Commit Graph

17038 Commits

Author SHA1 Message Date
d6a918f4fd Merge pull request #1270 from akohlmey/get-moltemplate-from-web
Replace bundled moltemplate distribution with installation instructions only
2019-01-31 22:58:31 +01:00
7606529f03 Merge pull request #1302 from akohlmey/combined-user-fep-soft-updates
Combined USER-FEP related updates
2019-01-31 22:57:51 +01:00
cdb07f9f06 Merge pull request #1310 from akohlmey/reaxc-with-qeq-shielded
Support using fix qeq/shielded with pair style reax/c
2019-01-31 22:57:31 +01:00
0cce3387bb Merge pull request #1285 from Adrian-Diaz/4D-grow-memory
Added 4D memory grow routine
2019-01-31 17:32:45 +01:00
a93d8dda3c add example input and logfiles for using fix qeq/shielded with pair style reax/c 2019-01-31 14:14:29 +01:00
327ca344ff make fix qeq/shielded fully compatible with pair style reax/c as a replacement for fix qeq/reax 2019-01-31 13:49:05 +01:00
c5256624e8 document coul/streitz and reax/c keywords to extract qeq parameters from pair styles 2019-01-31 13:48:06 +01:00
ae6fb92478 whitespace cleanup 2019-01-31 12:02:43 +01:00
14ab0ec459 remove references to pre-installed packages as this was changed with the 22 August 2018 version 2019-01-31 12:02:22 +01:00
8338969af5 bugfix for create_atoms region optimization 2019-01-31 11:46:03 +01:00
ef5c327f74 Merge branch 'master' into collected-small-changes 2019-01-31 11:45:15 +01:00
06d5c1d62f Merge pull request #1279 from akohlmey/create-atoms-bounding-box
Optimize performance of create_atoms for large boxes and small regions
2019-01-31 09:39:55 +01:00
0e1c6082b0 Merge pull request #1309 from PabloPiaggi/pair_entropy
compute entropy/atom - enhancement/optimization
2019-01-31 09:36:44 +01:00
a59a385d6e fix storage size for internal compute ids in fix plumed 2019-01-31 02:55:37 -05:00
d2846404bd update development workflow description to state of latest discussions 2019-01-31 02:55:11 -05:00
ee5f39d895 Patch release 1 February 2019 2019-01-30 16:16:32 -05:00
1d6bf1ea7d add overlooked entry to Purge.list 2019-01-30 18:05:10 +01:00
e195d6faee Fixed issue with not setting i-j, j-i coefficients correctly 2019-01-30 08:37:04 -07:00
ccdfde4978 Update example log file 2019-01-30 15:16:35 +01:00
136e247cd8 compute entropy/atom - Use NL with ghost atoms only with avg yes 2019-01-30 14:59:23 +01:00
8cc593fe6b Merge pull request #1308 from agiliopadua/master
Fix in extract() method of pair_thole
2019-01-30 08:12:30 +01:00
f7bb48102f Fix in extract() method of pair_thole 2019-01-29 18:03:12 +01:00
bad6c8aa35 Patch release 30 January 2019 2019-01-29 13:37:50 +01:00
1465352454 some cleanups and small bugfixes to conform better with python conventions 2019-01-28 17:37:05 -05:00
0cae619320 increase portability by using python modules instead of subprocesses 2019-01-28 15:54:19 -05:00
54b9a1335c Add Kokkos version of angle_cosine 2019-01-28 11:29:28 -07:00
b7ab017a76 improve portability by using shutil.copyfile, os.path.join, and make -C 2019-01-28 17:44:46 +01:00
4fcfa4987a fix typo 2019-01-28 14:56:47 +01:00
53f600ea35 use enable all available plumed modules when using download/compile mode 2019-01-26 09:55:48 -05:00
8c323a7056 fix issue in USER-PLUMED due to incorrectly copying strings 2019-01-26 05:58:41 -05:00
21dac57c7c fix typo 2019-01-26 05:16:38 -05:00
6c72d15c31 Merge branch 'core_soft' of https://github.com/agiliopadua/lammps into combined-user-fep-soft-updates
Resolved Conflicts:
	doc/src/Commands_pair.txt
	doc/src/pair_fep_soft.txt
	doc/src/pair_style.txt
	doc/src/pairs.txt
2019-01-25 16:25:19 +01:00
f2aab01e96 Approximation in tail correction better explained 2019-01-25 15:04:52 +01:00
fb30d2d078 Merge pull request #1303 from pastewka/19_dump_nc1
ENH: Output computes/fixes of with arbitrary number of columns to NetCDF
2019-01-25 10:42:46 +01:00
a278df586d cleanup up rendezvous diagnostic output 2019-01-24 09:56:21 -07:00
1927659fb1 fix cut-n-paste bug in extract_setting() method 2019-01-24 17:55:37 +01:00
272ff1dbdf link class2 soft-core pair styles from pair style overviews 2019-01-24 11:20:12 -05:00
06c8a67247 Updated broken links to pair_fep_soft 2019-01-24 17:10:39 +01:00
1e3cc7784b update false positives list for spell checking 2019-01-24 11:06:22 -05:00
e83600eee3 make naming of extract-able parameters consistent across similar pair styles (a/b/cparm -> a/b/c) 2019-01-24 10:54:17 -05:00
5c09732dc3 file spelling 2019-01-24 10:49:47 -05:00
82905dc62d correctly spell "through" 2019-01-24 10:29:51 -05:00
89a3f60289 replace references to pair_lj_soft with pair_fep_soft in docs 2019-01-24 15:49:46 +01:00
a6ecd3d08c Merge branch 'core_soft' of https://github.com/agiliopadua/lammps into combined-user-fep-soft-updates
Resolved Conflicts:
	doc/src/compute_fep.txt
	doc/src/fix_adapt_fep.txt
2019-01-24 15:41:41 +01:00
1be589fb33 Merge branch 'patch-2' of https://github.com/evoyiatzis/lammps into combined-user-fep-soft-updates 2019-01-24 15:35:52 +01:00
536e34974a Merge branch 'soft_class2_potentials' of https://github.com/evoyiatzis/lammps into combined-user-fep-soft-updates 2019-01-24 15:33:30 +01:00
4464f62c8f another permission fix 2019-01-24 08:20:24 -05:00
57b804eecf Merge pull request #1301 from stevenvdb/add-user-yaff
Fix mistake in mixing rules for mm3/switch3
2019-01-24 14:16:36 +01:00
a432b668f6 Fix mistake in mixing rules for mm3/switch3 2019-01-24 13:52:46 +01:00
985913bce2 Merge pull request #1297 from stevenvdb/add-user-yaff
Add USER-YAFF package for MOF simulations with QuickFF
2019-01-24 11:05:55 +01:00