ulsph_num_neighs.rst index fc98d03777..605574a93c 100644 --- a/doc/src/compute_smd_ulsph_num_neighs.rst +++ b/doc/src/compute_smd_ulsph_num_neighs.rst @@ -58,6 +58,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_ulsph_strain.rst b/doc/src/compute_smd_ulsph_strain.rst index 53a14e85fe..3d293deb5f 100644 --- a/doc/src/compute_smd_ulsph_strain.rst +++ b/doc/src/compute_smd_ulsph_strain.rst @@ -61,6 +61,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_ulsph_strain_rate.rst b/doc/src/compute_smd_ulsph_strain_rate.rst index 0b8c6af19f..36b3f1c73f 100644 --- a/doc/src/compute_smd_ulsph_strain_rate.rst +++ b/doc/src/compute_smd_ulsph_strain_rate.rst @@ -62,6 +62,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_ulsph_stress.rst b/doc/src/compute_smd_ulsph_stress.rst index d3e3211250..8f929c9c97 100644 --- a/doc/src/compute_smd_ulsph_stress.rst +++ b/doc/src/compute_smd_ulsph_stress.rst @@ -61,6 +61,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_smd_vol.rst b/doc/src/compute_smd_vol.rst index a1b553ae6b..6068c8a8ca 100644 --- a/doc/src/compute_smd_vol.rst +++ b/doc/src/compute_smd_vol.rst @@ -59,6 +59,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_sna_atom.rst b/doc/src/compute_sna_atom.rst index 2bcd983237..03188e19fc 100644 --- a/doc/src/compute_sna_atom.rst +++ b/doc/src/compute_sna_atom.rst @@ -359,6 +359,3 @@ available at `arXiv:1409.3880 `_ of Angular Momentum, World Scientific, Singapore (1987). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_stress_atom.rst b/doc/src/compute_stress_atom.rst index 45d6027871..88b3211612 100644 --- a/doc/src/compute_stress_atom.rst +++ b/doc/src/compute_stress_atom.rst @@ -274,6 +274,3 @@ Related commands **(Surblys)** Surblys, Matsubara, Kikugawa, Ohara, Phys Rev E, 99, 051301(R) (2019). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_stress_mop.rst b/doc/src/compute_stress_mop.rst index 892924575d..eaa4ed86ff 100644 --- a/doc/src/compute_stress_mop.rst +++ b/doc/src/compute_stress_mop.rst @@ -122,6 +122,3 @@ Related commands Phys. Rev. E 52, 1627 (1995). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_tally.rst b/doc/src/compute_tally.rst index 38ab176b7d..f391bd288a 100644 --- a/doc/src/compute_tally.rst +++ b/doc/src/compute_tally.rst @@ -115,6 +115,3 @@ heat/flux*\ \_compute\_heat\_flux.html **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_tdpd_cc_atom.rst b/doc/src/compute_tdpd_cc_atom.rst index b6e5497f2d..2412ffc4af 100644 --- a/doc/src/compute_tdpd_cc_atom.rst +++ b/doc/src/compute_tdpd_cc_atom.rst @@ -70,6 +70,3 @@ Related commands 014101 (2015). DOI: 10.1063/1.4923254 -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp.rst b/doc/src/compute_temp.rst index b9b00c7469..d6f919d65c 100644 --- a/doc/src/compute_temp.rst +++ b/doc/src/compute_temp.rst @@ -122,6 +122,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_asphere.rst b/doc/src/compute_temp_asphere.rst index 499065ca5c..c770a50230 100644 --- a/doc/src/compute_temp_asphere.rst +++ b/doc/src/compute_temp_asphere.rst @@ -168,6 +168,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_body.rst b/doc/src/compute_temp_body.rst index 3464a584b1..c4a6839528 100644 --- a/doc/src/compute_temp_body.rst +++ b/doc/src/compute_temp_body.rst @@ -144,6 +144,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_chunk.rst b/doc/src/compute_temp_chunk.rst index 37b6a05264..9a9ba1eaeb 100644 --- a/doc/src/compute_temp_chunk.rst +++ b/doc/src/compute_temp_chunk.rst @@ -255,6 +255,3 @@ The option defaults are com no, no bias, adof = dimensionality of the system (2 or 3), and cdof = 0.0. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_com.rst b/doc/src/compute_temp_com.rst index d81ede2e43..b6271cfe00 100644 --- a/doc/src/compute_temp_com.rst +++ b/doc/src/compute_temp_com.rst @@ -95,6 +95,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_cs.rst b/doc/src/compute_temp_cs.rst index e735a79b6f..943be37c6b 100644 --- a/doc/src/compute_temp_cs.rst +++ b/doc/src/compute_temp_cs.rst @@ -126,6 +126,3 @@ Related commands 5, 1031-1038 (1993). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_deform.rst b/doc/src/compute_temp_deform.rst index 779ce2de71..e093e8e562 100644 --- a/doc/src/compute_temp_deform.rst +++ b/doc/src/compute_temp_deform.rst @@ -137,6 +137,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_deform_eff.rst b/doc/src/compute_temp_deform_eff.rst index fab6275f0a..2597abba86 100644 --- a/doc/src/compute_temp_deform_eff.rst +++ b/doc/src/compute_temp_deform_eff.rst @@ -75,6 +75,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_drude.rst b/doc/src/compute_temp_drude.rst index fc45a5ba2b..85df7d985e 100644 --- a/doc/src/compute_temp_drude.rst +++ b/doc/src/compute_temp_drude.rst @@ -82,6 +82,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_eff.rst b/doc/src/compute_temp_eff.rst index e15832a25b..e76fb1bdd8 100644 --- a/doc/src/compute_temp_eff.rst +++ b/doc/src/compute_temp_eff.rst @@ -103,6 +103,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_partial.rst b/doc/src/compute_temp_partial.rst index ce493802d6..41127e848b 100644 --- a/doc/src/compute_temp_partial.rst +++ b/doc/src/compute_temp_partial.rst @@ -121,6 +121,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_profile.rst b/doc/src/compute_temp_profile.rst index d7bbc74aea..fc1d9b3f2a 100644 --- a/doc/src/compute_temp_profile.rst +++ b/doc/src/compute_temp_profile.rst @@ -197,6 +197,3 @@ The option default is out = tensor. **(Evans)** Evans and Morriss, Phys Rev Lett, 56, 2172-2175 (1986). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_ramp.rst b/doc/src/compute_temp_ramp.rst index b2161c53d7..915cb30572 100644 --- a/doc/src/compute_temp_ramp.rst +++ b/doc/src/compute_temp_ramp.rst @@ -120,6 +120,3 @@ Default The option default is units = lattice. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_region.rst b/doc/src/compute_temp_region.rst index 38432a18ca..0aae53a177 100644 --- a/doc/src/compute_temp_region.rst +++ b/doc/src/compute_temp_region.rst @@ -109,6 +109,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_region_eff.rst b/doc/src/compute_temp_region_eff.rst index 37d690848e..09d8a39279 100644 --- a/doc/src/compute_temp_region_eff.rst +++ b/doc/src/compute_temp_region_eff.rst @@ -66,6 +66,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_rotate.rst b/doc/src/compute_temp_rotate.rst index 47a94b3923..371372b03d 100644 --- a/doc/src/compute_temp_rotate.rst +++ b/doc/src/compute_temp_rotate.rst @@ -97,6 +97,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_sphere.rst b/doc/src/compute_temp_sphere.rst index 285a232d56..a0573b8c83 100644 --- a/doc/src/compute_temp_sphere.rst +++ b/doc/src/compute_temp_sphere.rst @@ -154,6 +154,3 @@ Default The option defaults are no bias and dof = all. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_temp_uef.rst b/doc/src/compute_temp_uef.rst index 4512c08b6d..5f487d365b 100644 --- a/doc/src/compute_temp_uef.rst +++ b/doc/src/compute_temp_uef.rst @@ -57,6 +57,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_ti.rst b/doc/src/compute_ti.rst index 6c0b04e3bb..3b15e51f1f 100644 --- a/doc/src/compute_ti.rst +++ b/doc/src/compute_ti.rst @@ -157,6 +157,3 @@ Related commands **(Eike)** Eike and Maginn, Journal of Chemical Physics, 124, 164503 (2006). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_torque_chunk.rst b/doc/src/compute_torque_chunk.rst index b9b5fd82bf..bed2673b2b 100644 --- a/doc/src/compute_torque_chunk.rst +++ b/doc/src/compute_torque_chunk.rst @@ -94,6 +94,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_vacf.rst b/doc/src/compute_vacf.rst index 9b2aa5e3bf..fef5d6b028 100644 --- a/doc/src/compute_vacf.rst +++ b/doc/src/compute_vacf.rst @@ -82,6 +82,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_vcm_chunk.rst b/doc/src/compute_vcm_chunk.rst index f8718fe803..c08f831826 100644 --- a/doc/src/compute_vcm_chunk.rst +++ b/doc/src/compute_vcm_chunk.rst @@ -81,6 +81,3 @@ Restrictions **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_voronoi_atom.rst b/doc/src/compute_voronoi_atom.rst index 2f25339c21..4d43126fa4 100644 --- a/doc/src/compute_voronoi_atom.rst +++ b/doc/src/compute_voronoi_atom.rst @@ -251,6 +251,3 @@ Related commands **Default:** *neighbors* no, *peratom* yes -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/compute_xrd.rst b/doc/src/compute_xrd.rst index 00466ed8ce..dd1c4d558d 100644 --- a/doc/src/compute_xrd.rst +++ b/doc/src/compute_xrd.rst @@ -273,6 +273,3 @@ Volume C: Mathematical and Chemical Tables, 249-429 (2004). (1996). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/create_atoms.rst b/doc/src/create_atoms.rst index ea49d99ab1..c554e6984d 100644 --- a/doc/src/create_atoms.rst +++ b/doc/src/create_atoms.rst @@ -387,6 +387,3 @@ being created). The other defaults are *remap* = no, *rotate* = random, and *units* = lattice. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/create_bonds.rst b/doc/src/create_bonds.rst index 9b9c814c9a..4fcc178e11 100644 --- a/doc/src/create_bonds.rst +++ b/doc/src/create_bonds.rst @@ -234,6 +234,3 @@ Default The keyword default is special = yes. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/create_box.rst b/doc/src/create_box.rst index 4e19def87d..fe1edfc629 100644 --- a/doc/src/create_box.rst +++ b/doc/src/create_box.rst @@ -165,6 +165,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/delete_atoms.rst b/doc/src/delete_atoms.rst index ca684b4a11..7ed9cfed9a 100644 --- a/doc/src/delete_atoms.rst +++ b/doc/src/delete_atoms.rst @@ -170,6 +170,3 @@ Default The option defaults are compress = yes, bond = no, mol = no. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/delete_bonds.rst b/doc/src/delete_bonds.rst index 7a12376eee..c6dcd362e6 100644 --- a/doc/src/delete_bonds.rst +++ b/doc/src/delete_bonds.rst @@ -163,6 +163,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dielectric.rst b/doc/src/dielectric.rst index 44a8f4176c..4eb25f0439 100644 --- a/doc/src/dielectric.rst +++ b/doc/src/dielectric.rst @@ -50,6 +50,3 @@ Default dielectric 1.0 -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_charmm.rst b/doc/src/dihedral_charmm.rst index 46da2f9458..ce91bee44d 100644 --- a/doc/src/dihedral_charmm.rst +++ b/doc/src/dihedral_charmm.rst @@ -192,6 +192,3 @@ Spellmeyer, Fox, Caldwell, Kollman, JACS 117, 5179-5197 (1995). Fischer, Gao, Guo, Ha, et al, J Phys Chem B, 102, 3586 (1998). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_class2.rst b/doc/src/dihedral_class2.rst index fd26167f65..39f45e1afc 100644 --- a/doc/src/dihedral_class2.rst +++ b/doc/src/dihedral_class2.rst @@ -197,6 +197,3 @@ Related commands **(Sun)** Sun, J Phys Chem B 102, 7338-7364 (1998). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_coeff.rst b/doc/src/dihedral_coeff.rst index 4a3f0cd487..fcd9955ad9 100644 --- a/doc/src/dihedral_coeff.rst +++ b/doc/src/dihedral_coeff.rst @@ -114,6 +114,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_cosine_shift_exp.rst b/doc/src/dihedral_cosine_shift_exp.rst index b0e6b0f8f6..8f54f2b4ee 100644 --- a/doc/src/dihedral_cosine_shift_exp.rst +++ b/doc/src/dihedral_cosine_shift_exp.rst @@ -97,6 +97,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_fourier.rst b/doc/src/dihedral_fourier.rst index 0156cdce26..6b306a4e15 100644 --- a/doc/src/dihedral_fourier.rst +++ b/doc/src/dihedral_fourier.rst @@ -90,6 +90,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_harmonic.rst b/doc/src/dihedral_harmonic.rst index 8f711f0f63..374291ce9e 100644 --- a/doc/src/dihedral_harmonic.rst +++ b/doc/src/dihedral_harmonic.rst @@ -102,6 +102,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_helix.rst b/doc/src/dihedral_helix.rst index 19086e1aeb..44dac56e07 100644 --- a/doc/src/dihedral_helix.rst +++ b/doc/src/dihedral_helix.rst @@ -100,6 +100,3 @@ Related commands **(Guo)** Guo and Thirumalai, Journal of Molecular Biology, 263, 323-43 (1996). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_hybrid.rst b/doc/src/dihedral_hybrid.rst index f67b1185fe..ff3c6a9fe0 100644 --- a/doc/src/dihedral_hybrid.rst +++ b/doc/src/dihedral_hybrid.rst @@ -106,6 +106,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_multi_harmonic.rst b/doc/src/dihedral_multi_harmonic.rst index e304685a68..f5a0999595 100644 --- a/doc/src/dihedral_multi_harmonic.rst +++ b/doc/src/dihedral_multi_harmonic.rst @@ -84,6 +84,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_nharmonic.rst b/doc/src/dihedral_nharmonic.rst index ceb87e4651..ca4de96101 100644 --- a/doc/src/dihedral_nharmonic.rst +++ b/doc/src/dihedral_nharmonic.rst @@ -84,6 +84,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_none.rst b/doc/src/dihedral_none.rst index 8955323bb5..86451451fa 100644 --- a/doc/src/dihedral_none.rst +++ b/doc/src/dihedral_none.rst @@ -41,6 +41,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_opls.rst b/doc/src/dihedral_opls.rst index 5edbcd870b..bd5c9e63a5 100644 --- a/doc/src/dihedral_opls.rst +++ b/doc/src/dihedral_opls.rst @@ -106,6 +106,3 @@ Related commands **(Watkins)** Watkins and Jorgensen, J Phys Chem A, 105, 4118-4125 (2001). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_quadratic.rst b/doc/src/dihedral_quadratic.rst index 9634e729e9..36906abd7e 100644 --- a/doc/src/dihedral_quadratic.rst +++ b/doc/src/dihedral_quadratic.rst @@ -85,6 +85,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_spherical.rst b/doc/src/dihedral_spherical.rst index ef5a3801e2..90ba6f8ae5 100644 --- a/doc/src/dihedral_spherical.rst +++ b/doc/src/dihedral_spherical.rst @@ -99,6 +99,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_style.rst b/doc/src/dihedral_style.rst index 81d1ddabdd..103ea44297 100644 --- a/doc/src/dihedral_style.rst +++ b/doc/src/dihedral_style.rst @@ -145,6 +145,3 @@ Default dihedral\_style none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_table.rst b/doc/src/dihedral_table.rst index fb3e620adc..60fd465729 100644 --- a/doc/src/dihedral_table.rst +++ b/doc/src/dihedral_table.rst @@ -228,6 +228,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_table_cut.rst b/doc/src/dihedral_table_cut.rst index 809a858f00..0a069b37a5 100644 --- a/doc/src/dihedral_table_cut.rst +++ b/doc/src/dihedral_table_cut.rst @@ -231,6 +231,3 @@ Related commands **(Salerno)** Salerno, Bernstein, J Chem Theory Comput, --, ---- (2018). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dihedral_zero.rst b/doc/src/dihedral_zero.rst index 38715735ce..6ec39e319e 100644 --- a/doc/src/dihedral_zero.rst +++ b/doc/src/dihedral_zero.rst @@ -53,6 +53,3 @@ Restrictions **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dimension.rst b/doc/src/dimension.rst index 1ccb3930d6..a3c9c44905 100644 --- a/doc/src/dimension.rst +++ b/doc/src/dimension.rst @@ -61,6 +61,3 @@ Default dimension 3 -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/displace_atoms.rst b/doc/src/displace_atoms.rst index 2764940dde..1e63fc9954 100644 --- a/doc/src/displace_atoms.rst +++ b/doc/src/displace_atoms.rst @@ -162,6 +162,3 @@ Default The option defaults are units = lattice. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dump.rst b/doc/src/dump.rst index 833575debc..f15d352c9b 100644 --- a/doc/src/dump.rst +++ b/doc/src/dump.rst @@ -728,6 +728,3 @@ The defaults for the *image* and *movie* styles are listed on the :doc:`dump image ` doc page. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dump_adios.rst b/doc/src/dump_adios.rst index 1cd2e81c9b..4e01ef76d4 100644 --- a/doc/src/dump_adios.rst +++ b/doc/src/dump_adios.rst @@ -91,6 +91,3 @@ Related commands -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dump_cfg_uef.rst b/doc/src/dump_cfg_uef.rst index 28242b0871..5bd0fd41d4 100644 --- a/doc/src/dump_cfg_uef.rst +++ b/doc/src/dump_cfg_uef.rst @@ -62,6 +62,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dump_h5md.rst b/doc/src/dump_h5md.rst index e0a22a846a..4317ae7fed 100644 --- a/doc/src/dump_h5md.rst +++ b/doc/src/dump_h5md.rst @@ -153,6 +153,3 @@ Comp. Phys. Comm. 185(6), 1546-1553 (2014) - `[arXiv:1308.6382] `_. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dump_image.rst b/doc/src/dump_image.rst index 938b11c356..923fcea56c 100644 --- a/doc/src/dump_image.rst +++ b/doc/src/dump_image.rst @@ -748,6 +748,3 @@ The defaults for the keywords are as follows: * ssao = no -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dump_modify.rst b/doc/src/dump_modify.rst index 8d42a7acab..8c18814242 100644 --- a/doc/src/dump_modify.rst +++ b/doc/src/dump_modify.rst @@ -1195,6 +1195,3 @@ Divide each value by 255 to get the equivalent 0.0 to 1.0 value. +-------------------------------+--------------------------------------+---------------------------------+--------------------------------+--------------------------------+ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dump_molfile.rst b/doc/src/dump_molfile.rst index 69347840b5..4037772a59 100644 --- a/doc/src/dump_molfile.rst +++ b/doc/src/dump_molfile.rst @@ -140,6 +140,3 @@ Default The default path is ".". All other properties have to be specified. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dump_netcdf.rst b/doc/src/dump_netcdf.rst index 9f98cd9824..5a9fc52481 100644 --- a/doc/src/dump_netcdf.rst +++ b/doc/src/dump_netcdf.rst @@ -92,6 +92,3 @@ Related commands :doc:`dump `, :doc:`dump_modify `, :doc:`undump ` -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dump_vtk.rst b/doc/src/dump_vtk.rst index 6624820a4f..b4c2633437 100644 --- a/doc/src/dump_vtk.rst +++ b/doc/src/dump_vtk.rst @@ -194,6 +194,3 @@ By default, files are written in ASCII format. If the file extension is not one of .vtk, .vtp or .vtu, the legacy VTK file format is used. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/dynamical_matrix.rst b/doc/src/dynamical_matrix.rst index 0d4ccf7589..2aaaafbe75 100644 --- a/doc/src/dynamical_matrix.rst +++ b/doc/src/dynamical_matrix.rst @@ -83,6 +83,3 @@ Default The default settings are file = "dynmat.dyn", binary = no -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/echo.rst b/doc/src/echo.rst index a88d821993..1251633733 100644 --- a/doc/src/echo.rst +++ b/doc/src/echo.rst @@ -48,6 +48,3 @@ Default echo log -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix.rst b/doc/src/fix.rst index 801479de6e..2baeb3a2c8 100644 --- a/doc/src/fix.rst +++ b/doc/src/fix.rst @@ -409,6 +409,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_adapt.rst b/doc/src/fix_adapt.rst index 723cbd4618..04289c3614 100644 --- a/doc/src/fix_adapt.rst +++ b/doc/src/fix_adapt.rst @@ -385,6 +385,3 @@ Default The option defaults are scale = no, reset = no. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_adapt_fep.rst b/doc/src/fix_adapt_fep.rst index 76dcfadda1..b86aaee7e3 100644 --- a/doc/src/fix_adapt_fep.rst +++ b/doc/src/fix_adapt_fep.rst @@ -327,6 +327,3 @@ Default The option defaults are scale = no, reset = no, after = no. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_addforce.rst b/doc/src/fix_addforce.rst index 971abdc682..50001a03d9 100644 --- a/doc/src/fix_addforce.rst +++ b/doc/src/fix_addforce.rst @@ -201,6 +201,3 @@ Default The option default for the every keyword is every = 1. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_addtorque.rst b/doc/src/fix_addtorque.rst index 75636d5abf..80ff444a37 100644 --- a/doc/src/fix_addtorque.rst +++ b/doc/src/fix_addtorque.rst @@ -103,6 +103,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_append_atoms.rst b/doc/src/fix_append_atoms.rst index 29ef20342a..7d1fea03a5 100644 --- a/doc/src/fix_append_atoms.rst +++ b/doc/src/fix_append_atoms.rst @@ -123,6 +123,3 @@ The keyword defaults are size = 0.0, freq = 0, units = lattice. All added atoms are of type 1 unless the basis keyword is used. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_atc.rst b/doc/src/fix_atc.rst index 935a951d17..f5d2f8269e 100644 --- a/doc/src/fix_atc.rst +++ b/doc/src/fix_atc.rst @@ -292,6 +292,3 @@ For detailed exposition of the theory and algorithms please see: Please refer to the standard finite element (FE) texts, e.g. T.J.R Hughes " The finite element method ", Dover 2003, for the basics of FE simulation. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_atom_swap.rst b/doc/src/fix_atom_swap.rst index 420a490c15..7965176d9e 100644 --- a/doc/src/fix_atom_swap.rst +++ b/doc/src/fix_atom_swap.rst @@ -208,6 +208,3 @@ all atom types. L Zepeda-Ruiz, Phys. Rev. B, 85, 184203 (2012). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_ave_atom.rst b/doc/src/fix_ave_atom.rst index a9878887d8..433e90d1e1 100644 --- a/doc/src/fix_ave_atom.rst +++ b/doc/src/fix_ave_atom.rst @@ -189,6 +189,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_ave_chunk.rst b/doc/src/fix_ave_chunk.rst index 92fe47bfb5..4515f3e997 100644 --- a/doc/src/fix_ave_chunk.rst +++ b/doc/src/fix_ave_chunk.rst @@ -515,6 +515,3 @@ The option defaults are norm = all, ave = one, bias = none, no file output, and title 1,2,3 = strings as described above. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_ave_correlate.rst b/doc/src/fix_ave_correlate.rst index c5b422ef6e..8b3ced4cc9 100644 --- a/doc/src/fix_ave_correlate.rst +++ b/doc/src/fix_ave_correlate.rst @@ -388,6 +388,3 @@ The option defaults are ave = one, type = auto, start = 0, no file output, title 1,2,3 = strings as described above, and prefactor = 1.0. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_ave_correlate_long.rst b/doc/src/fix_ave_correlate_long.rst index a976061edc..3450b017a5 100644 --- a/doc/src/fix_ave_correlate_long.rst +++ b/doc/src/fix_ave_correlate_long.rst @@ -157,6 +157,3 @@ follows: ncorr=20, nlen=16, ncount=2. A.E. Likhtman, J. Chem. Phys. 133, 154103 (2010). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_ave_histo.rst b/doc/src/fix_ave_histo.rst index 176e4b51db..0bfcba9fa2 100644 --- a/doc/src/fix_ave_histo.rst +++ b/doc/src/fix_ave_histo.rst @@ -390,6 +390,3 @@ arguments, ave = one, start = 0, no file output, beyond = ignore, and title 1,2,3 = strings as described above. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_ave_time.rst b/doc/src/fix_ave_time.rst index 39fa1746e4..ea2c21fcf7 100644 --- a/doc/src/fix_ave_time.rst +++ b/doc/src/fix_ave_time.rst @@ -370,6 +370,3 @@ output, format = %g, title 1,2,3 = strings as described above, and no off settings for any input values. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_aveforce.rst b/doc/src/fix_aveforce.rst index 07d2e3b0f0..78266a7758 100644 --- a/doc/src/fix_aveforce.rst +++ b/doc/src/fix_aveforce.rst @@ -134,6 +134,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_balance.rst b/doc/src/fix_balance.rst index db2bf9e64b..2a5d18bca1 100644 --- a/doc/src/fix_balance.rst +++ b/doc/src/fix_balance.rst @@ -425,6 +425,3 @@ Related commands -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_bocs.rst b/doc/src/fix_bocs.rst index 38e88ad1aa..f699762e50 100644 --- a/doc/src/fix_bocs.rst +++ b/doc/src/fix_bocs.rst @@ -135,6 +135,3 @@ paper by Dunn et. al. :ref:`(Dunn2) ` . **(Dunn2)** Dunn, Lebold, DeLyser, Rudzinski, and Noid, J. Phys. Chem. B, 122, 3363 (2018). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_bond_break.rst b/doc/src/fix_bond_break.rst index 57bd3d39a8..ea7e2c5acc 100644 --- a/doc/src/fix_bond_break.rst +++ b/doc/src/fix_bond_break.rst @@ -158,6 +158,3 @@ Default The option defaults are prob = 1.0. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_bond_create.rst b/doc/src/fix_bond_create.rst index dbf1234582..b1d1ff269c 100644 --- a/doc/src/fix_bond_create.rst +++ b/doc/src/fix_bond_create.rst @@ -260,6 +260,3 @@ The option defaults are iparam = (0,itype), jparam = (0,jtype), and prob = 1.0. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_bond_react.rst b/doc/src/fix_bond_react.rst index f066eb8e45..cd3e737b0b 100644 --- a/doc/src/fix_bond_react.rst +++ b/doc/src/fix_bond_react.rst @@ -543,6 +543,3 @@ update\_edges = none **(Gissinger)** Gissinger, Jensen and Wise, Polymer, 128, 211 (2017). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_bond_swap.rst b/doc/src/fix_bond_swap.rst index b341fea35b..96fd8717dc 100644 --- a/doc/src/fix_bond_swap.rst +++ b/doc/src/fix_bond_swap.rst @@ -211,6 +211,3 @@ Related commands 199-208 (2004). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_box_relax.rst b/doc/src/fix_box_relax.rst index 02e5f97736..4a52fbd6ce 100644 --- a/doc/src/fix_box_relax.rst +++ b/doc/src/fix_box_relax.rst @@ -417,6 +417,3 @@ The keyword defaults are dilate = all, vmax = 0.0001, nreset = 0. **(Parrinello1981)** Parrinello and Rahman, J Appl Phys, 52, 7182 (1981). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_client_md.rst b/doc/src/fix_client_md.rst index 01539b6d68..3a9ef1a8af 100644 --- a/doc/src/fix_client_md.rst +++ b/doc/src/fix_client_md.rst @@ -110,6 +110,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_cmap.rst b/doc/src/fix_cmap.rst index 70e1dd5987..61c0e60860 100644 --- a/doc/src/fix_cmap.rst +++ b/doc/src/fix_cmap.rst @@ -167,6 +167,3 @@ Related commands **(Brooks)** Brooks, Brooks, MacKerell Jr., J Comput Chem, 30, 1545 (2009). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_colvars.rst b/doc/src/fix_colvars.rst index eac0e21d76..15199761c5 100644 --- a/doc/src/fix_colvars.rst +++ b/doc/src/fix_colvars.rst @@ -157,6 +157,3 @@ and tstat = NULL. **(Fiorin)** Fiorin, Klein, Henin, Mol. Phys., DOI:10.1080/00268976.2013.813594 -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_controller.rst b/doc/src/fix_controller.rst index 55be294df8..71040fd473 100644 --- a/doc/src/fix_controller.rst +++ b/doc/src/fix_controller.rst @@ -226,6 +226,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_deform.rst b/doc/src/fix_deform.rst index fe1b0925d6..c3b332543f 100644 --- a/doc/src/fix_deform.rst +++ b/doc/src/fix_deform.rst @@ -638,6 +638,3 @@ Default The option defaults are remap = x, flip = yes, and units = lattice. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_deposit.rst b/doc/src/fix_deposit.rst index c076d80ed4..1e58d0ca89 100644 --- a/doc/src/fix_deposit.rst +++ b/doc/src/fix_deposit.rst @@ -322,6 +322,3 @@ attempt = 10, rate = 0.0, vx = 0.0 0.0, vy = 0.0 0.0, vz = 0.0 0.0, and units = lattice. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_dpd_energy.rst b/doc/src/fix_dpd_energy.rst index 09fc23ac66..817b24862e 100644 --- a/doc/src/fix_dpd_energy.rst +++ b/doc/src/fix_dpd_energy.rst @@ -122,6 +122,3 @@ Particle Dynamics (DPD-E)", ARL-TR-6863, U.S. Army Research Laboratory, Aberdeen Proving Ground, MD (2014). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_dpd_source.rst b/doc/src/fix_dpd_source.rst index d23fbff1c9..40efdf3e29 100644 --- a/doc/src/fix_dpd_source.rst +++ b/doc/src/fix_dpd_source.rst @@ -119,6 +119,3 @@ advection-diffusion-reaction problems", J. Chem. Phys., 143: 014101 (2015). DOI: 10.1063/1.4923254 -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_drag.rst b/doc/src/fix_drag.rst index bc1476301a..7b2a55b57a 100644 --- a/doc/src/fix_drag.rst +++ b/doc/src/fix_drag.rst @@ -69,6 +69,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_drude.rst b/doc/src/fix_drude.rst index d58d1c6d6a..9fae8aa926 100644 --- a/doc/src/fix_drude.rst +++ b/doc/src/fix_drude.rst @@ -54,6 +54,3 @@ Related commands **Default:** None -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_drude_transform.rst b/doc/src/fix_drude_transform.rst index f54fce6a43..8ed0ff41d7 100644 --- a/doc/src/fix_drude_transform.rst +++ b/doc/src/fix_drude_transform.rst @@ -226,6 +226,3 @@ Related commands **(Lamoureux)** Lamoureux and Roux, J Chem Phys, 119, 3025-3039 (2003). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_dt_reset.rst b/doc/src/fix_dt_reset.rst index ba34dee50b..cc000f04a5 100644 --- a/doc/src/fix_dt_reset.rst +++ b/doc/src/fix_dt_reset.rst @@ -113,6 +113,3 @@ The option defaults are units = lattice, and no emax kinetic energy limit. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_efield.rst b/doc/src/fix_efield.rst index faf4d9c81a..771e9e1598 100644 --- a/doc/src/fix_efield.rst +++ b/doc/src/fix_efield.rst @@ -181,6 +181,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_ehex.rst b/doc/src/fix_ehex.rst index 2a8a4c8f67..55aeaa2e72 100644 --- a/doc/src/fix_ehex.rst +++ b/doc/src/fix_ehex.rst @@ -204,6 +204,3 @@ Related commands 124104 (2015). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_electron_stopping.rst b/doc/src/fix_electron_stopping.rst index 6589d4b69d..d7daeada50 100644 --- a/doc/src/fix_electron_stopping.rst +++ b/doc/src/fix_electron_stopping.rst @@ -205,6 +205,3 @@ The default is no limitation by region, and minneigh = 1. **(PASS)** PASS webpage: https://www.sdu.dk/en/DPASS -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_enforce2d.rst b/doc/src/fix_enforce2d.rst index 7c4934d223..3404afe9bc 100644 --- a/doc/src/fix_enforce2d.rst +++ b/doc/src/fix_enforce2d.rst @@ -78,6 +78,3 @@ Restrictions **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_eos_cv.rst b/doc/src/fix_eos_cv.rst index 7c309ec135..86b0e00b43 100644 --- a/doc/src/fix_eos_cv.rst +++ b/doc/src/fix_eos_cv.rst @@ -74,6 +74,3 @@ Particle Dynamics (DPD-E)", ARL-TR-6863, U.S. Army Research Laboratory, Aberdeen Proving Ground, MD (2014). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_eos_table.rst b/doc/src/fix_eos_table.rst index d1cb88edf4..ee5654cf50 100644 --- a/doc/src/fix_eos_table.rst +++ b/doc/src/fix_eos_table.rst @@ -129,6 +129,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_eos_table_rx.rst b/doc/src/fix_eos_table_rx.rst index 8b94ef9459..9d771ea02d 100644 --- a/doc/src/fix_eos_table_rx.rst +++ b/doc/src/fix_eos_table_rx.rst @@ -227,6 +227,3 @@ Related commands -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_evaporate.rst b/doc/src/fix_evaporate.rst index 75c6b2bcbe..0647fb436e 100644 --- a/doc/src/fix_evaporate.rst +++ b/doc/src/fix_evaporate.rst @@ -107,6 +107,3 @@ Default The option defaults are molecule = no. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_external.rst b/doc/src/fix_external.rst index 8e7ca5b2e1..e108469999 100644 --- a/doc/src/fix_external.rst +++ b/doc/src/fix_external.rst @@ -182,6 +182,3 @@ Restrictions **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_ffl.rst b/doc/src/fix_ffl.rst index 67e386c26f..5faddf0a18 100644 --- a/doc/src/fix_ffl.rst +++ b/doc/src/fix_ffl.rst @@ -137,6 +137,3 @@ Related commands **(Bussi)** G. Bussi, M. Parrinello, Phs. Rev. E 75, 056707 (2007) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_filter_corotate.rst b/doc/src/fix_filter_corotate.rst index b6765c25b4..362d7cc8ae 100644 --- a/doc/src/fix_filter_corotate.rst +++ b/doc/src/fix_filter_corotate.rst @@ -99,6 +99,3 @@ Related commands **(Fath)** Fath, Hochbruck, Singh, J Comp Phys, 333, 180-198 (2017). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_flow_gauss.rst b/doc/src/fix_flow_gauss.rst index 728ef17387..22b92bd3c0 100644 --- a/doc/src/fix_flow_gauss.rst +++ b/doc/src/fix_flow_gauss.rst @@ -185,6 +185,3 @@ The option default for the *energy* keyword is energy = no. **(Zhu)** Zhu, Tajkhorshid, and Schulten, Biophys. J. 83, 154 (2002). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_freeze.rst b/doc/src/fix_freeze.rst index cc67f969df..03639a0a48 100644 --- a/doc/src/fix_freeze.rst +++ b/doc/src/fix_freeze.rst @@ -96,6 +96,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_gcmc.rst b/doc/src/fix_gcmc.rst index 6b6af93fdc..77f5a59fd4 100644 --- a/doc/src/fix_gcmc.rst +++ b/doc/src/fix_gcmc.rst @@ -495,6 +495,3 @@ listed above. Academic Press, London, 2002. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_gld.rst b/doc/src/fix_gld.rst index 4826ce07ff..d25d06f042 100644 --- a/doc/src/fix_gld.rst +++ b/doc/src/fix_gld.rst @@ -176,6 +176,3 @@ The option defaults are frozen = no, zero = no. **(Baczewski)** A.D. Baczewski and S.D. Bond, J. Chem. Phys. 139, 044107 (2013). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_gle.rst b/doc/src/fix_gle.rst index 53efdf91a5..1eef32d68c 100644 --- a/doc/src/fix_gle.rst +++ b/doc/src/fix_gle.rst @@ -177,6 +177,3 @@ Related commands 030603 (2009) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_gravity.rst b/doc/src/fix_gravity.rst index 87ed196a90..38f61f532b 100644 --- a/doc/src/fix_gravity.rst +++ b/doc/src/fix_gravity.rst @@ -158,6 +158,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_grem.rst b/doc/src/fix_grem.rst index 68e143b1ad..3e6309d5f6 100644 --- a/doc/src/fix_grem.rst +++ b/doc/src/fix_grem.rst @@ -126,6 +126,3 @@ Related commands 13379-13384 (2015). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_halt.rst b/doc/src/fix_halt.rst index e020ea7e26..d85eddfc53 100644 --- a/doc/src/fix_halt.rst +++ b/doc/src/fix_halt.rst @@ -169,6 +169,3 @@ Default The option defaults are error = hard and message = yes. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_heat.rst b/doc/src/fix_heat.rst index c96a88ee35..7fb7c87733 100644 --- a/doc/src/fix_heat.rst +++ b/doc/src/fix_heat.rst @@ -139,6 +139,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_hyper_global.rst b/doc/src/fix_hyper_global.rst index 579d6cc681..62796c2ca2 100644 --- a/doc/src/fix_hyper_global.rst +++ b/doc/src/fix_hyper_global.rst @@ -296,6 +296,3 @@ Related commands **(Miron)** R. A. Miron and K. A. Fichthorn, J Chem Phys, 119, 6210 (2003). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_hyper_local.rst b/doc/src/fix_hyper_local.rst index 6758c747b6..e278a29d5d 100644 --- a/doc/src/fix_hyper_local.rst +++ b/doc/src/fix_hyper_local.rst @@ -572,6 +572,3 @@ default. **(Miron)** R. A. Miron and K. A. Fichthorn, J Chem Phys, 119, 6210 (2003). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_imd.rst b/doc/src/fix_imd.rst index 75c5ccc741..d224aca553 100644 --- a/doc/src/fix_imd.rst +++ b/doc/src/fix_imd.rst @@ -177,6 +177,3 @@ needs to use a different port number. **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_indent.rst b/doc/src/fix_indent.rst index ea8aa28b41..203874cf97 100644 --- a/doc/src/fix_indent.rst +++ b/doc/src/fix_indent.rst @@ -229,6 +229,3 @@ Default The option defaults are side = out and units = lattice. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_ipi.rst b/doc/src/fix_ipi.rst index 1dc89c4174..3be859c108 100644 --- a/doc/src/fix_ipi.rst +++ b/doc/src/fix_ipi.rst @@ -112,6 +112,3 @@ Related commands `http://epfl-cosmo.github.io/gle4md/index.html?page=ipi `_ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_langevin.rst b/doc/src/fix_langevin.rst index 429e831a11..b776ca015b 100644 --- a/doc/src/fix_langevin.rst +++ b/doc/src/fix_langevin.rst @@ -381,6 +381,3 @@ types, tally = no, zero = no, gjf = no. **(Gronbech-Jensen)** Gronbech-Jensen, Mol Phys (2019); https://doi.org/10.1080/00268976.2019.1662506 -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_langevin_drude.rst b/doc/src/fix_langevin_drude.rst index 32546f69b0..29dd71e12e 100644 --- a/doc/src/fix_langevin_drude.rst +++ b/doc/src/fix_langevin_drude.rst @@ -321,6 +321,3 @@ The option defaults are zero = no. Phys Chem Lett, 2, 87-92 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_langevin_eff.rst b/doc/src/fix_langevin_eff.rst index d9f00a76ea..572019f9f1 100644 --- a/doc/src/fix_langevin_eff.rst +++ b/doc/src/fix_langevin_eff.rst @@ -135,6 +135,3 @@ The option defaults are scale = 1.0 for all types and tally = no. **(Schneider)** Schneider and Stoll, Phys Rev B, 17, 1302 (1978). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_langevin_spin.rst b/doc/src/fix_langevin_spin.rst index 2902c8fb24..2a5b235964 100644 --- a/doc/src/fix_langevin_spin.rst +++ b/doc/src/fix_langevin_spin.rst @@ -121,6 +121,3 @@ Related commands Journal of Computational Physics, 372, 406-425, (2018). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_latte.rst b/doc/src/fix_latte.rst index d30b911e7f..adcb7fb5b6 100644 --- a/doc/src/fix_latte.rst +++ b/doc/src/fix_latte.rst @@ -254,6 +254,3 @@ N. Bock, M. E. Wall, and A. M. N. Niklasson, J. Chem. Theory Comp., 12, 3063 (2016). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_lb_fluid.rst b/doc/src/fix_lb_fluid.rst index c0d924078c..a7d05f33f4 100644 --- a/doc/src/fix_lb_fluid.rst +++ b/doc/src/fix_lb_fluid.rst @@ -407,6 +407,3 @@ If walls are present, they are assumed to be stationary. **(Adhikari et al.)** Adhikari, R., Stratford, K., Cates, M. E., and Wagner, A. J., Fluctuating lattice Boltzmann, Europhys. Lett. 71 (2005) 473-479. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_lb_momentum.rst b/doc/src/fix_lb_momentum.rst index cfc5c07d8d..9d85e76c6b 100644 --- a/doc/src/fix_lb_momentum.rst +++ b/doc/src/fix_lb_momentum.rst @@ -84,6 +84,3 @@ Default Zeros the total system linear momentum in each dimension. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_lb_pc.rst b/doc/src/fix_lb_pc.rst index 039e315be1..d689489a4e 100644 --- a/doc/src/fix_lb_pc.rst +++ b/doc/src/fix_lb_pc.rst @@ -68,6 +68,3 @@ Related commands **(Mackay et al.)** Mackay, F. E., Ollila, S.T.T., and Denniston, C., Hydrodynamic Forces Implemented into LAMMPS through a lattice-Boltzmann fluid, Computer Physics Communications 184 (2013) 2021-2031. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_lb_rigid_pc_sphere.rst b/doc/src/fix_lb_rigid_pc_sphere.rst index dfa7cf0663..5f1c5e3a9e 100644 --- a/doc/src/fix_lb_rigid_pc_sphere.rst +++ b/doc/src/fix_lb_rigid_pc_sphere.rst @@ -168,6 +168,3 @@ The defaults are force \* on on on, and torque \* on on on. **(Mackay et al.)** Mackay, F. E., Ollila, S.T.T., and Denniston, C., Hydrodynamic Forces Implemented into LAMMPS through a lattice-Boltzmann fluid, Computer Physics Communications 184 (2013) 2021-2031. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_lb_viscous.rst b/doc/src/fix_lb_viscous.rst index 36f33037bf..821ea54ad2 100644 --- a/doc/src/fix_lb_viscous.rst +++ b/doc/src/fix_lb_viscous.rst @@ -103,6 +103,3 @@ Related commands **(Mackay et al.)** Mackay, F. E., Ollila, S.T.T., and Denniston, C., Hydrodynamic Forces Implemented into LAMMPS through a lattice-Boltzmann fluid, Computer Physics Communications 184 (2013) 2021-2031. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_lineforce.rst b/doc/src/fix_lineforce.rst index e317348a5e..d365a63554 100644 --- a/doc/src/fix_lineforce.rst +++ b/doc/src/fix_lineforce.rst @@ -57,6 +57,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_manifoldforce.rst b/doc/src/fix_manifoldforce.rst index 5dfdd70150..dc17f0f706 100644 --- a/doc/src/fix_manifoldforce.rst +++ b/doc/src/fix_manifoldforce.rst @@ -69,6 +69,3 @@ Related commands :doc:`fix nve/manifold/rattle `, :doc:`fix nvt/manifold/rattle ` -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_meso.rst b/doc/src/fix_meso.rst index e28514f8ea..2db76d7b4d 100644 --- a/doc/src/fix_meso.rst +++ b/doc/src/fix_meso.rst @@ -56,6 +56,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_meso_move.rst b/doc/src/fix_meso_move.rst index 62804aa75c..22319b2600 100644 --- a/doc/src/fix_meso_move.rst +++ b/doc/src/fix_meso_move.rst @@ -268,6 +268,3 @@ Default The option default is units = lattice. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_meso_stationary.rst b/doc/src/fix_meso_stationary.rst index 5a7d53e55b..140649f1ef 100644 --- a/doc/src/fix_meso_stationary.rst +++ b/doc/src/fix_meso_stationary.rst @@ -57,6 +57,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_modify.rst b/doc/src/fix_modify.rst index baa31338ed..0cb0ac98b2 100644 --- a/doc/src/fix_modify.rst +++ b/doc/src/fix_modify.rst @@ -169,6 +169,3 @@ by fix, energy = no, virial = different for each fix style, respa = 0, bodyforce = late. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_momentum.rst b/doc/src/fix_momentum.rst index e8194143d6..e14d16c91e 100644 --- a/doc/src/fix_momentum.rst +++ b/doc/src/fix_momentum.rst @@ -112,6 +112,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_move.rst b/doc/src/fix_move.rst index 036b156630..1e79d7ce8e 100644 --- a/doc/src/fix_move.rst +++ b/doc/src/fix_move.rst @@ -258,6 +258,3 @@ Related commands The option default is units = lattice. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_mscg.rst b/doc/src/fix_mscg.rst index b6f776677e..0484a6c973 100644 --- a/doc/src/fix_mscg.rst +++ b/doc/src/fix_mscg.rst @@ -150,6 +150,3 @@ The default keyword settings are range off, max 4 12 36. Chem Phys 128, 134105 (2008). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_msst.rst b/doc/src/fix_msst.rst index b22aedde7a..5270248ea9 100644 --- a/doc/src/fix_msst.rst +++ b/doc/src/fix_msst.rst @@ -223,6 +223,3 @@ timestep. J. Phys. Chem. C, 117, 7885 (2013). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_mvv_dpd.rst b/doc/src/fix_mvv_dpd.rst index e42dc84115..4cae1776e7 100644 --- a/doc/src/fix_mvv_dpd.rst +++ b/doc/src/fix_mvv_dpd.rst @@ -114,6 +114,3 @@ The default value for the optional *lambda* parameter is 0.5. 10.1063/1.474784 -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_neb.rst b/doc/src/fix_neb.rst index 4d84e5d0b6..7abbbf5986 100644 --- a/doc/src/fix_neb.rst +++ b/doc/src/fix_neb.rst @@ -287,6 +287,3 @@ and Coker World Scientific, Singapore, 1998, p 385. Comp Phys Comm, 205, 13-21 (2016). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_neb_spin.rst b/doc/src/fix_neb_spin.rst index 859ae5ad79..1afcf0624e 100644 --- a/doc/src/fix_neb_spin.rst +++ b/doc/src/fix_neb_spin.rst @@ -88,6 +88,3 @@ none 335-347 (2015). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nh.rst b/doc/src/fix_nh.rst index 50abc247a1..ac9bef40c6 100644 --- a/doc/src/fix_nh.rst +++ b/doc/src/fix_nh.rst @@ -738,6 +738,3 @@ Martyna, J Phys A: Math Gen, 39, 5629 (2006). 5840 (1997). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nh_eff.rst b/doc/src/fix_nh_eff.rst index 58ed3e41cd..07cd487ced 100644 --- a/doc/src/fix_nh_eff.rst +++ b/doc/src/fix_nh_eff.rst @@ -176,6 +176,3 @@ Martyna, J Phys A: Math Gen, 39, 5629 (2006). **(Shinoda)** Shinoda, Shiga, and Mikami, Phys Rev B, 69, 134103 (2004). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nh_uef.rst b/doc/src/fix_nh_uef.rst index 99660ac672..124ca188aa 100644 --- a/doc/src/fix_nh_uef.rst +++ b/doc/src/fix_nh_uef.rst @@ -274,6 +274,3 @@ given in :doc:`fix nvt/sllod `. 244903 (2016). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nph_asphere.rst b/doc/src/fix_nph_asphere.rst index 88d8052a5a..8500184eac 100644 --- a/doc/src/fix_nph_asphere.rst +++ b/doc/src/fix_nph_asphere.rst @@ -159,6 +159,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nph_body.rst b/doc/src/fix_nph_body.rst index 25416bfa11..d1e51e56b6 100644 --- a/doc/src/fix_nph_body.rst +++ b/doc/src/fix_nph_body.rst @@ -152,6 +152,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nph_sphere.rst b/doc/src/fix_nph_sphere.rst index de8fb71944..14c7b38791 100644 --- a/doc/src/fix_nph_sphere.rst +++ b/doc/src/fix_nph_sphere.rst @@ -172,6 +172,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nphug.rst b/doc/src/fix_nphug.rst index 070192207f..25483556a9 100644 --- a/doc/src/fix_nphug.rst +++ b/doc/src/fix_nphug.rst @@ -254,6 +254,3 @@ The keyword defaults are the same as those for :doc:`fix npt ` **(Ravelo)** Ravelo, Holian, Germann and Lomdahl, Phys Rev B, 70, 014103 (2004). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_npt_asphere.rst b/doc/src/fix_npt_asphere.rst index ee3a81892e..261dc4a333 100644 --- a/doc/src/fix_npt_asphere.rst +++ b/doc/src/fix_npt_asphere.rst @@ -184,6 +184,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_npt_body.rst b/doc/src/fix_npt_body.rst index bfc743d923..33303b3ed8 100644 --- a/doc/src/fix_npt_body.rst +++ b/doc/src/fix_npt_body.rst @@ -177,6 +177,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_npt_cauchy.rst b/doc/src/fix_npt_cauchy.rst index 3a660c5c4f..cd6b13d89e 100644 --- a/doc/src/fix_npt_cauchy.rst +++ b/doc/src/fix_npt_cauchy.rst @@ -674,6 +674,3 @@ Martyna, J Phys A: Math Gen, 39, 5629 (2006). 144, 184107 (2016). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_npt_sphere.rst b/doc/src/fix_npt_sphere.rst index 0c4b79d616..daba4c3b9b 100644 --- a/doc/src/fix_npt_sphere.rst +++ b/doc/src/fix_npt_sphere.rst @@ -196,6 +196,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve.rst b/doc/src/fix_nve.rst index 9c8b5dcf33..deff980bba 100644 --- a/doc/src/fix_nve.rst +++ b/doc/src/fix_nve.rst @@ -85,6 +85,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_asphere.rst b/doc/src/fix_nve_asphere.rst index 688792058d..f7e6ea7fae 100644 --- a/doc/src/fix_nve_asphere.rst +++ b/doc/src/fix_nve_asphere.rst @@ -93,6 +93,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_asphere_noforce.rst b/doc/src/fix_nve_asphere_noforce.rst index b175b769e8..4f41ffc21d 100644 --- a/doc/src/fix_nve_asphere_noforce.rst +++ b/doc/src/fix_nve_asphere_noforce.rst @@ -67,6 +67,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_awpmd.rst b/doc/src/fix_nve_awpmd.rst index 8aeb6969b2..aa4c4c1cfc 100644 --- a/doc/src/fix_nve_awpmd.rst +++ b/doc/src/fix_nve_awpmd.rst @@ -60,6 +60,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_body.rst b/doc/src/fix_nve_body.rst index 5410ddb8ee..20231fe5e6 100644 --- a/doc/src/fix_nve_body.rst +++ b/doc/src/fix_nve_body.rst @@ -64,6 +64,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_dot.rst b/doc/src/fix_nve_dot.rst index 5fc6a46ab5..7f7dd51720 100644 --- a/doc/src/fix_nve_dot.rst +++ b/doc/src/fix_nve_dot.rst @@ -79,6 +79,3 @@ Related commands **(Henrich)** O. Henrich, Y. A. Gutierrez-Fosado, T. Curk, T. E. Ouldridge, Eur. Phys. J. E 41, 57 (2018). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_dotc_langevin.rst b/doc/src/fix_nve_dotc_langevin.rst index 6b210b7150..2bbe8d6f45 100644 --- a/doc/src/fix_nve_dotc_langevin.rst +++ b/doc/src/fix_nve_dotc_langevin.rst @@ -171,6 +171,3 @@ Related commands **(Henrich)** O. Henrich, Y. A. Gutierrez-Fosado, T. Curk, T. E. Ouldridge, Eur. Phys. J. E 41, 57 (2018). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_eff.rst b/doc/src/fix_nve_eff.rst index a1d10cb484..eab8e423c8 100644 --- a/doc/src/fix_nve_eff.rst +++ b/doc/src/fix_nve_eff.rst @@ -55,6 +55,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_limit.rst b/doc/src/fix_nve_limit.rst index 684016959b..9965688639 100644 --- a/doc/src/fix_nve_limit.rst +++ b/doc/src/fix_nve_limit.rst @@ -93,6 +93,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_line.rst b/doc/src/fix_nve_line.rst index e92f529542..f7193b057b 100644 --- a/doc/src/fix_nve_line.rst +++ b/doc/src/fix_nve_line.rst @@ -60,6 +60,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_manifold_rattle.rst b/doc/src/fix_nve_manifold_rattle.rst index f4215f2abe..ac1f0799b8 100644 --- a/doc/src/fix_nve_manifold_rattle.rst +++ b/doc/src/fix_nve_manifold_rattle.rst @@ -124,6 +124,3 @@ Related commands preprint available at `arXiv:1411.3019 `_. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_noforce.rst b/doc/src/fix_nve_noforce.rst index bacc4a9908..ebf0a0dd87 100644 --- a/doc/src/fix_nve_noforce.rst +++ b/doc/src/fix_nve_noforce.rst @@ -59,6 +59,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_sphere.rst b/doc/src/fix_nve_sphere.rst index 855ea0f916..dc3d27d24d 100644 --- a/doc/src/fix_nve_sphere.rst +++ b/doc/src/fix_nve_sphere.rst @@ -141,6 +141,3 @@ Related commands 5840 (1997). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_spin.rst b/doc/src/fix_nve_spin.rst index 65f235bd3f..7041cd256d 100644 --- a/doc/src/fix_nve_spin.rst +++ b/doc/src/fix_nve_spin.rst @@ -108,6 +108,3 @@ The option default is lattice = moving. Journal of Computational Physics, 372, 406-425, (2018). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nve_tri.rst b/doc/src/fix_nve_tri.rst index c5e5aa99d6..76e1614797 100644 --- a/doc/src/fix_nve_tri.rst +++ b/doc/src/fix_nve_tri.rst @@ -61,6 +61,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nvk.rst b/doc/src/fix_nvk.rst index a3f3928339..c6836f4531 100644 --- a/doc/src/fix_nvk.rst +++ b/doc/src/fix_nvk.rst @@ -84,6 +84,3 @@ LAMMPS was built with that package. See the :doc:`Build package **(Zhang)** Zhang, J Chem Phys, 106, 6102 (1997). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nvt_asphere.rst b/doc/src/fix_nvt_asphere.rst index a3ad145405..3c0cea29e3 100644 --- a/doc/src/fix_nvt_asphere.rst +++ b/doc/src/fix_nvt_asphere.rst @@ -158,6 +158,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nvt_body.rst b/doc/src/fix_nvt_body.rst index 92819b26ca..22e926da1a 100644 --- a/doc/src/fix_nvt_body.rst +++ b/doc/src/fix_nvt_body.rst @@ -151,6 +151,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nvt_manifold_rattle.rst b/doc/src/fix_nvt_manifold_rattle.rst index 438c11fe7e..1cb10b8417 100644 --- a/doc/src/fix_nvt_manifold_rattle.rst +++ b/doc/src/fix_nvt_manifold_rattle.rst @@ -98,6 +98,3 @@ Related commands preprint available at `arXiv:1411.3019 `_. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nvt_sllod.rst b/doc/src/fix_nvt_sllod.rst index cd8f529c83..7b8274ed60 100644 --- a/doc/src/fix_nvt_sllod.rst +++ b/doc/src/fix_nvt_sllod.rst @@ -210,6 +210,3 @@ Same as :doc:`fix nvt `, except tchain = 1. Cambridge University Press, https://doi.org/10.1017/9781139017848, (2017). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nvt_sllod_eff.rst b/doc/src/fix_nvt_sllod_eff.rst index f1dc60c88f..1df8d45f37 100644 --- a/doc/src/fix_nvt_sllod_eff.rst +++ b/doc/src/fix_nvt_sllod_eff.rst @@ -98,6 +98,3 @@ Same as :doc:`fix nvt/eff `, except tchain = 1. 106, 5615 (1997). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_nvt_sphere.rst b/doc/src/fix_nvt_sphere.rst index 3275114a03..c2f9ccfeef 100644 --- a/doc/src/fix_nvt_sphere.rst +++ b/doc/src/fix_nvt_sphere.rst @@ -171,6 +171,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_oneway.rst b/doc/src/fix_oneway.rst index cc57989a53..660f263d57 100644 --- a/doc/src/fix_oneway.rst +++ b/doc/src/fix_oneway.rst @@ -68,6 +68,3 @@ Related commands -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_orient.rst b/doc/src/fix_orient.rst index 7ac297b064..ef0d2d2bdc 100644 --- a/doc/src/fix_orient.rst +++ b/doc/src/fix_orient.rst @@ -226,6 +226,3 @@ file1: 1.596820864092150 -1.785300000000000 0.798410432046075 -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_phonon.rst b/doc/src/fix_phonon.rst index f331f3ebb4..819833f0b6 100644 --- a/doc/src/fix_phonon.rst +++ b/doc/src/fix_phonon.rst @@ -240,6 +240,3 @@ method*\ , `Computer Physics Communications [182](2):540-541 (2011). `_ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_pimd.rst b/doc/src/fix_pimd.rst index cdbdf33d2b..d3f903e9c1 100644 --- a/doc/src/fix_pimd.rst +++ b/doc/src/fix_pimd.rst @@ -223,6 +223,3 @@ Path Integrals, McGraw-Hill, New York (1965). 415 (1996). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_planeforce.rst b/doc/src/fix_planeforce.rst index 2a406f5da5..ea87640f83 100644 --- a/doc/src/fix_planeforce.rst +++ b/doc/src/fix_planeforce.rst @@ -57,6 +57,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_plumed.rst b/doc/src/fix_plumed.rst index 26f66d4ac7..23068c979b 100644 --- a/doc/src/fix_plumed.rst +++ b/doc/src/fix_plumed.rst @@ -137,6 +137,3 @@ The default options are plumedfile = NULL and outfile = NULL -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_poems.rst b/doc/src/fix_poems.rst index da690030f6..8eec68813d 100644 --- a/doc/src/fix_poems.rst +++ b/doc/src/fix_poems.rst @@ -154,6 +154,3 @@ Related commands Engineering With Computers (2006). (`link to paper `_) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_pour.rst b/doc/src/fix_pour.rst index dab9fa601d..1cb98b3ac0 100644 --- a/doc/src/fix_pour.rst +++ b/doc/src/fix_pour.rst @@ -286,6 +286,3 @@ Additional option defaults are diam = one 1.0, dens = 1.0 1.0, vol = (for 2d), and id = max. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_press_berendsen.rst b/doc/src/fix_press_berendsen.rst index 17338048b0..0b0bbae54d 100644 --- a/doc/src/fix_press_berendsen.rst +++ b/doc/src/fix_press_berendsen.rst @@ -257,6 +257,3 @@ pressure for whatever :doc:`units ` are defined. Phys, 81, 3684 (1984). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_print.rst b/doc/src/fix_print.rst index 72d231a15c..f79f465334 100644 --- a/doc/src/fix_print.rst +++ b/doc/src/fix_print.rst @@ -119,6 +119,3 @@ The option defaults are no file output, screen = yes, and title string as described above. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_propel_self.rst b/doc/src/fix_propel_self.rst index 005657c759..7189fdac88 100644 --- a/doc/src/fix_propel_self.rst +++ b/doc/src/fix_propel_self.rst @@ -108,6 +108,3 @@ Eur. Phys. J. B 15, 105-113, 2000. **Default:** types -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_property_atom.rst b/doc/src/fix_property_atom.rst index f13c6239cd..42c755e8af 100644 --- a/doc/src/fix_property_atom.rst +++ b/doc/src/fix_property_atom.rst @@ -338,6 +338,3 @@ Default The default keyword values are ghost = no. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_python_invoke.rst b/doc/src/fix_python_invoke.rst index 0ee101198b..097954db3d 100644 --- a/doc/src/fix_python_invoke.rst +++ b/doc/src/fix_python_invoke.rst @@ -88,6 +88,3 @@ Related commands :doc:`python command ` -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_python_move.rst b/doc/src/fix_python_move.rst index e188c096af..2be9d95437 100644 --- a/doc/src/fix_python_move.rst +++ b/doc/src/fix_python_move.rst @@ -112,6 +112,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_qbmsst.rst b/doc/src/fix_qbmsst.rst index 6156c65041..828312eecf 100644 --- a/doc/src/fix_qbmsst.rst +++ b/doc/src/fix_qbmsst.rst @@ -251,6 +251,3 @@ T\_init=300.0. e0, p0, and v0 are calculated on the first step. **(Qi)** Qi and Reed, J. Phys. Chem. A 116, 10451 (2012). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_qeq.rst b/doc/src/fix_qeq.rst index 77ce447fed..1c84764e4e 100644 --- a/doc/src/fix_qeq.rst +++ b/doc/src/fix_qeq.rst @@ -265,6 +265,3 @@ Physical Chemistry, 105, 9396-9049 (2001) **(QEq/Fire)** T.-R. Shan, A. P. Thompson, S. J. Plimpton, in preparation -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_qeq_comb.rst b/doc/src/fix_qeq_comb.rst index b5da7142fa..c3b336e13d 100644 --- a/doc/src/fix_qeq_comb.rst +++ b/doc/src/fix_qeq_comb.rst @@ -160,6 +160,3 @@ Phillpot, Phys Rev B, 81, 125328 (2010). 101, 16141 (1994). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_qeq_reax.rst b/doc/src/fix_qeq_reax.rst index e39c0eb590..f3013d712f 100644 --- a/doc/src/fix_qeq_reax.rst +++ b/doc/src/fix_qeq_reax.rst @@ -151,6 +151,3 @@ Related commands 245-259 (2012). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_qmmm.rst b/doc/src/fix_qmmm.rst index 6166efbada..17d882e0e3 100644 --- a/doc/src/fix_qmmm.rst +++ b/doc/src/fix_qmmm.rst @@ -68,6 +68,3 @@ executable. See the lib/qmmm/README file for details. **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_qtb.rst b/doc/src/fix_qtb.rst index a940dd1833..63897cff90 100644 --- a/doc/src/fix_qtb.rst +++ b/doc/src/fix_qtb.rst @@ -213,6 +213,3 @@ Lett, 103, 190601 (2009). **(Barrat)** Barrat and Rodney, J. Stat. Phys, 144, 679 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_reaxc_bonds.rst b/doc/src/fix_reaxc_bonds.rst index fcd788cff0..9c542c5194 100644 --- a/doc/src/fix_reaxc_bonds.rst +++ b/doc/src/fix_reaxc_bonds.rst @@ -117,6 +117,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_reaxc_species.rst b/doc/src/fix_reaxc_species.rst index ebcae065ee..464f943997 100644 --- a/doc/src/fix_reaxc_species.rst +++ b/doc/src/fix_reaxc_species.rst @@ -199,6 +199,3 @@ default element symbols are C, H, O, N. Position files are not written by default. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_recenter.rst b/doc/src/fix_recenter.rst index d6895b0874..df5805059e 100644 --- a/doc/src/fix_recenter.rst +++ b/doc/src/fix_recenter.rst @@ -138,6 +138,3 @@ Default The option defaults are shift = fix group-ID, and units = lattice. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_rhok.rst b/doc/src/fix_rhok.rst index 25acb09f0b..fa452f8e78 100644 --- a/doc/src/fix_rhok.rst +++ b/doc/src/fix_rhok.rst @@ -66,6 +66,3 @@ Related commands **(Pedersen)** Pedersen, J. Chem. Phys., 139, 104102 (2013). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_rigid.rst b/doc/src/fix_rigid.rst index 9e9c65dd19..b1ad30a875 100644 --- a/doc/src/fix_rigid.rst +++ b/doc/src/fix_rigid.rst @@ -953,6 +953,3 @@ J Chem Phys, 116, 8649 (2002). **(Zhang)** Zhang, Glotzer, Nanoletters, 4, 1407-1413 (2004). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_rigid_meso.rst b/doc/src/fix_rigid_meso.rst index 964d414c70..d5d3c7cf2d 100644 --- a/doc/src/fix_rigid_meso.rst +++ b/doc/src/fix_rigid_meso.rst @@ -391,6 +391,3 @@ torque. Also reinit = yes. J Chem Phys, 116, 8649 (2002). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_rx.rst b/doc/src/fix_rx.rst index 79809b7fc6..2658afc1ac 100644 --- a/doc/src/fix_rx.rst +++ b/doc/src/fix_rx.rst @@ -248,6 +248,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_saed_vtk.rst b/doc/src/fix_saed_vtk.rst index 2aa3960efb..2ff6aa145c 100644 --- a/doc/src/fix_saed_vtk.rst +++ b/doc/src/fix_saed_vtk.rst @@ -214,6 +214,3 @@ The option defaults are ave = one, start = 0, no file output. (2013). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_setforce.rst b/doc/src/fix_setforce.rst index 39a51e0f7b..88cfa12f53 100644 --- a/doc/src/fix_setforce.rst +++ b/doc/src/fix_setforce.rst @@ -162,6 +162,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_shake.rst b/doc/src/fix_shake.rst index ce875b18cf..e9b4892af3 100644 --- a/doc/src/fix_shake.rst +++ b/doc/src/fix_shake.rst @@ -265,6 +265,3 @@ J of Comp Phys, 23, 327-341 (1977). **(Andersen)** H. Andersen, J of Comp Phys, 52, 24-34 (1983). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_shardlow.rst b/doc/src/fix_shardlow.rst index 20bd2273d4..ed8b792f7b 100644 --- a/doc/src/fix_shardlow.rst +++ b/doc/src/fix_shardlow.rst @@ -136,6 +136,3 @@ Particle Dynamics (DPD-E)", ARL-TR-6863, U.S. Army Research Laboratory, Aberdeen Proving Ground, MD (2014). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_smd.rst b/doc/src/fix_smd.rst index e9ea27e61f..fd5abade82 100644 --- a/doc/src/fix_smd.rst +++ b/doc/src/fix_smd.rst @@ -179,6 +179,3 @@ Engineering, pp. 39-65. Springer-Verlag, Berlin, 1998. **(Jarzynski)** Jarzynski, Phys. Rev. Lett. 78, 2690 (1997) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_smd_adjust_dt.rst b/doc/src/fix_smd_adjust_dt.rst index 5176e158fe..ad3322e4f0 100644 --- a/doc/src/fix_smd_adjust_dt.rst +++ b/doc/src/fix_smd_adjust_dt.rst @@ -69,6 +69,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_smd_integrate_tlsph.rst b/doc/src/fix_smd_integrate_tlsph.rst index 32aba62dd9..8bd879108d 100644 --- a/doc/src/fix_smd_integrate_tlsph.rst +++ b/doc/src/fix_smd_integrate_tlsph.rst @@ -64,6 +64,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_smd_integrate_ulsph.rst b/doc/src/fix_smd_integrate_ulsph.rst index 216e8652bd..9be6ff3414 100644 --- a/doc/src/fix_smd_integrate_ulsph.rst +++ b/doc/src/fix_smd_integrate_ulsph.rst @@ -68,6 +68,3 @@ LAMMPS was built with that package. See the :doc:`Build package **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_smd_move_triangulated_surface.rst b/doc/src/fix_smd_move_triangulated_surface.rst index 866a799d45..912492b7f1 100644 --- a/doc/src/fix_smd_move_triangulated_surface.rst +++ b/doc/src/fix_smd_move_triangulated_surface.rst @@ -88,6 +88,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_smd_setvel.rst b/doc/src/fix_smd_setvel.rst index 22cf1dff53..1df6010bb6 100644 --- a/doc/src/fix_smd_setvel.rst +++ b/doc/src/fix_smd_setvel.rst @@ -95,6 +95,3 @@ LAMMPS was built with that package. See the :doc:`Build package **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_smd_wall_surface.rst b/doc/src/fix_smd_wall_surface.rst index d3c98e3088..810feab803 100644 --- a/doc/src/fix_smd_wall_surface.rst +++ b/doc/src/fix_smd_wall_surface.rst @@ -81,6 +81,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_spring.rst b/doc/src/fix_spring.rst index c3621cab3f..676b047297 100644 --- a/doc/src/fix_spring.rst +++ b/doc/src/fix_spring.rst @@ -156,6 +156,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_spring_chunk.rst b/doc/src/fix_spring_chunk.rst index d645519add..a89c15c3d8 100644 --- a/doc/src/fix_spring_chunk.rst +++ b/doc/src/fix_spring_chunk.rst @@ -94,6 +94,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_spring_rg.rst b/doc/src/fix_spring_rg.rst index 59007b6cb6..17637f0b22 100644 --- a/doc/src/fix_spring_rg.rst +++ b/doc/src/fix_spring_rg.rst @@ -80,6 +80,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_spring_self.rst b/doc/src/fix_spring_self.rst index d9720f0e7c..60d72f9f99 100644 --- a/doc/src/fix_spring_self.rst +++ b/doc/src/fix_spring_self.rst @@ -91,6 +91,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_srd.rst b/doc/src/fix_srd.rst index 6232c345a1..2f6529d079 100644 --- a/doc/src/fix_srd.rst +++ b/doc/src/fix_srd.rst @@ -427,6 +427,3 @@ Chem Phys, 132, 174106 (2010). **(Lechman)** Lechman, et al, in preparation (2010). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_store_force.rst b/doc/src/fix_store_force.rst index 5d96ee26fe..aa91c469a5 100644 --- a/doc/src/fix_store_force.rst +++ b/doc/src/fix_store_force.rst @@ -76,6 +76,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_store_state.rst b/doc/src/fix_store_state.rst index 15cad5bc81..7977a81792 100644 --- a/doc/src/fix_store_state.rst +++ b/doc/src/fix_store_state.rst @@ -143,6 +143,3 @@ Default The option default is com = no. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_temp_berendsen.rst b/doc/src/fix_temp_berendsen.rst index f378d5dac7..4c6820b1b6 100644 --- a/doc/src/fix_temp_berendsen.rst +++ b/doc/src/fix_temp_berendsen.rst @@ -181,6 +181,3 @@ Related commands Phys, 81, 3684 (1984). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_temp_csvr.rst b/doc/src/fix_temp_csvr.rst index 27aabaab1d..a6434353c8 100644 --- a/doc/src/fix_temp_csvr.rst +++ b/doc/src/fix_temp_csvr.rst @@ -193,6 +193,3 @@ Related commands **(Bussi2)** Bussi and Parrinello, Phys. Rev. E 75, 056707 (2007) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_temp_rescale.rst b/doc/src/fix_temp_rescale.rst index 13858f6043..76b25ee517 100644 --- a/doc/src/fix_temp_rescale.rst +++ b/doc/src/fix_temp_rescale.rst @@ -168,6 +168,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_temp_rescale_eff.rst b/doc/src/fix_temp_rescale_eff.rst index ef7cf8f42a..de9c085b9e 100644 --- a/doc/src/fix_temp_rescale_eff.rst +++ b/doc/src/fix_temp_rescale_eff.rst @@ -78,6 +78,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_tfmc.rst b/doc/src/fix_tfmc.rst index a5d37136ef..b24481a493 100644 --- a/doc/src/fix_tfmc.rst +++ b/doc/src/fix_tfmc.rst @@ -176,6 +176,3 @@ A. Stesmans, Phys. Rev. B 85, 134301 (2012). (2013). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_thermal_conductivity.rst b/doc/src/fix_thermal_conductivity.rst index 9682adf76a..5d309f5b78 100644 --- a/doc/src/fix_thermal_conductivity.rst +++ b/doc/src/fix_thermal_conductivity.rst @@ -183,6 +183,3 @@ The option defaults are swap = 1. 109, 15060-15067 (2005). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_ti_spring.rst b/doc/src/fix_ti_spring.rst index 807f89b172..db6ddbf146 100644 --- a/doc/src/fix_ti_spring.rst +++ b/doc/src/fix_ti_spring.rst @@ -184,6 +184,3 @@ Science, 112, 333 (2016). **(de Koning)** de Koning and Antonelli, Phys Rev E, 53, 465 (1996). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_tmd.rst b/doc/src/fix_tmd.rst index 416ab877ab..65bb697b53 100644 --- a/doc/src/fix_tmd.rst +++ b/doc/src/fix_tmd.rst @@ -146,6 +146,3 @@ coordinate at multiple constraints: a concise formulation", Molecular Physics, 101, 3439-3443 (2003). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_ttm.rst b/doc/src/fix_ttm.rst index 8833e0f471..49e5ddc0b0 100644 --- a/doc/src/fix_ttm.rst +++ b/doc/src/fix_ttm.rst @@ -378,6 +378,3 @@ Plasma Phys., 53, 129-139 (2013). 475401 (2014). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_tune_kspace.rst b/doc/src/fix_tune_kspace.rst index 8424418988..9ec4c920e2 100644 --- a/doc/src/fix_tune_kspace.rst +++ b/doc/src/fix_tune_kspace.rst @@ -104,6 +104,3 @@ Default """"""" -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_vector.rst b/doc/src/fix_vector.rst index a2c7c87cd5..13428d45ad 100644 --- a/doc/src/fix_vector.rst +++ b/doc/src/fix_vector.rst @@ -176,6 +176,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_viscosity.rst b/doc/src/fix_viscosity.rst index 27250f2c85..4be98f6d25 100644 --- a/doc/src/fix_viscosity.rst +++ b/doc/src/fix_viscosity.rst @@ -186,6 +186,3 @@ The option defaults are swap = 1 and vtarget = INF. 260, 218-231 (2007). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_viscous.rst b/doc/src/fix_viscous.rst index 0c8338048a..982c07c8a4 100644 --- a/doc/src/fix_viscous.rst +++ b/doc/src/fix_viscous.rst @@ -117,6 +117,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_wall.rst b/doc/src/fix_wall.rst index a14cf423b0..6126bf4274 100644 --- a/doc/src/fix_wall.rst +++ b/doc/src/fix_wall.rst @@ -410,6 +410,3 @@ The option defaults units = lattice, fld = no, and pbc = no. erratum in JCP 84, 2901 (1986). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_wall_body_polygon.rst b/doc/src/fix_wall_body_polygon.rst index 2ecbb2e911..17364bc5f5 100644 --- a/doc/src/fix_wall_body_polygon.rst +++ b/doc/src/fix_wall_body_polygon.rst @@ -114,6 +114,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_wall_body_polyhedron.rst b/doc/src/fix_wall_body_polyhedron.rst index fd58c16c44..d6ccfb5073 100644 --- a/doc/src/fix_wall_body_polyhedron.rst +++ b/doc/src/fix_wall_body_polyhedron.rst @@ -113,6 +113,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_wall_ees.rst b/doc/src/fix_wall_ees.rst index 873811110c..c9411e40c4 100644 --- a/doc/src/fix_wall_ees.rst +++ b/doc/src/fix_wall_ees.rst @@ -140,6 +140,3 @@ none **(Babadi)** Babadi and Ejtehadi, EPL, 77 (2007) 23002. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_wall_gran.rst b/doc/src/fix_wall_gran.rst index a939659b02..1e4883927c 100644 --- a/doc/src/fix_wall_gran.rst +++ b/doc/src/fix_wall_gran.rst @@ -212,6 +212,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_wall_gran_region.rst b/doc/src/fix_wall_gran_region.rst index 1fa9269186..929982f3bf 100644 --- a/doc/src/fix_wall_gran_region.rst +++ b/doc/src/fix_wall_gran_region.rst @@ -245,6 +245,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_wall_piston.rst b/doc/src/fix_wall_piston.rst index 863fb2bd86..e26381b66f 100644 --- a/doc/src/fix_wall_piston.rst +++ b/doc/src/fix_wall_piston.rst @@ -130,6 +130,3 @@ Default The keyword defaults are pos = 0, vel = 0, units = lattice. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_wall_reflect.rst b/doc/src/fix_wall_reflect.rst index c6807eee94..612ffdfb1f 100644 --- a/doc/src/fix_wall_reflect.rst +++ b/doc/src/fix_wall_reflect.rst @@ -216,6 +216,3 @@ The default for the units keyword is lattice. **(Bond)** Bond and Leimkuhler, SIAM J Sci Comput, 30, p 134 (2007). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_wall_reflect_stochastic.rst b/doc/src/fix_wall_reflect_stochastic.rst index 3748f4b922..9cfb98a0ee 100644 --- a/doc/src/fix_wall_reflect_stochastic.rst +++ b/doc/src/fix_wall_reflect_stochastic.rst @@ -152,6 +152,3 @@ Stat. Phys. 1, 2, 101 (1971). C. Leonard. J. Math. Phys. 56, 103101 (2015). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_wall_region.rst b/doc/src/fix_wall_region.rst index 069221df9d..b7c68a8003 100644 --- a/doc/src/fix_wall_region.rst +++ b/doc/src/fix_wall_region.rst @@ -227,6 +227,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/fix_wall_srd.rst b/doc/src/fix_wall_srd.rst index 8a4fd22176..a0935bd99e 100644 --- a/doc/src/fix_wall_srd.rst +++ b/doc/src/fix_wall_srd.rst @@ -220,6 +220,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/group.rst b/doc/src/group.rst index 6868dfd268..fc72cdc713 100644 --- a/doc/src/group.rst +++ b/doc/src/group.rst @@ -323,6 +323,3 @@ Default All atoms belong to the "all" group. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/group2ndx.rst b/doc/src/group2ndx.rst index 03ce1d6d4a..1b031224fa 100644 --- a/doc/src/group2ndx.rst +++ b/doc/src/group2ndx.rst @@ -74,6 +74,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/hyper.rst b/doc/src/hyper.rst index 90268a2c90..36eb83cb59 100644 --- a/doc/src/hyper.rst +++ b/doc/src/hyper.rst @@ -214,6 +214,3 @@ The option defaults are min = 0.1 0.1 40 50 and time = steps. Research 32, 321 (2002). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/if.rst b/doc/src/if.rst index 3886d35f9c..ce9cdc44c7 100644 --- a/doc/src/if.rst +++ b/doc/src/if.rst @@ -218,6 +218,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_class2.rst b/doc/src/improper_class2.rst index ed120acb58..59af9e3959 100644 --- a/doc/src/improper_class2.rst +++ b/doc/src/improper_class2.rst @@ -143,6 +143,3 @@ Related commands **(Sun)** Sun, J Phys Chem B 102, 7338-7364 (1998). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_coeff.rst b/doc/src/improper_coeff.rst index 3c50f9bf58..05506e9743 100644 --- a/doc/src/improper_coeff.rst +++ b/doc/src/improper_coeff.rst @@ -105,6 +105,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_cossq.rst b/doc/src/improper_cossq.rst index b8f0c33c29..ce1451a48a 100644 --- a/doc/src/improper_cossq.rst +++ b/doc/src/improper_cossq.rst @@ -97,6 +97,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_cvff.rst b/doc/src/improper_cvff.rst index e661d3b84a..7b84b86f28 100644 --- a/doc/src/improper_cvff.rst +++ b/doc/src/improper_cvff.rst @@ -100,6 +100,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_distance.rst b/doc/src/improper_distance.rst index 72643a05bd..b6be5ec0c6 100644 --- a/doc/src/improper_distance.rst +++ b/doc/src/improper_distance.rst @@ -66,6 +66,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_distharm.rst b/doc/src/improper_distharm.rst index dcbdfbc656..d7e6eeb914 100644 --- a/doc/src/improper_distharm.rst +++ b/doc/src/improper_distharm.rst @@ -60,6 +60,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_fourier.rst b/doc/src/improper_fourier.rst index 23988a49ad..d104e3aa7f 100644 --- a/doc/src/improper_fourier.rst +++ b/doc/src/improper_fourier.rst @@ -93,6 +93,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_harmonic.rst b/doc/src/improper_harmonic.rst index d3332c816c..8f62dcc433 100644 --- a/doc/src/improper_harmonic.rst +++ b/doc/src/improper_harmonic.rst @@ -106,6 +106,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_hybrid.rst b/doc/src/improper_hybrid.rst index 5b170749cc..87bce2137e 100644 --- a/doc/src/improper_hybrid.rst +++ b/doc/src/improper_hybrid.rst @@ -78,6 +78,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_inversion_harmonic.rst b/doc/src/improper_inversion_harmonic.rst index ecdcad7136..69ce1604d5 100644 --- a/doc/src/improper_inversion_harmonic.rst +++ b/doc/src/improper_inversion_harmonic.rst @@ -77,6 +77,3 @@ Related commands -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_none.rst b/doc/src/improper_none.rst index b348f3aab2..626c342b55 100644 --- a/doc/src/improper_none.rst +++ b/doc/src/improper_none.rst @@ -41,6 +41,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_ring.rst b/doc/src/improper_ring.rst index 6cc14ea15a..0fe0b5b4c6 100644 --- a/doc/src/improper_ring.rst +++ b/doc/src/improper_ring.rst @@ -106,6 +106,3 @@ Related commands J Chem Phys, 112, 9632 (2000). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_sqdistharm.rst b/doc/src/improper_sqdistharm.rst index f54e610c80..57df51b2ab 100644 --- a/doc/src/improper_sqdistharm.rst +++ b/doc/src/improper_sqdistharm.rst @@ -61,6 +61,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_style.rst b/doc/src/improper_style.rst index ee8b75ed3f..917da9d7de 100644 --- a/doc/src/improper_style.rst +++ b/doc/src/improper_style.rst @@ -123,6 +123,3 @@ Default improper_style none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_umbrella.rst b/doc/src/improper_umbrella.rst index 66f3112fe7..c002f61ef9 100644 --- a/doc/src/improper_umbrella.rst +++ b/doc/src/improper_umbrella.rst @@ -107,6 +107,3 @@ Related commands (1990), -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/improper_zero.rst b/doc/src/improper_zero.rst index 5714749596..cfc68e4504 100644 --- a/doc/src/improper_zero.rst +++ b/doc/src/improper_zero.rst @@ -53,6 +53,3 @@ Restrictions **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/include.rst b/doc/src/include.rst index 9f1a11e8f7..8caa683f04 100644 --- a/doc/src/include.rst +++ b/doc/src/include.rst @@ -47,6 +47,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/info.rst b/doc/src/info.rst index cc41b49f29..9bc04f01be 100644 --- a/doc/src/info.rst +++ b/doc/src/info.rst @@ -130,6 +130,3 @@ The *out* option has the default *screen*\ . The *styles* option has the default *all*\ . -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/jump.rst b/doc/src/jump.rst index bd16c9109f..30b76c11ec 100644 --- a/doc/src/jump.rst +++ b/doc/src/jump.rst @@ -158,6 +158,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/kim_commands.rst b/doc/src/kim_commands.rst index ea2f768e7c..46c1596b57 100644 --- a/doc/src/kim_commands.rst +++ b/doc/src/kim_commands.rst @@ -915,6 +915,3 @@ doi: `https://doi.org/10.1007/s11837-011-0102-6 `_ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/kspace_modify.rst b/doc/src/kspace_modify.rst index c79b9ceb09..ed1b17f187 100644 --- a/doc/src/kspace_modify.rst +++ b/doc/src/kspace_modify.rst @@ -562,6 +562,3 @@ Chem Theory Comput, 9, 5412 (2013). 9, 3527 (2013). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/kspace_style.rst b/doc/src/kspace_style.rst index 5142734f19..cf9473febf 100644 --- a/doc/src/kspace_style.rst +++ b/doc/src/kspace_style.rst @@ -592,6 +592,3 @@ Illinois at Urbana-Champaign, (2006). (2012). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/label.rst b/doc/src/label.rst index 31ebbfe0cb..b135575ce6 100644 --- a/doc/src/label.rst +++ b/doc/src/label.rst @@ -42,6 +42,3 @@ Restrictions **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/lattice.rst b/doc/src/lattice.rst index a26060d7c0..a9c0a77fde 100644 --- a/doc/src/lattice.rst +++ b/doc/src/lattice.rst @@ -330,6 +330,3 @@ For other lattice styles, the option defaults are origin = 0.0 0.0 a2 = 0 1 0, and a3 = 0 0 1. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/log.rst b/doc/src/log.rst index 0f53040c13..35f13fe35b 100644 --- a/doc/src/log.rst +++ b/doc/src/log.rst @@ -51,6 +51,3 @@ Default The default LAMMPS log file is named log.lammps -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/mass.rst b/doc/src/mass.rst index 0431b8f65b..735301099e 100644 --- a/doc/src/mass.rst +++ b/doc/src/mass.rst @@ -90,6 +90,3 @@ The mass assigned to any type or atom must be > 0.0. **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/message.rst b/doc/src/message.rst index 6891512b85..901149d707 100644 --- a/doc/src/message.rst +++ b/doc/src/message.rst @@ -205,6 +205,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/min_modify.rst b/doc/src/min_modify.rst index b9426020af..d15dc75e25 100644 --- a/doc/src/min_modify.rst +++ b/doc/src/min_modify.rst @@ -147,6 +147,3 @@ option defaults are alpha\_damp = 1.0, discrete\_factor = 10.0, line = spin\_none, and norm = euclidean. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/min_spin.rst b/doc/src/min_spin.rst index 57416ec826..a88ba97d5a 100644 --- a/doc/src/min_spin.rst +++ b/doc/src/min_spin.rst @@ -127,6 +127,3 @@ The option defaults are *alpha\_damp* = 1.0, *discrete\_factor* = **(Ivanov)** Ivanov, Uzdin, Jonsson. arXiv preprint arXiv:1904.02669, (2019). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/min_style.rst b/doc/src/min_style.rst index b9e896df3e..1c403ba779 100644 --- a/doc/src/min_style.rst +++ b/doc/src/min_style.rst @@ -165,6 +165,3 @@ Jonsson, Mills, Jacobsen. 97, 170201 (2006). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/minimize.rst b/doc/src/minimize.rst index d9aba3eda0..92c23dd8ef 100644 --- a/doc/src/minimize.rst +++ b/doc/src/minimize.rst @@ -339,6 +339,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/molecule.rst b/doc/src/molecule.rst index 6a36636d9c..d5b22ae043 100644 --- a/doc/src/molecule.rst +++ b/doc/src/molecule.rst @@ -513,6 +513,3 @@ Default The default keywords values are offset 0 0 0 0 0 and scale = 1.0. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/neb.rst b/doc/src/neb.rst index 713179b02c..a8686a8994 100644 --- a/doc/src/neb.rst +++ b/doc/src/neb.rst @@ -473,6 +473,3 @@ none Comp Phys Comm, 205, 13-21 (2016) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/neb_spin.rst b/doc/src/neb_spin.rst index 9d7e2ba17f..f05853d7f9 100644 --- a/doc/src/neb_spin.rst +++ b/doc/src/neb_spin.rst @@ -419,6 +419,3 @@ none 335-347 (2015). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/neigh_modify.rst b/doc/src/neigh_modify.rst index 2ab119193c..f6d02ed2e0 100644 --- a/doc/src/neigh_modify.rst +++ b/doc/src/neigh_modify.rst @@ -229,6 +229,3 @@ cluster = no, include = all (same as no include option defined), exclude = none, page = 100000, one = 2000, and binsize = 0.0. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/neighbor.rst b/doc/src/neighbor.rst index 3869723202..8543133ab2 100644 --- a/doc/src/neighbor.rst +++ b/doc/src/neighbor.rst @@ -90,6 +90,3 @@ Default | -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/newton.rst b/doc/src/newton.rst index eb7a2250c7..fa5560b47e 100644 --- a/doc/src/newton.rst +++ b/doc/src/newton.rst @@ -73,6 +73,3 @@ Default newton on -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/next.rst b/doc/src/next.rst index e4446de48d..7afb1e642d 100644 --- a/doc/src/next.rst +++ b/doc/src/next.rst @@ -158,6 +158,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/package.rst b/doc/src/package.rst index 368caf63fb..b691728505 100644 --- a/doc/src/package.rst +++ b/doc/src/package.rst @@ -684,6 +684,3 @@ is not used, you must invoke the package omp command in your input script or via the "-pk omp" :doc:`command-line switch `. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_adp.rst b/doc/src/pair_adp.rst index b6fba9e960..c94a8593ff 100644 --- a/doc/src/pair_adp.rst +++ b/doc/src/pair_adp.rst @@ -206,6 +206,3 @@ Related commands **(Singh)** Singh and Warner, Acta Mater, 58, 5797-5805 (2010), -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_agni.rst b/doc/src/pair_agni.rst index d7088a7eae..202016dd36 100644 --- a/doc/src/pair_agni.rst +++ b/doc/src/pair_agni.rst @@ -152,6 +152,3 @@ Related commands **(Botu3)** V. Botu, R. Batra, J. Chapman and R. Ramprasad, https://arxiv.org/abs/1610.02098 (2016). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_airebo.rst b/doc/src/pair_airebo.rst index 2a742d8ee2..868f63f90c 100644 --- a/doc/src/pair_airebo.rst +++ b/doc/src/pair_airebo.rst @@ -288,6 +288,3 @@ Physics: Condensed Matter, 14, 783-802 (2002). **(O'Connor)** O'Connor et al., J. Chem. Phys. 142, 024903 (2015). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_atm.rst b/doc/src/pair_atm.rst index 7043de0041..4de322c51e 100644 --- a/doc/src/pair_atm.rst +++ b/doc/src/pair_atm.rst @@ -192,6 +192,3 @@ Axilrod and Teller, J Chem Phys, 11, 299 (1943); Muto, Nippon Sugaku-Buturigakkwaishi 17, 629 (1943). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_awpmd.rst b/doc/src/pair_awpmd.rst index ecf6cc7c30..97479e337c 100644 --- a/doc/src/pair_awpmd.rst +++ b/doc/src/pair_awpmd.rst @@ -135,6 +135,3 @@ These are the defaults for the pair\_style keywords: *hartree* for the initial wave function, *free* for the wave packet width. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_beck.rst b/doc/src/pair_beck.rst index 15bd126ac2..d7d6ae9471 100644 --- a/doc/src/pair_beck.rst +++ b/doc/src/pair_beck.rst @@ -128,6 +128,3 @@ Related commands **(Beck)** Beck, Molecular Physics, 14, 311 (1968). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_body_nparticle.rst b/doc/src/pair_body_nparticle.rst index 1ebb6a3b47..00ce78ee71 100644 --- a/doc/src/pair_body_nparticle.rst +++ b/doc/src/pair_body_nparticle.rst @@ -128,6 +128,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_body_rounded_polygon.rst b/doc/src/pair_body_rounded_polygon.rst index 7fee589b9f..e0a3f2310b 100644 --- a/doc/src/pair_body_rounded_polygon.rst +++ b/doc/src/pair_body_rounded_polygon.rst @@ -142,6 +142,3 @@ Related commands Particuology, 6, 455 (2008). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_body_rounded_polyhedron.rst b/doc/src/pair_body_rounded_polyhedron.rst index 010e346f30..3ffdc566b4 100644 --- a/doc/src/pair_body_rounded_polyhedron.rst +++ b/doc/src/pair_body_rounded_polyhedron.rst @@ -137,6 +137,3 @@ Related commands Matter, 13, 1 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_bop.rst b/doc/src/pair_bop.rst index 3c45e2cf2f..25e2d945c2 100644 --- a/doc/src/pair_bop.rst +++ b/doc/src/pair_bop.rst @@ -475,6 +475,3 @@ Zimmerman, Phys. Rev. B, 85,115206 (2012). **(Zhou)** X.W. Zhou, D.K. Ward, M. Foster (TBP). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_born.rst b/doc/src/pair_born.rst index 7aeed58d48..c879755dfc 100644 --- a/doc/src/pair_born.rst +++ b/doc/src/pair_born.rst @@ -233,6 +233,3 @@ Fumi and Tosi, J Phys Chem Solids, 25, 31 (1964), Fumi and Tosi, J Phys Chem Solids, 25, 45 (1964). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_brownian.rst b/doc/src/pair_brownian.rst index 4286818c74..6c84dfa179 100644 --- a/doc/src/pair_brownian.rst +++ b/doc/src/pair_brownian.rst @@ -156,6 +156,3 @@ The default settings for the optional args are flagHI = 1 and flagVF = 1. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_buck.rst b/doc/src/pair_buck.rst index c3b5458ba1..6ab0ad4dd5 100644 --- a/doc/src/pair_buck.rst +++ b/doc/src/pair_buck.rst @@ -237,6 +237,3 @@ Related commands **(Khrapak)** Khrapak, Chaudhuri, and Morfill, J Chem Phys, 134, 054120 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_buck6d_coul_gauss.rst b/doc/src/pair_buck6d_coul_gauss.rst index 3bf9fa53a2..c9ebcf97db 100644 --- a/doc/src/pair_buck6d_coul_gauss.rst +++ b/doc/src/pair_buck6d_coul_gauss.rst @@ -159,6 +159,3 @@ Related commands **(Fennell)** C. J. Fennell, J. D. Gezelter, J Chem Phys, 124, 234104 (2006). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_buck_long.rst b/doc/src/pair_buck_long.rst index 332f15b4f9..a7df0880c5 100644 --- a/doc/src/pair_buck_long.rst +++ b/doc/src/pair_buck_long.rst @@ -194,6 +194,3 @@ Related commands (accepted) (2007). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_charmm.rst b/doc/src/pair_charmm.rst index 16a9a80223..beb21f1b80 100644 --- a/doc/src/pair_charmm.rst +++ b/doc/src/pair_charmm.rst @@ -331,6 +331,3 @@ Fischer, Gao, Guo, Ha, et al, J Phys Chem, 102, 3586 (1998). **(Steinbach)** Steinbach, Brooks, J Comput Chem, 15, 667 (1994). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_class2.rst b/doc/src/pair_class2.rst index b45dd32bac..bcb4c2faad 100644 --- a/doc/src/pair_class2.rst +++ b/doc/src/pair_class2.rst @@ -218,6 +218,3 @@ Related commands **(Sun)** Sun, J Phys Chem B 102, 7338-7364 (1998). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_coeff.rst b/doc/src/pair_coeff.rst index a7eac2b6e6..c920013597 100644 --- a/doc/src/pair_coeff.rst +++ b/doc/src/pair_coeff.rst @@ -160,6 +160,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_colloid.rst b/doc/src/pair_colloid.rst index 3893d2113a..5be906b1fe 100644 --- a/doc/src/pair_colloid.rst +++ b/doc/src/pair_colloid.rst @@ -225,6 +225,3 @@ Related commands **(Everaers)** Everaers, Ejtehadi, Phys Rev E, 67, 041710 (2003). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_comb.rst b/doc/src/pair_comb.rst index 0dc15dcd89..2eef8a6e5c 100644 --- a/doc/src/pair_comb.rst +++ b/doc/src/pair_comb.rst @@ -222,6 +222,3 @@ Y. Li, Z. Lu, S. R. Phillpot, and S. B. Sinnott, Mat. Sci. & Eng: R 74, (1994). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_cosine_squared.rst b/doc/src/pair_cosine_squared.rst index 4031a9741c..1ddd060b9b 100644 --- a/doc/src/pair_cosine_squared.rst +++ b/doc/src/pair_cosine_squared.rst @@ -129,6 +129,3 @@ Related commands **(Weeks)** "Weeks, Chandler and Andersen, J. Chem. Phys., 54, 5237 (1971)" -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_coul.rst b/doc/src/pair_coul.rst index d85df6ad6a..fe4d1346e6 100644 --- a/doc/src/pair_coul.rst +++ b/doc/src/pair_coul.rst @@ -429,6 +429,3 @@ Phys, 110, 8254 (1999). Phys, 79, 926 (1983). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_coul_diel.rst b/doc/src/pair_coul_diel.rst index 0d98a22dc7..c5a8d64198 100644 --- a/doc/src/pair_coul_diel.rst +++ b/doc/src/pair_coul_diel.rst @@ -134,6 +134,3 @@ Related commands 13783 (2008). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_coul_shield.rst b/doc/src/pair_coul_shield.rst index dff5869649..7184b9a9ea 100644 --- a/doc/src/pair_coul_shield.rst +++ b/doc/src/pair_coul_shield.rst @@ -114,6 +114,3 @@ Related commands **(Maaravi)** T. Maaravi et al, J. Phys. Chem. C 121, 22826-22835 (2017). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_cs.rst b/doc/src/pair_cs.rst index 000f8df3eb..7113fe90a2 100644 --- a/doc/src/pair_cs.rst +++ b/doc/src/pair_cs.rst @@ -213,6 +213,3 @@ Related commands 5, 1031-1038 (1993). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_dipole.rst b/doc/src/pair_dipole.rst index 9b9d969215..486f6b298a 100644 --- a/doc/src/pair_dipole.rst +++ b/doc/src/pair_dipole.rst @@ -316,6 +316,3 @@ Clarendon Press, Oxford, 1987. **(Price)** Price, Stone and Alderton, Mol Phys, 52, 987 (1984). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_dpd.rst b/doc/src/pair_dpd.rst index aceef23179..43e5967b3b 100644 --- a/doc/src/pair_dpd.rst +++ b/doc/src/pair_dpd.rst @@ -243,6 +243,3 @@ Comm, 184, 1119-1128 (2013). Phys Comm, 230, 7191-7201 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_dpd_fdt.rst b/doc/src/pair_dpd_fdt.rst index 91de642ddb..793904d906 100644 --- a/doc/src/pair_dpd_fdt.rst +++ b/doc/src/pair_dpd_fdt.rst @@ -202,6 +202,3 @@ isoenthalpic conditions using Shardlow-like splitting algorithms.", J. Chem. Phys., 135, 204105 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_drip.rst b/doc/src/pair_drip.rst index abc65900a0..eee7e95da3 100644 --- a/doc/src/pair_drip.rst +++ b/doc/src/pair_drip.rst @@ -162,6 +162,3 @@ Related commands **(Kolmogorov)** A. N. Kolmogorov, V. H. Crespi, Phys. Rev. B 71, 235415 (2005) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_dsmc.rst b/doc/src/pair_dsmc.rst index 1b76efd3a2..ee9dda0760 100644 --- a/doc/src/pair_dsmc.rst +++ b/doc/src/pair_dsmc.rst @@ -173,6 +173,3 @@ Related commands of Gas Flows" (1994). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_e3b.rst b/doc/src/pair_e3b.rst index 320090b8ca..9ade81aaea 100644 --- a/doc/src/pair_e3b.rst +++ b/doc/src/pair_e3b.rst @@ -171,6 +171,3 @@ The option default for the *neigh* keyword is 10. **(Tainter 2015)** Tainter, Shi, and Skinner, 11, 2268 (2015) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_eam.rst b/doc/src/pair_eam.rst index 0f6840bbe4..53975e862f 100644 --- a/doc/src/pair_eam.rst +++ b/doc/src/pair_eam.rst @@ -550,6 +550,3 @@ Materials Science & Engineering, 7, 075005 (2009). **(Caro)** A Caro, DA Crowson, M Caro; Phys Rev Lett, 95, 075702 (2005) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_edip.rst b/doc/src/pair_edip.rst index 68b54a16fe..f1b8314527 100644 --- a/doc/src/pair_edip.rst +++ b/doc/src/pair_edip.rst @@ -189,6 +189,3 @@ Related commands **(EDIP)** J F Justo et al, Phys Rev B 58, 2539 (1998). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_eff.rst b/doc/src/pair_eff.rst index 235090cd39..bb709558cf 100644 --- a/doc/src/pair_eff.rst +++ b/doc/src/pair_eff.rst @@ -353,6 +353,3 @@ Material Properties and Phenomena in Extreme Environments, J Comp Chem, 32, 497-512 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_eim.rst b/doc/src/pair_eim.rst index bdaa8733bb..05c0184dde 100644 --- a/doc/src/pair_eim.rst +++ b/doc/src/pair_eim.rst @@ -199,6 +199,3 @@ Related commands Xiaowang Zhou (Sandia) for details via email at xzhou at sandia.gov. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_exp6_rx.rst b/doc/src/pair_exp6_rx.rst index 01ef5ad9d1..caa51e26df 100644 --- a/doc/src/pair_exp6_rx.rst +++ b/doc/src/pair_exp6_rx.rst @@ -209,6 +209,3 @@ Related commands **Default:** fractional weighting -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_extep.rst b/doc/src/pair_extep.rst index 8d5da3d974..563514e4f2 100644 --- a/doc/src/pair_extep.rst +++ b/doc/src/pair_extep.rst @@ -54,6 +54,3 @@ Energetics and elastic properties of pristine and defective h-BN", Phys. Rev. B 96 (184108), 2017. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_fep_soft.rst b/doc/src/pair_fep_soft.rst index 8e706f77df..0a9b2ad68a 100644 --- a/doc/src/pair_fep_soft.rst +++ b/doc/src/pair_fep_soft.rst @@ -428,6 +428,3 @@ Related commands Phys Lett, 222, 529 (1994). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_gauss.rst b/doc/src/pair_gauss.rst index cb687ff487..0074607ea6 100644 --- a/doc/src/pair_gauss.rst +++ b/doc/src/pair_gauss.rst @@ -212,6 +212,3 @@ Related commands 13783 (2008). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_gayberne.rst b/doc/src/pair_gayberne.rst index 8db0e6edc2..37103cd002 100644 --- a/doc/src/pair_gayberne.rst +++ b/doc/src/pair_gayberne.rst @@ -259,6 +259,3 @@ Berardi, Muccioli, Zannoni, J Chem Phys, 128, 024905 (2008). **(Allen)** Allen and Germano, Mol Phys 104, 3225-3235 (2006). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_gran.rst b/doc/src/pair_gran.rst index 20ab3b3cab..fed7df07ae 100644 --- a/doc/src/pair_gran.rst +++ b/doc/src/pair_gran.rst @@ -310,6 +310,3 @@ E, 64, p 051302 (2001). **(Zhang)** Zhang and Makse, Phys Rev E, 72, p 011301 (2005). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_granular.rst b/doc/src/pair_granular.rst index a22e6b233a..d26863dc79 100644 --- a/doc/src/pair_granular.rst +++ b/doc/src/pair_granular.rst @@ -873,6 +873,3 @@ Technology, 233, 30-46. **(Otis R. Walton)** Walton, O.R., Personal Communication -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_gromacs.rst b/doc/src/pair_gromacs.rst index d80e8a794b..84c56deead 100644 --- a/doc/src/pair_gromacs.rst +++ b/doc/src/pair_gromacs.rst @@ -188,6 +188,3 @@ Related commands **(Marrink)** Marrink, de Vries, Mark, J Phys Chem B, 108, 750-760 (2004). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_gw.rst b/doc/src/pair_gw.rst index cb17e581e1..b09a43496f 100644 --- a/doc/src/pair_gw.rst +++ b/doc/src/pair_gw.rst @@ -140,6 +140,3 @@ Related commands Research B 191 (2012) 504. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_hbond_dreiding.rst b/doc/src/pair_hbond_dreiding.rst index e202cb4293..cfd9904215 100644 --- a/doc/src/pair_hbond_dreiding.rst +++ b/doc/src/pair_hbond_dreiding.rst @@ -281,6 +281,3 @@ Related commands 2798 (2009) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_hybrid.rst b/doc/src/pair_hybrid.rst index 2ede99b35a..d58d5b98ac 100644 --- a/doc/src/pair_hybrid.rst +++ b/doc/src/pair_hybrid.rst @@ -439,6 +439,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_ilp_graphene_hbn.rst b/doc/src/pair_ilp_graphene_hbn.rst index 74937bd0fb..31d96e6a08 100644 --- a/doc/src/pair_ilp_graphene_hbn.rst +++ b/doc/src/pair_ilp_graphene_hbn.rst @@ -198,6 +198,3 @@ Related commands **(Ouyang2)** W. Ouyang et al., J. Chem. Theory Comput. 16(1), 666-676 (2020). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_kim.rst b/doc/src/pair_kim.rst index 56232a3e92..b7aa5f172f 100644 --- a/doc/src/pair_kim.rst +++ b/doc/src/pair_kim.rst @@ -130,6 +130,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_kolmogorov_crespi_full.rst b/doc/src/pair_kolmogorov_crespi_full.rst index a9dcbcbda9..313a6e9e59 100644 --- a/doc/src/pair_kolmogorov_crespi_full.rst +++ b/doc/src/pair_kolmogorov_crespi_full.rst @@ -167,6 +167,3 @@ Related commands **(Ouyang2)** W. Ouyang et al., J. Chem. Theory Comput. 16(1), 666-676 (2020). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_kolmogorov_crespi_z.rst b/doc/src/pair_kolmogorov_crespi_z.rst index f9c116e15a..847e696a4f 100644 --- a/doc/src/pair_kolmogorov_crespi_z.rst +++ b/doc/src/pair_kolmogorov_crespi_z.rst @@ -91,6 +91,3 @@ Related commands Physical Review Letters, 113, 135504 (2014) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_lcbop.rst b/doc/src/pair_lcbop.rst index 49a0ba0a4b..eb53eb3b5b 100644 --- a/doc/src/pair_lcbop.rst +++ b/doc/src/pair_lcbop.rst @@ -111,6 +111,3 @@ Related commands (2003). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_lebedeva_z.rst b/doc/src/pair_lebedeva_z.rst index 08a88450b5..15213cda6b 100644 --- a/doc/src/pair_lebedeva_z.rst +++ b/doc/src/pair_lebedeva_z.rst @@ -78,6 +78,3 @@ Related commands **(Lebedeva et al.)** I. V. Lebedeva, A. A. Knizhnik, A. M. Popov, Y. E. Lozovik, B. V. Potapkin, Phys. Rev. B, 84, 245437 (2011) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_line_lj.rst b/doc/src/pair_line_lj.rst index 3b7af38fd1..e4c311feba 100644 --- a/doc/src/pair_line_lj.rst +++ b/doc/src/pair_line_lj.rst @@ -154,6 +154,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_lj.rst b/doc/src/pair_lj.rst index cdcb481e5f..7ecc418670 100644 --- a/doc/src/pair_lj.rst +++ b/doc/src/pair_lj.rst @@ -446,6 +446,3 @@ Phys, 79, 926 (1983). 234104 (2006). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_lj96.rst b/doc/src/pair_lj96.rst index e71627a364..61c8ba6af3 100644 --- a/doc/src/pair_lj96.rst +++ b/doc/src/pair_lj96.rst @@ -121,6 +121,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_lj_cubic.rst b/doc/src/pair_lj_cubic.rst index dcfcc7167c..70a13cc166 100644 --- a/doc/src/pair_lj_cubic.rst +++ b/doc/src/pair_lj_cubic.rst @@ -151,6 +151,3 @@ Related commands **(Ravelo)** Ravelo, Holian, Germann and Lomdahl, Phys Rev B, 70, 014103 (2004). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_lj_expand.rst b/doc/src/pair_lj_expand.rst index 606cead480..81c569a191 100644 --- a/doc/src/pair_lj_expand.rst +++ b/doc/src/pair_lj_expand.rst @@ -145,6 +145,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_lj_long.rst b/doc/src/pair_lj_long.rst index 3a0afbd674..abdf3699a3 100644 --- a/doc/src/pair_lj_long.rst +++ b/doc/src/pair_lj_long.rst @@ -273,6 +273,3 @@ Related commands Phys, 79, 926 (1983). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_lj_smooth.rst b/doc/src/pair_lj_smooth.rst index 4b3c206ef5..4256254f6e 100644 --- a/doc/src/pair_lj_smooth.rst +++ b/doc/src/pair_lj_smooth.rst @@ -135,6 +135,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_lj_smooth_linear.rst b/doc/src/pair_lj_smooth_linear.rst index d400552ca1..f46c83452e 100644 --- a/doc/src/pair_lj_smooth_linear.rst +++ b/doc/src/pair_lj_smooth_linear.rst @@ -128,6 +128,3 @@ Related commands **(Toxvaerd)** Toxvaerd, Dyre, J Chem Phys, 134, 081102 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_lj_switch3_coulgauss_long.rst b/doc/src/pair_lj_switch3_coulgauss_long.rst index 3a885784a3..5c899febef 100644 --- a/doc/src/pair_lj_switch3_coulgauss_long.rst +++ b/doc/src/pair_lj_switch3_coulgauss_long.rst @@ -99,6 +99,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_local_density.rst b/doc/src/pair_local_density.rst index 7cea5ef807..fc006863ed 100644 --- a/doc/src/pair_local_density.rst +++ b/doc/src/pair_local_density.rst @@ -248,6 +248,3 @@ Related commands **(Rosenberger)** Rosenberger, Sanyal, Shell and van der Vegt, Journal of Chemical Physics, 2019, 151 (4), 044111. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_lubricate.rst b/doc/src/pair_lubricate.rst index c6aa16fe00..00212e375b 100644 --- a/doc/src/pair_lubricate.rst +++ b/doc/src/pair_lubricate.rst @@ -253,6 +253,3 @@ Illinois Urbana-Champaign, (2010). (`https://www.ideals.illinois.edu/handle/2142/16032 `_) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_lubricateU.rst b/doc/src/pair_lubricateU.rst index b50eb18467..0a9fcd982e 100644 --- a/doc/src/pair_lubricateU.rst +++ b/doc/src/pair_lubricateU.rst @@ -237,6 +237,3 @@ The default settings for the optional args are flagHI = 1 and flagVF = **(Kumar)** Kumar and Higdon, Phys Rev E, 82, 051401 (2010). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_mdf.rst b/doc/src/pair_mdf.rst index 4174a516d3..7d0c0b42a0 100644 --- a/doc/src/pair_mdf.rst +++ b/doc/src/pair_mdf.rst @@ -191,6 +191,3 @@ Related commands **(Mei)** Mei, Davenport, Fernando, Phys Rev B, 43 4653 (1991) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_meam_spline.rst b/doc/src/pair_meam_spline.rst index d8cf53a66d..97565e17a2 100644 --- a/doc/src/pair_meam_spline.rst +++ b/doc/src/pair_meam_spline.rst @@ -195,6 +195,3 @@ Kress, Modelling Simulation Materials Science Engineering, 8, 825 **(Zhang)** Zhang and Trinkle, Computational Materials Science, 124, 204-210 (2016). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_meam_sw_spline.rst b/doc/src/pair_meam_sw_spline.rst index 847ce797a1..a5dafb5406 100644 --- a/doc/src/pair_meam_sw_spline.rst +++ b/doc/src/pair_meam_sw_spline.rst @@ -162,6 +162,3 @@ potentials for bcc transition metals by Jeremy Nicklas, Michael Fellinger, and Hyoungki Park at The Ohio State University. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_meamc.rst b/doc/src/pair_meamc.rst index 0240e683da..5a8c70646e 100644 --- a/doc/src/pair_meamc.rst +++ b/doc/src/pair_meamc.rst @@ -473,6 +473,3 @@ This report may be accessed on-line via `this link `_. of Ions in Matter", Vol 1, 1985, Pergamon Press. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_meso.rst b/doc/src/pair_meso.rst index d645c4ab03..91f9e55c7e 100644 --- a/doc/src/pair_meso.rst +++ b/doc/src/pair_meso.rst @@ -332,6 +332,3 @@ DOI: 10.1063/1.4812366. 143: 014101 (2015). DOI: 10.1063/1.4923254. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_mesocnt.rst b/doc/src/pair_mesocnt.rst index 566a6125c1..94f7d7d554 100644 --- a/doc/src/pair_mesocnt.rst +++ b/doc/src/pair_mesocnt.rst @@ -156,6 +156,3 @@ Related commands Q31.013 (2008). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_mgpt.rst b/doc/src/pair_mgpt.rst index 0981502635..2460eba2fe 100644 --- a/doc/src/pair_mgpt.rst +++ b/doc/src/pair_mgpt.rst @@ -249,6 +249,3 @@ Series, 46, 254 (2006). Oppelstrup and Moriarty, to be published. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_mie.rst b/doc/src/pair_mie.rst index a516bdd3c0..a1d5518480 100644 --- a/doc/src/pair_mie.rst +++ b/doc/src/pair_mie.rst @@ -121,6 +121,3 @@ Related commands G. Jackson, E. Muller, J Phys Chem B, 115, 11154 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_mm3_switch3_coulgauss_long.rst b/doc/src/pair_mm3_switch3_coulgauss_long.rst index f100f9202d..8113692249 100644 --- a/doc/src/pair_mm3_switch3_coulgauss_long.rst +++ b/doc/src/pair_mm3_switch3_coulgauss_long.rst @@ -101,6 +101,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_modify.rst b/doc/src/pair_modify.rst index 71960c52c2..64cec312d7 100644 --- a/doc/src/pair_modify.rst +++ b/doc/src/pair_modify.rst @@ -335,6 +335,3 @@ mixing. See the doc pages for individual pair styles for details. **(Sun)** Sun, J Phys Chem B, 102, 7338-7364 (1998). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_momb.rst b/doc/src/pair_momb.rst index 0bc3e41310..fe0ad9e0b0 100644 --- a/doc/src/pair_momb.rst +++ b/doc/src/pair_momb.rst @@ -91,6 +91,3 @@ Related commands **(Zhou)** Zhou, Saidi, Fichthorn, J Phys Chem C, 118(6), 3366-3374 (2014). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_morse.rst b/doc/src/pair_morse.rst index f5d95f3f85..8232251163 100644 --- a/doc/src/pair_morse.rst +++ b/doc/src/pair_morse.rst @@ -165,6 +165,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_multi_lucy.rst b/doc/src/pair_multi_lucy.rst index 512ce07bd7..663beaa65c 100644 --- a/doc/src/pair_multi_lucy.rst +++ b/doc/src/pair_multi_lucy.rst @@ -229,6 +229,3 @@ Related commands **(Moore)** Moore, J Chem Phys, 144, 104501 (2016). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_multi_lucy_rx.rst b/doc/src/pair_multi_lucy_rx.rst index 7a7f5cbb47..a1f2979e71 100644 --- a/doc/src/pair_multi_lucy_rx.rst +++ b/doc/src/pair_multi_lucy_rx.rst @@ -280,6 +280,3 @@ Related commands **(Moore)** Moore, J Chem Phys, 144, 104501 (2016). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_nb3b_harmonic.rst b/doc/src/pair_nb3b_harmonic.rst index bc26e9b5ae..9425a98952 100644 --- a/doc/src/pair_nb3b_harmonic.rst +++ b/doc/src/pair_nb3b_harmonic.rst @@ -114,6 +114,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_nm.rst b/doc/src/pair_nm.rst index d0ef9efdf5..f9d9444198 100644 --- a/doc/src/pair_nm.rst +++ b/doc/src/pair_nm.rst @@ -196,6 +196,3 @@ Related commands **(Clarke)** Clarke and Smith, J Chem Phys, 84, 2290 (1986). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_none.rst b/doc/src/pair_none.rst index 04a763b8e0..27cd107829 100644 --- a/doc/src/pair_none.rst +++ b/doc/src/pair_none.rst @@ -53,6 +53,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_oxdna.rst b/doc/src/pair_oxdna.rst index 2f6be35608..f77bdf0b38 100644 --- a/doc/src/pair_oxdna.rst +++ b/doc/src/pair_oxdna.rst @@ -145,6 +145,3 @@ Related commands **(Sulc)** P. Sulc, F. Romano, T.E. Ouldridge, L. Rovigatti, J.P.K. Doye, A.A. Louis, J. Chem. Phys. 137, 135101 (2012). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_oxdna2.rst b/doc/src/pair_oxdna2.rst index c57eb86c1d..7210070da0 100644 --- a/doc/src/pair_oxdna2.rst +++ b/doc/src/pair_oxdna2.rst @@ -155,6 +155,3 @@ Related commands **(Ouldridge)** T.E. Ouldridge, A.A. Louis, J.P.K. Doye, J. Chem. Phys. 134, 085101 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_peri.rst b/doc/src/pair_peri.rst index c618aeccca..06d920a786 100644 --- a/doc/src/pair_peri.rst +++ b/doc/src/pair_peri.rst @@ -249,6 +249,3 @@ Plasticity Model for Peridynamics. Sandia National Lab Report, 3166:1-34 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_polymorphic.rst b/doc/src/pair_polymorphic.rst index ff522ae6b0..ce3f73bd53 100644 --- a/doc/src/pair_polymorphic.rst +++ b/doc/src/pair_polymorphic.rst @@ -283,6 +283,3 @@ F. P. Doty, J. Mater. Sci. Res., 4, 15 (2015). **(Daw)** M. S. Daw, and M. I. Baskes, Phys. Rev. B, 29, 6443 (1984). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_python.rst b/doc/src/pair_python.rst index a962bdb7ca..7acaa52db8 100644 --- a/doc/src/pair_python.rst +++ b/doc/src/pair_python.rst @@ -250,6 +250,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_quip.rst b/doc/src/pair_quip.rst index 293d76443e..bd74c2e12c 100644 --- a/doc/src/pair_quip.rst +++ b/doc/src/pair_quip.rst @@ -119,6 +119,3 @@ Review Letters 104, 136403 (2010). (2010). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_reaxc.rst b/doc/src/pair_reaxc.rst index 6040b78a77..a0f6f23b72 100644 --- a/doc/src/pair_reaxc.rst +++ b/doc/src/pair_reaxc.rst @@ -396,6 +396,3 @@ Journal of Physical Chemistry A, 112, 1040-1053 (2008). of Physical Chemistry A, 115, 11016-11022 (2011). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_resquared.rst b/doc/src/pair_resquared.rst index b996ae1189..186ab8f7af 100644 --- a/doc/src/pair_resquared.rst +++ b/doc/src/pair_resquared.rst @@ -255,6 +255,3 @@ Related commands **(Berardi)** Babadi, Ejtehadi, Everaers, J Comp Phys, 219, 770-779 (2006). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_sdk.rst b/doc/src/pair_sdk.rst index 1ad9bd9c59..b1c9ec8618 100644 --- a/doc/src/pair_sdk.rst +++ b/doc/src/pair_sdk.rst @@ -198,6 +198,3 @@ Related commands **(DeVane)** Shinoda, DeVane, Klein, Soft Matter, 4, 2453-2462 (2008). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_sdpd_taitwater_isothermal.rst b/doc/src/pair_sdpd_taitwater_isothermal.rst index 5d970d382d..ca0d2c528c 100644 --- a/doc/src/pair_sdpd_taitwater_isothermal.rst +++ b/doc/src/pair_sdpd_taitwater_isothermal.rst @@ -125,6 +125,3 @@ The default seed is 0 (before mixing). **(Espanol and Revenga)** Espanol, Revenga, Physical Review E, 67, 026705 (2003). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_smd_hertz.rst b/doc/src/pair_smd_hertz.rst index a7b004830f..6738d59394 100644 --- a/doc/src/pair_smd_hertz.rst +++ b/doc/src/pair_smd_hertz.rst @@ -68,6 +68,3 @@ Related commands -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_smd_tlsph.rst b/doc/src/pair_smd_tlsph.rst index 20fbbf86dc..272940513f 100644 --- a/doc/src/pair_smd_tlsph.rst +++ b/doc/src/pair_smd_tlsph.rst @@ -84,6 +84,3 @@ Related commands -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_smd_triangulated_surface.rst b/doc/src/pair_smd_triangulated_surface.rst index e531a7a2ec..5d856231b0 100644 --- a/doc/src/pair_smd_triangulated_surface.rst +++ b/doc/src/pair_smd_triangulated_surface.rst @@ -69,6 +69,3 @@ Related commands -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_smd_ulsph.rst b/doc/src/pair_smd_ulsph.rst index f09f2d829e..b3e6d261e3 100644 --- a/doc/src/pair_smd_ulsph.rst +++ b/doc/src/pair_smd_ulsph.rst @@ -99,6 +99,3 @@ Related commands -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_smtbq.rst b/doc/src/pair_smtbq.rst index 14f836bd52..60bb8ae25c 100644 --- a/doc/src/pair_smtbq.rst +++ b/doc/src/pair_smtbq.rst @@ -295,6 +295,3 @@ Phys, 110, 8254 (1999). (1994). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_snap.rst b/doc/src/pair_snap.rst index d1137eb586..3598816165 100644 --- a/doc/src/pair_snap.rst +++ b/doc/src/pair_snap.rst @@ -247,6 +247,3 @@ Related commands **(Bartok2013)** Bartok, Gillan, Manby, Csanyi, Phys Rev B 87, 184115 (2013). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_soft.rst b/doc/src/pair_soft.rst index 384f7e1cc3..01da695704 100644 --- a/doc/src/pair_soft.rst +++ b/doc/src/pair_soft.rst @@ -153,6 +153,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_sph_heatconduction.rst b/doc/src/pair_sph_heatconduction.rst index 6e468aaf1d..f816376c2d 100644 --- a/doc/src/pair_sph_heatconduction.rst +++ b/doc/src/pair_sph_heatconduction.rst @@ -69,6 +69,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_sph_idealgas.rst b/doc/src/pair_sph_idealgas.rst index bd21a3cf5b..f82f3fde0b 100644 --- a/doc/src/pair_sph_idealgas.rst +++ b/doc/src/pair_sph_idealgas.rst @@ -88,6 +88,3 @@ Related commands 52, 374-389 (1983). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_sph_lj.rst b/doc/src/pair_sph_lj.rst index 1911e4f1b8..5c51eb5844 100644 --- a/doc/src/pair_sph_lj.rst +++ b/doc/src/pair_sph_lj.rst @@ -93,6 +93,3 @@ Related commands 52, 374-389 (1983). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_sph_rhosum.rst b/doc/src/pair_sph_rhosum.rst index 65a0840ef5..8b6f913393 100644 --- a/doc/src/pair_sph_rhosum.rst +++ b/doc/src/pair_sph_rhosum.rst @@ -70,6 +70,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_sph_taitwater.rst b/doc/src/pair_sph_taitwater.rst index 3bb085b5bd..e60215cf6d 100644 --- a/doc/src/pair_sph_taitwater.rst +++ b/doc/src/pair_sph_taitwater.rst @@ -91,6 +91,3 @@ Related commands 52, 374-389 (1983). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_sph_taitwater_morris.rst b/doc/src/pair_sph_taitwater_morris.rst index 91f79a1ac5..d310ab93dc 100644 --- a/doc/src/pair_sph_taitwater_morris.rst +++ b/doc/src/pair_sph_taitwater_morris.rst @@ -89,6 +89,3 @@ Related commands **(Morris)** Morris, Fox, Zhu, J Comp Physics, 136, 214-226 (1997). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_spin_dipole.rst b/doc/src/pair_spin_dipole.rst index 8b2112e34a..1760e5a204 100644 --- a/doc/src/pair_spin_dipole.rst +++ b/doc/src/pair_spin_dipole.rst @@ -91,6 +91,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_spin_dmi.rst b/doc/src/pair_spin_dmi.rst index 98205e8d6e..4f2e995fd0 100644 --- a/doc/src/pair_spin_dmi.rst +++ b/doc/src/pair_spin_dmi.rst @@ -108,6 +108,3 @@ Physical Review B, 88(18), 184422. (2013). Journal of Computational Physics, 372, 406-425, (2018). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_spin_magelec.rst b/doc/src/pair_spin_magelec.rst index 66bb82dafc..5f9364648a 100644 --- a/doc/src/pair_spin_magelec.rst +++ b/doc/src/pair_spin_magelec.rst @@ -90,6 +90,3 @@ Related commands Journal of Computational Physics, 372, 406-425, (2018). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_srp.rst b/doc/src/pair_srp.rst index 057b09e427..0ffa856975 100644 --- a/doc/src/pair_srp.rst +++ b/doc/src/pair_srp.rst @@ -185,6 +185,3 @@ The default keyword value is exclude = yes. Chem Phys, 136 (13) 134903, 2012. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_style.rst b/doc/src/pair_style.rst index c04abca047..3ef9638851 100644 --- a/doc/src/pair_style.rst +++ b/doc/src/pair_style.rst @@ -359,6 +359,3 @@ Default pair_style none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_sw.rst b/doc/src/pair_sw.rst index abd551cffb..f396d13cf4 100644 --- a/doc/src/pair_sw.rst +++ b/doc/src/pair_sw.rst @@ -241,6 +241,3 @@ Related commands **(Stillinger)** Stillinger and Weber, Phys Rev B, 31, 5262 (1985). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_table.rst b/doc/src/pair_table.rst index 9607f2ab77..d83c3d852a 100644 --- a/doc/src/pair_table.rst +++ b/doc/src/pair_table.rst @@ -296,6 +296,3 @@ Related commands **(Wolff)** Wolff and Rudd, Comp Phys Comm, 120, 200-32 (1999). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_table_rx.rst b/doc/src/pair_table_rx.rst index 616dbb3da0..b28e224d27 100644 --- a/doc/src/pair_table_rx.rst +++ b/doc/src/pair_table_rx.rst @@ -283,6 +283,3 @@ Related commands **(Wolff)** Wolff and Rudd, Comp Phys Comm, 120, 200-32 (1999). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_tersoff.rst b/doc/src/pair_tersoff.rst index 071fc6c084..e7287ded1c 100644 --- a/doc/src/pair_tersoff.rst +++ b/doc/src/pair_tersoff.rst @@ -289,6 +289,3 @@ Condens. Matter, 15, 5649(2003). **(Tersoff\_2)** J. Tersoff, Phys Rev B, 39, 5566 (1989); errata (PRB 41, 3248) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_tersoff_mod.rst b/doc/src/pair_tersoff_mod.rst index d0ba8770be..3b5152f8cd 100644 --- a/doc/src/pair_tersoff_mod.rst +++ b/doc/src/pair_tersoff_mod.rst @@ -247,6 +247,3 @@ Comp. Mat. Science, 39, 457 (2007). **(Schelling)** Patrick K. Schelling, Comp. Mat. Science, 44, 274 (2008). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_tersoff_zbl.rst b/doc/src/pair_tersoff_zbl.rst index 4b9fc25918..d093d67f3b 100644 --- a/doc/src/pair_tersoff_zbl.rst +++ b/doc/src/pair_tersoff_zbl.rst @@ -301,6 +301,3 @@ Condens. Matter, 15, 5649(2003). **(Tersoff\_2)** J. Tersoff, Phys Rev B, 39, 5566 (1989); errata (PRB 41, 3248) -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_thole.rst b/doc/src/pair_thole.rst index e2ee506d3d..f783a85d78 100644 --- a/doc/src/pair_thole.rst +++ b/doc/src/pair_thole.rst @@ -215,6 +215,3 @@ Related commands **(Thole)** Chem Phys, 59, 341 (1981). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_tri_lj.rst b/doc/src/pair_tri_lj.rst index b9590a02a8..32b2f27be0 100644 --- a/doc/src/pair_tri_lj.rst +++ b/doc/src/pair_tri_lj.rst @@ -123,6 +123,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_ufm.rst b/doc/src/pair_ufm.rst index 1656720fd1..2912a4ab5c 100644 --- a/doc/src/pair_ufm.rst +++ b/doc/src/pair_ufm.rst @@ -162,6 +162,3 @@ Related commands **(Freitas)** Freitas, Asta, and de Koning, Computational Materials Science, 112, 333 (2016). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_vashishta.rst b/doc/src/pair_vashishta.rst index 58baf53143..24742d4498 100644 --- a/doc/src/pair_vashishta.rst +++ b/doc/src/pair_vashishta.rst @@ -284,6 +284,3 @@ J. P. Rino. J. Appl. Phys. 101, 103515 (2007). Matter 21 (2009) 095002 -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_write.rst b/doc/src/pair_write.rst index eff77b4d68..20b51f9485 100644 --- a/doc/src/pair_write.rst +++ b/doc/src/pair_write.rst @@ -86,6 +86,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_yukawa.rst b/doc/src/pair_yukawa.rst index a4a96b15c3..019306c584 100644 --- a/doc/src/pair_yukawa.rst +++ b/doc/src/pair_yukawa.rst @@ -121,6 +121,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_yukawa_colloid.rst b/doc/src/pair_yukawa_colloid.rst index 74fa1e7e78..79de73676d 100644 --- a/doc/src/pair_yukawa_colloid.rst +++ b/doc/src/pair_yukawa_colloid.rst @@ -176,6 +176,3 @@ Related commands And Membranes, Westview Press, ISBN: 978-0813340791 (2003). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_zbl.rst b/doc/src/pair_zbl.rst index 4d08418ce8..c72e580cb1 100644 --- a/doc/src/pair_zbl.rst +++ b/doc/src/pair_zbl.rst @@ -164,6 +164,3 @@ Related commands Stopping and Range of Ions in Matter," Volume 1, Pergamon, 1985. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/pair_zero.rst b/doc/src/pair_zero.rst index 18afdbf355..85d9a17371 100644 --- a/doc/src/pair_zero.rst +++ b/doc/src/pair_zero.rst @@ -94,6 +94,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/partition.rst b/doc/src/partition.rst index 7ee6d76f3c..62506e9f9d 100644 --- a/doc/src/partition.rst +++ b/doc/src/partition.rst @@ -77,6 +77,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/prd.rst b/doc/src/prd.rst index a53f8d561e..83db49cdf6 100644 --- a/doc/src/prd.rst +++ b/doc/src/prd.rst @@ -366,6 +366,3 @@ geom gaussian, and time = steps. Research 32, 321 (2002). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/print.rst b/doc/src/print.rst index 93b1224993..637d417c95 100644 --- a/doc/src/print.rst +++ b/doc/src/print.rst @@ -96,6 +96,3 @@ Default The option defaults are no file output, screen = yes, and universe = no. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/processors.rst b/doc/src/processors.rst index 6f593ffc6a..84959962dc 100644 --- a/doc/src/processors.rst +++ b/doc/src/processors.rst @@ -380,6 +380,3 @@ The option defaults are Px Py Pz = \* \* \*, grid = onelevel, and map = cart. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/python.rst b/doc/src/python.rst index ea874fbf87..6fc92a2f98 100644 --- a/doc/src/python.rst +++ b/doc/src/python.rst @@ -551,6 +551,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/quit.rst b/doc/src/quit.rst index 2129920022..cf9ea8dcf3 100644 --- a/doc/src/quit.rst +++ b/doc/src/quit.rst @@ -53,6 +53,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/read_data.rst b/doc/src/read_data.rst index 59ce92ca34..ece112a57c 100644 --- a/doc/src/read_data.rst +++ b/doc/src/read_data.rst @@ -1440,6 +1440,3 @@ Default The default for all the *extra* keywords is 0. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/read_dump.rst b/doc/src/read_dump.rst index 030d55f25a..322fb49aad 100644 --- a/doc/src/read_dump.rst +++ b/doc/src/read_dump.rst @@ -420,6 +420,3 @@ no, add = no, scaled = no, wrapped = yes, and format = native. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/read_restart.rst b/doc/src/read_restart.rst index 321b533acb..0a61425fa1 100644 --- a/doc/src/read_restart.rst +++ b/doc/src/read_restart.rst @@ -283,6 +283,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/region.rst b/doc/src/region.rst index 81e247a8e2..6d40a55ce7 100644 --- a/doc/src/region.rst +++ b/doc/src/region.rst @@ -430,6 +430,3 @@ The option defaults are side = in, units = lattice, and no move or rotation. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/replicate.rst b/doc/src/replicate.rst index f7682c3d54..063c3fff0c 100644 --- a/doc/src/replicate.rst +++ b/doc/src/replicate.rst @@ -111,6 +111,3 @@ command before and redefined after the replicate command. **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/rerun.rst b/doc/src/rerun.rst index 3e0da24e75..552d51bb22 100644 --- a/doc/src/rerun.rst +++ b/doc/src/rerun.rst @@ -234,6 +234,3 @@ infinity), start = same as first, stop = same as last, every = 0, skip = 1; -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/reset_ids.rst b/doc/src/reset_ids.rst index e41745fa52..2f40fc7fe9 100644 --- a/doc/src/reset_ids.rst +++ b/doc/src/reset_ids.rst @@ -64,6 +64,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/reset_timestep.rst b/doc/src/reset_timestep.rst index e9f8818653..e17260ea94 100644 --- a/doc/src/reset_timestep.rst +++ b/doc/src/reset_timestep.rst @@ -67,6 +67,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/restart.rst b/doc/src/restart.rst index 6cfbdec475..38d8a9350d 100644 --- a/doc/src/restart.rst +++ b/doc/src/restart.rst @@ -199,6 +199,3 @@ Default restart 0 -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/run.rst b/doc/src/run.rst index 0cf9f3de1d..d2aace9c99 100644 --- a/doc/src/run.rst +++ b/doc/src/run.rst @@ -236,6 +236,3 @@ The option defaults are start = the current timestep, stop = current timestep + N, pre = yes, and post = yes. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/run_style.rst b/doc/src/run_style.rst index b320c57ea8..b1f4f08881 100644 --- a/doc/src/run_style.rst +++ b/doc/src/run_style.rst @@ -369,6 +369,3 @@ to rRESPA levels is as follows: (1992). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/server.rst b/doc/src/server.rst index f366639812..93466566bc 100644 --- a/doc/src/server.rst +++ b/doc/src/server.rst @@ -76,6 +76,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/server_mc.rst b/doc/src/server_mc.rst index 850eceb008..835f5e711c 100644 --- a/doc/src/server_mc.rst +++ b/doc/src/server_mc.rst @@ -132,6 +132,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/server_md.rst b/doc/src/server_md.rst index 26fd65a797..38c93b510b 100644 --- a/doc/src/server_md.rst +++ b/doc/src/server_md.rst @@ -169,6 +169,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/set.rst b/doc/src/set.rst index c9d75070fd..fb026d9535 100644 --- a/doc/src/set.rst +++ b/doc/src/set.rst @@ -508,6 +508,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/shell.rst b/doc/src/shell.rst index 59ff9e42fb..f12faf835e 100644 --- a/doc/src/shell.rst +++ b/doc/src/shell.rst @@ -123,6 +123,3 @@ executing the *cd* command will silently do nothing. **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/special_bonds.rst b/doc/src/special_bonds.rst index 824ed5ead0..af8f611e07 100644 --- a/doc/src/special_bonds.rst +++ b/doc/src/special_bonds.rst @@ -295,6 +295,3 @@ Fischer, Gao, Guo, Ha, et al, J Phys Chem, 102, 3586 (1998). (1990). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/suffix.rst b/doc/src/suffix.rst index f7737b00d9..aa2ea22979 100644 --- a/doc/src/suffix.rst +++ b/doc/src/suffix.rst @@ -112,6 +112,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/tad.rst b/doc/src/tad.rst index d74fb2e8fb..49dfd27581 100644 --- a/doc/src/tad.rst +++ b/doc/src/tad.rst @@ -334,6 +334,3 @@ the :doc:`timestep ` command, and *neb\_log* = "none". Research 32, 321 (2002). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/temper.rst b/doc/src/temper.rst index ef73ef4094..1e374592ff 100644 --- a/doc/src/temper.rst +++ b/doc/src/temper.rst @@ -177,6 +177,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/temper_grem.rst b/doc/src/temper_grem.rst index 2e19592879..85872cc8d7 100644 --- a/doc/src/temper_grem.rst +++ b/doc/src/temper_grem.rst @@ -128,6 +128,3 @@ Related commands **(Kim)** Kim, Keyes, Straub, J Chem Phys, 132, 224107 (2010). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/temper_npt.rst b/doc/src/temper_npt.rst index 847d91fb1b..8dc5a967d2 100644 --- a/doc/src/temper_npt.rst +++ b/doc/src/temper_npt.rst @@ -83,6 +83,3 @@ Related commands **(Mori)** Y. Mori, Y. Okamoto, J. Phys. Soc. Jpn., 7, 074003 (2010). -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/thermo.rst b/doc/src/thermo.rst index 503ef84f6d..54d2534aca 100644 --- a/doc/src/thermo.rst +++ b/doc/src/thermo.rst @@ -71,6 +71,3 @@ Default thermo 0 -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/thermo_modify.rst b/doc/src/thermo_modify.rst index c0ec18b465..bb383efb19 100644 --- a/doc/src/thermo_modify.rst +++ b/doc/src/thermo_modify.rst @@ -195,6 +195,3 @@ are "one", "%8d", and "%12.8g". For style "multi", the line and format defaults are "multi", "%8d", and "%14.4f". -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/thermo_style.rst b/doc/src/thermo_style.rst index 0aa401dd96..0b592730af 100644 --- a/doc/src/thermo_style.rst +++ b/doc/src/thermo_style.rst @@ -446,6 +446,3 @@ Default thermo_style one -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/third_order.rst b/doc/src/third_order.rst index d49f790812..b8358b3cd0 100644 --- a/doc/src/third_order.rst +++ b/doc/src/third_order.rst @@ -74,6 +74,3 @@ Default The default settings are file = "third\_order.dat", binary = no -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/timer.rst b/doc/src/timer.rst index a5ef8ca137..535649a7d9 100644 --- a/doc/src/timer.rst +++ b/doc/src/timer.rst @@ -135,6 +135,3 @@ Default timer every 10 -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/timestep.rst b/doc/src/timestep.rst index ddbe33a9d2..5bb784eff4 100644 --- a/doc/src/timestep.rst +++ b/doc/src/timestep.rst @@ -69,6 +69,3 @@ Default +--------------------------------+------------+-----------------------+ -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/uncompute.rst b/doc/src/uncompute.rst index 941a7b7b38..936dcb0fbc 100644 --- a/doc/src/uncompute.rst +++ b/doc/src/uncompute.rst @@ -41,6 +41,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/undump.rst b/doc/src/undump.rst index e79269e8dd..516fc8002d 100644 --- a/doc/src/undump.rst +++ b/doc/src/undump.rst @@ -40,6 +40,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/unfix.rst b/doc/src/unfix.rst index 016ac211aa..d61843c768 100644 --- a/doc/src/unfix.rst +++ b/doc/src/unfix.rst @@ -41,6 +41,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/units.rst b/doc/src/units.rst index 57558a4f53..8b138fd4e1 100644 --- a/doc/src/units.rst +++ b/doc/src/units.rst @@ -233,6 +233,3 @@ Default units lj -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/variable.rst b/doc/src/variable.rst index 3e44b56f37..70c7accf5f 100644 --- a/doc/src/variable.rst +++ b/doc/src/variable.rst @@ -1476,6 +1476,3 @@ Related commands **Default:** none -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/velocity.rst b/doc/src/velocity.rst index 314a5681e5..e45249dc51 100644 --- a/doc/src/velocity.rst +++ b/doc/src/velocity.rst @@ -283,6 +283,3 @@ no, bias = no, loop = all, and units = lattice. The temp and rigid keywords are not defined by default. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/write_coeff.rst b/doc/src/write_coeff.rst index 4a293f7e3f..5379439133 100644 --- a/doc/src/write_coeff.rst +++ b/doc/src/write_coeff.rst @@ -53,6 +53,3 @@ Related commands :doc:`write_data ` -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/write_data.rst b/doc/src/write_data.rst index 3ff9f155b0..373a1edf26 100644 --- a/doc/src/write_data.rst +++ b/doc/src/write_data.rst @@ -147,6 +147,3 @@ Default The option defaults are pair = ii. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/write_dump.rst b/doc/src/write_dump.rst index afd7470ce8..0509aeea75 100644 --- a/doc/src/write_dump.rst +++ b/doc/src/write_dump.rst @@ -100,6 +100,3 @@ The defaults are listed on the doc pages for the :doc:`dump ` and commands. -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html diff --git a/doc/src/write_restart.rst b/doc/src/write_restart.rst index 734bbb3a44..503b585cc3 100644 --- a/doc/src/write_restart.rst +++ b/doc/src/write_restart.rst @@ -137,8 +137,3 @@ Related commands :doc:`write_data ` **Default:** none - - -.. _lws: http://lammps.sandia.gov -.. _ld: Manual.html -.. _lc: Commands_all.html