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160 Commits

Author SHA1 Message Date
Richard Berger 2d4d07521d Add false positives to spell check 2019-12-06 14:43:19 -05:00
Richard Berger e08ba3f11e Merge branch 'master' into library_interface_update 2019-12-03 12:51:17 -05:00
Richard Berger 73a4c58ba1 Merge branch 'master' into doc_command_tables 2019-12-01 15:40:52 -05:00
Richard Berger 3611a75ce0
Merge pull request #1771 from julient31/zeeman-rework 
Adding test examples for the SPIN package and correcting some bugs
 2019-12-01 09:10:25 -07:00
Richard Berger 65381d7a69 Add new table_from_list extension 2019-11-24 18:11:35 -07:00
Axel Kohlmeyer 3b6fa078c2
Merge branch 'master' into zeeman-rework 2019-11-19 15:29:21 -05:00
Axel Kohlmeyer 2e31086094
Merge branch 'master' into many-body-atomic-stress-rev 2019-11-19 13:27:52 -05:00
Axel Kohlmeyer 95de27d8d1
correct false positives to not have non-ASCII characters 2019-11-15 14:31:33 -05:00
julient31 31ac2f3bd1 Commit2 JT 151119 
- adding doc exceptions to false-positives
 2019-11-15 11:42:04 -07:00
Richard Berger 62b3e79022 Add autodoc for lammps.lammps and lammps.NeighList 2019-11-13 15:54:22 -05:00
Donatas Surblys 2d75e6b167 Add author name to false positives for citation "Boone, Babaei, Wilmer, J Chem Theory Comput, 15, 5579–5587 (2019)." 2019-11-12 23:37:14 +09:00
Donatas Surblys b6930cbc8d Add author names to false positives for citation "Surblys, Matsubara, Kikugawa, Ohara, Phys Rev E, 99, 051301(R) (2019)." 2019-11-12 23:34:03 +09:00
Richard Berger 16f67ee56a Add new words to false-positives.txt 2019-11-11 15:26:48 -05:00
Richard Berger eaef8089a1 Add LAMMPSLexer for LAMMPS code-blocks in docs 2019-11-06 17:40:39 -05:00
Richard Berger 9ac9ba6401 Merge branch 'master' into doc_updates 2019-11-06 11:35:35 -05:00
Axel Kohlmeyer efcf919ede
Merge branch 'master' into feature_parameterupdate 2019-11-06 08:21:33 -05:00
Anne Gunn 5e6694f3bc Re-enabled conversion of equations arrays. Disabled works even worse 2019-11-05 15:27:21 -05:00
Richard Berger 423a3bb99f Add initial version of updated tools from #1533 2019-11-05 15:27:21 -05:00
Richard Berger 12cb19090a Remove txt2html and htmldoc from doc build 2019-11-02 23:07:49 -04:00
Richard Berger aeaa289d1d Merge branch 'master' into docs_to_rst_migration 2019-11-02 22:57:43 -04:00
Yaser Afshar 63cce391ca Adding the documentation for the new 'kim_param' command 
New documnetation is added and the whole document is checked
and partly rewritten for clarity and errors are corrected

Adding the word "Zm" to prevent the spelling error in document
building check.
 2019-10-29 11:51:05 -05:00
Axel Kohlmeyer 22288e06b7
Merge branch 'master' into fix-compiler-warnings 2019-10-25 14:07:50 -04:00
jrgissing a69bd0405a add lowercase 'arrhenius' keyword to spellcheck 2019-10-19 23:09:10 -06:00
Axel Kohlmeyer bb21847f8a
have sphinx configuration switch math formula renderer for epub 
this still needs work, that has to be done after we switched to RST
 2019-10-18 04:47:18 -04:00
Axel Kohlmeyer 68adc56e93
Merge branch 'master' into fix-compiler-warnings 2019-10-17 06:03:59 -04:00
Evangelos Voyiatzis 10031e91bd
Update false_positives.txt 
Added the name of Mattice in the list
 2019-10-16 20:25:53 +02:00
Axel Kohlmeyer f3b2ec80af
add false positives and correct spelling to have a clean spellcheck run on centos 7 2019-10-15 16:56:23 +02:00
Axel Kohlmeyer 0e10fbb133
Merge pull request #1690 from charlessievers/third_order 
Added third order, added documentation, took out extraneous lines, ad…
 2019-10-08 21:57:15 +02:00
julient31 ed467d8867 Merge branch 'master' of github.com:alxvov/lammps into OSO 
- solved conflict in doc/src/fix_nve_spin.txt
 2019-10-04 08:56:49 -06:00
Axel Kohlmeyer ed5678d646
Merge pull request #1673 from charlessievers/lammps_gjf 
Lammps fix langevin updates for gjf option
 2019-10-04 10:02:46 +02:00
julient31 a31aa5debc Merge branch 'master' of github.com:alxvov/lammps into OSO 2019-09-23 14:22:26 -06:00
Axel Kohlmeyer fddc164d5b
register a couple more false positives to clear doc test 2019-09-23 11:54:46 -04:00
Axel Kohlmeyer ed6dd1a632
Merge pull request #1666 from tanmoy7989/local_density 
added LD potential and wrote html-style doc
 2019-09-19 11:45:46 -04:00
Axel Kohlmeyer 572235e66a
Merge pull request #1660 from tanmoy7989/reorder_remd_traj 
python tool to reorder replica traj
 2019-09-17 17:29:50 -04:00
Axel Kohlmeyer 7386956dc5
remove misspelled word from false positives list 2019-09-13 08:52:09 -04:00
charlie sievers a948a34f8a added false positive, removed graphs from examples, updated langevin kokkos, improved diff readability in langevin 2019-09-12 16:34:15 -07:00
tanmoy.7989 22fde86fd0 possible spelling mistake report from Sphinx for unidentified word ccache; added this to the false_positives.txt file 2019-09-09 02:27:54 -07:00
tanmoy.7989 e7d8165a46 fixed spelling mistakes reported by sphix 2019-09-09 02:16:30 -07:00
tanmoy.7989 96c21bec98 added new valid words to doc/utils/sphinx-config/false_positives.txt 2019-09-04 23:16:19 -07:00
Richard Berger ddab4eeb1a Remove SHA1 utility used in doc Makefile 2019-08-22 14:11:32 -06:00
alxvov 12c73e7a61 Merge branch 'upstream-master' into OSO 2019-08-21 14:03:42 +00:00
Axel Kohlmeyer cfa9179b28
Merge pull request #1503 from etomica/master 
Implement HMA compute in LAMMPS
 2019-08-21 00:12:16 -04:00
Stan Moore 9a849a4d4f
Merge branch 'master' into master 2019-08-19 15:55:39 -06:00
Axel Kohlmeyer 18725ce060
reformat documentation to match typical LAMMPS conventions, change links 2019-08-09 15:42:32 -04:00
Axel Kohlmeyer 5f442d7b64
add a couple of false positives 2019-08-09 15:31:22 -04:00
Richard Berger bd87b67232
Update false_positives.txt 2019-08-02 17:35:26 -04:00
julient31 f4e3186abf Commit JT 073019 
- modified the false_positive file to correct errors
- improved the doc page of fix nve/spin
 2019-07-30 13:10:27 -06:00
Axel Kohlmeyer 8fa4efa08e
Merge pull request #1440 from ellio167/kim-simulator-models 
Develop native support for KIM simulator models
 2019-07-30 10:53:58 -04:00
Axel Kohlmeyer d2c4989dbf
Merge pull request #1583 from evoyiatzis/gyration_shape 
computing the eigenvalues of gyration tensor & shape parameters
 2019-07-29 22:16:13 -04:00
Axel Kohlmeyer 6833d6def6
Merge branch 'master' into kim-simulator-models 
# Resolved Conflicts:
#	src/KIM/kim_query.cpp
#	src/KIM/pair_kim.cpp
 2019-07-29 20:43:10 -04:00