From 524b37598f0b4acafe9fb1e8c1bf64ec236e9fdf Mon Sep 17 00:00:00 2001 From: Axel Kohlmeyer Date: Thu, 12 Mar 2020 06:25:42 -0400 Subject: [PATCH] correct various misspelled words and remove corresponding false positives --- doc/src/Build_basics.rst | 2 +- doc/src/Build_cmake.rst | 2 +- doc/src/Build_settings.rst | 2 +- doc/src/Howto_chunk.rst | 2 +- doc/src/Packages_details.rst | 2 +- doc/src/Run_basics.rst | 2 +- doc/src/USER/atc/man_boundary.html | 2 +- doc/src/USER/atc/man_fix_atc.html | 2 +- doc/src/fix_atc.rst | 2 +- doc/src/fix_ave_correlate_long.rst | 2 +- doc/src/kim_commands.rst | 2 +- doc/src/pair_meamc.rst | 4 ++-- doc/src/rerun.rst | 2 +- doc/utils/sphinx-config/false_positives.txt | 5 ----- 14 files changed, 14 insertions(+), 19 deletions(-) diff --git a/doc/src/Build_basics.rst b/doc/src/Build_basics.rst index 1f457c6b38..c50af2ca78 100644 --- a/doc/src/Build_basics.rst +++ b/doc/src/Build_basics.rst @@ -317,7 +317,7 @@ Several options are available and "mode=exe" is the default. .. code-block:: bash make machine # build LAMMPS executable lmp_machine - mkae mode=exe machine # same as "make machine" + make mode=exe machine # same as "make machine" make mode=lib machine # build LAMMPS static lib liblammps_machine.a make mode=shlib machine # build LAMMPS shared lib liblammps_machine.so make mode=shexe machine # same as "mode=exe" but uses objects from "mode=shlib" diff --git a/doc/src/Build_cmake.rst b/doc/src/Build_cmake.rst index 1f7c335d65..a0b33c792c 100644 --- a/doc/src/Build_cmake.rst +++ b/doc/src/Build_cmake.rst @@ -112,7 +112,7 @@ folder, recreate the directory and start over. The cmake command takes one required argument, which is the LAMMPS cmake directory which contains the CMakeLists.txt file. -The argument can be preceeded or followed by various CMake +The argument can be prefixed or followed by various CMake command-line options. Several useful ones are: .. code-block:: bash diff --git a/doc/src/Build_settings.rst b/doc/src/Build_settings.rst index 476ddb7732..08c1ab7714 100644 --- a/doc/src/Build_settings.rst +++ b/doc/src/Build_settings.rst @@ -95,7 +95,7 @@ to assist: FFT_LIB = -lfftw3 -lfftw3_omp # FFTW3 double precision with threads (needs -DFFT_FFTW_THREADS) FFT_LIB = -lfftw3 -lfftw3f # FFTW3 single precision FFT_LIB = -lmkl_intel_lp64 -lmkl_sequential -lmkl_core # MKL with Intel compiler, serial interface - FFT_LIB = -lmkl_gf_lp64 -lmkl_sequential -lmkl_core # MKL with GNU compier, serial interface + FFT_LIB = -lmkl_gf_lp64 -lmkl_sequential -lmkl_core # MKL with GNU compiler, serial interface FFT_LIB = -lmkl_intel_lp64 -lmkl_intel_thread -lmkl_core # MKL with Intel compiler, threaded interface FFT_LIB = -lmkl_gf_lp64 -lmkl_gnu_thread -lmkl_core # MKL with GNU compiler, threaded interface FFT_LIB = -lmkl_rt # MKL with automatic runtime selection of interface libs diff --git a/doc/src/Howto_chunk.rst b/doc/src/Howto_chunk.rst index 4bbbf7e368..cdc0c30d9b 100644 --- a/doc/src/Howto_chunk.rst +++ b/doc/src/Howto_chunk.rst @@ -110,7 +110,7 @@ of a center of mass, which requires summing mass\*position over the atoms and then dividing by summed mass. All of these computes produce a global vector or global array as -output, wih one or more values per chunk. The output can be used in +output, with one or more values per chunk. The output can be used in various ways: * As input to the :doc:`fix ave/time ` command, which can diff --git a/doc/src/Packages_details.rst b/doc/src/Packages_details.rst index 4501b1b34d..f60fc1c11b 100644 --- a/doc/src/Packages_details.rst +++ b/doc/src/Packages_details.rst @@ -746,7 +746,7 @@ invoked at run time via the "-sf opt" or "-suffix opt" :doc:`command-line switch have styles optimized for CPU performance. **Authors:** James Fischer (High Performance Technologies), David Richie, -and Vincent Natoli (Stone Ridge Technolgy). +and Vincent Natoli (Stone Ridge Technology). **Install:** diff --git a/doc/src/Run_basics.rst b/doc/src/Run_basics.rst index e90ccc09f7..956f341c80 100644 --- a/doc/src/Run_basics.rst +++ b/doc/src/Run_basics.rst @@ -11,7 +11,7 @@ Using the "-in in.file" variant is recommended: $ lmp_serial < in.file $ /path/to/lammps/src/lmp_serial -i in.file $ mpirun -np 4 lmp_mpi -in in.file - $ mpirun -np 8 /path/to//lammps/src/lmp_mpi -in in.file + $ mpirun -np 8 /path/to/lammps/src/lmp_mpi -in in.file $ mpirun -np 6 /usr/local/bin/lmp -in in.file You normally run the LAMMPS command in the directory where your input diff --git a/doc/src/USER/atc/man_boundary.html b/doc/src/USER/atc/man_boundary.html index 8dcf328dd3..f3b20fc78b 100644 --- a/doc/src/USER/atc/man_boundary.html +++ b/doc/src/USER/atc/man_boundary.html @@ -25,7 +25,7 @@ syntax

fix_modify AtC boundary type <atom-type-id>

examples

diff --git a/doc/src/USER/atc/man_fix_atc.html b/doc/src/USER/atc/man_fix_atc.html index f6f7b43a38..7c5afd645a 100644 --- a/doc/src/USER/atc/man_fix_atc.html +++ b/doc/src/USER/atc/man_fix_atc.html @@ -85,7 +85,7 @@ description fix AtC kernel quartic_sphere 10.0

# create a uniform 1 x 1 x 1 mesh that covers region contain the group
- # with periodicity this effectively creats a system average
+ # with periodicity this effectively creates a system average
fix_modify AtC mesh create 1 1 1 box p p p

# change from default lagrangian map to eulerian
diff --git a/doc/src/fix_atc.rst b/doc/src/fix_atc.rst index fe35111005..3322fda7e7 100644 --- a/doc/src/fix_atc.rst +++ b/doc/src/fix_atc.rst @@ -83,7 +83,7 @@ likewise for this post-processing example: fix AtC kernel quartic_sphere 10.0 # create a uniform 1 x 1 x 1 mesh that covers region contain the group - # with periodicity this effectively creats a system average + # with periodicity this effectively creates a system average fix_modify AtC mesh create 1 1 1 box p p p # change from default lagrangian map to eulerian diff --git a/doc/src/fix_ave_correlate_long.rst b/doc/src/fix_ave_correlate_long.rst index 579de24328..9416f42f1c 100644 --- a/doc/src/fix_ave_correlate_long.rst +++ b/doc/src/fix_ave_correlate_long.rst @@ -51,7 +51,7 @@ Syntax *nlen* args = Nlen Nlen = length of each correlator *ncount* args = Ncount - Ncount = number of values over which succesive correlators are averaged + Ncount = number of values over which successive correlators are averaged Examples """""""" diff --git a/doc/src/kim_commands.rst b/doc/src/kim_commands.rst index cefae204ce..5a4b5c56ae 100644 --- a/doc/src/kim_commands.rst +++ b/doc/src/kim_commands.rst @@ -41,7 +41,7 @@ Syntax on the prefix specified in *variable* and a number appended to indicate which element in the list of values is in the variable. *explicit* = returns the values separately in one more more variable names - provided as arguments that preceed *formatarg*\ . [default for *kim_param*] + provided as arguments that precede *formatarg*\ . [default for *kim_param*] * query\_function = name of the OpenKIM web API query function to be used * queryargs = a series of *keyword=value* pairs that represent the web query; supported keywords depend on the query function diff --git a/doc/src/pair_meamc.rst b/doc/src/pair_meamc.rst index 78b04f90de..098c3cb601 100644 --- a/doc/src/pair_meamc.rst +++ b/doc/src/pair_meamc.rst @@ -119,7 +119,7 @@ that will be used with other potentials. filenames can appear in any order, e.g. "Si C" or "C Si" in the example above. However, if the 2nd filename is not NULL (as in the example above), it contains settings that are Fortran-indexed for the - elements that preceed it. Thus you need to insure you list the + elements that precede it. Thus you need to insure you list the elements between the filenames in an order consistent with how the values in the 2nd filename are indexed. See details below on the syntax for settings in the 2nd file. @@ -230,7 +230,7 @@ where hcp = hexagonal close-packed dim = dimer dia = diamond (interlaced fcc for alloy) - dia3= diamond structure with primary 1NN and secondary 3NN interation + dia3= diamond structure with primary 1NN and secondary 3NN interaction b1 = rock salt (NaCl structure) c11 = MoSi2 structure l12 = Cu3Au structure (lower case L, followed by 12) diff --git a/doc/src/rerun.rst b/doc/src/rerun.rst index 0df10088fc..f604ca51e1 100644 --- a/doc/src/rerun.rst +++ b/doc/src/rerun.rst @@ -53,7 +53,7 @@ computed on the shapshot to produce thermodynamic or other output. This can be useful in the following kinds of scenarios, after an initial simulation produced the dump file: -* Compute the energy and forces of snaphots using a different potential. +* Compute the energy and forces of snapshots using a different potential. * Calculate one or more diagnostic quantities on the snapshots that weren't computed in the initial run. These can also be computed with settings not used in the initial run, e.g. computing an RDF via the diff --git a/doc/utils/sphinx-config/false_positives.txt b/doc/utils/sphinx-config/false_positives.txt index a76ee2461c..7c498d9215 100644 --- a/doc/utils/sphinx-config/false_positives.txt +++ b/doc/utils/sphinx-config/false_positives.txt @@ -2279,8 +2279,6 @@ Prakash pre Pre prec -preceed -preceeded precession prefactor prefactors @@ -2673,7 +2671,6 @@ smtbq sna snad snapcoeff -snaphots snapparam snav Snodin @@ -2817,7 +2814,6 @@ tdamp tdpd tDPD Tdrude -Technolgy Telsa tempCorrCoeff templated @@ -3140,7 +3136,6 @@ Whelan whitesmoke Wi Wicaksono -wih Wijk Wikipedia wildcard