Commit Graph

9139 Commits

Author SHA1 Message Date
d6eaf73db1 Merge pull request #1307 from akohlmey/next-patch-release
Patch release 1 February 2019
2019-02-01 20:22:18 +01:00
bc2eeaf22a remove extraneous atom->delete_callback() 2019-01-31 19:10:14 -05:00
5c927d484e add missing atom->delete_callback() 2019-01-31 19:09:59 -05:00
a9f8b17cbd Merge pull request #1282 from akohlmey/collected-small-changes
Collected small changes and bugfixes for the next patch release
2019-02-01 00:24:15 +01:00
f28ab59695 output bounding box info for regions, if present 2019-01-31 18:12:56 -05:00
2e60e461a0 must convert regions bounding box to lattice coordinates before checking to reduce lattice creation range 2019-01-31 18:12:37 -05:00
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
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
ae6fb92478 whitespace cleanup 2019-01-31 12:02:43 +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
a59a385d6e fix storage size for internal compute ids in fix plumed 2019-01-31 02:55:37 -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
136e247cd8 compute entropy/atom - Use NL with ghost atoms only with avg yes 2019-01-30 14:59:23 +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
8c323a7056 fix issue in USER-PLUMED due to incorrectly copying strings 2019-01-26 05:58:41 -05:00
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
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
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
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
f88c5e147a Merge pull request #1298 from jrgissing/bond/react-distance_constraints
Bond/react: add reaction constraints support
2019-01-24 10:55:22 +01:00
f2544fa738 remove (evil) tabs 2019-01-24 04:44:54 -05:00
5f3a7cbc33 MAINT: Replaced special character with a space. 2019-01-23 11:29:49 +01:00
7a10ac2019 bond/react:reaction_constraints
introduce a distance constraint between any two reaction-site atoms, in order for reaction to occur
2019-01-22 23:14:58 -07:00
54a481ef1f use correct pair style name in comment about error messages 2019-01-22 12:33:17 -05:00
9caf0ce3e1 add USER-YAFF package to build system 2019-01-22 12:17:04 -05:00
794bf5084c Implementation and documentation for USER-YAFF package 2019-01-22 10:09:10 +01:00
0fde0f99bc ENH: Support for outputting computes and fixes with arbitrary number of columns. 2019-01-21 23:04:22 +01:00
e5b86910e9 Merge branch 'master' of https://github.com/lammps/lammps into kk_snap 2019-01-18 12:03:09 -07:00
b3747ce99b Fix some issues in new version of pair_snap_kokkos_impl.h 2019-01-18 11:58:10 -07:00
037cdfe046 Merge pull request #1291 from stevenvdb/bugfix_improper_virial
Fix bug in virial calculation for impropers fourier and umbrella
2019-01-18 13:51:04 +01:00
94dc5e1133 bond/react: strict reaction limit
also, fixes a bug in the 'serial' build introduced in #1099, wherein no reactions could occur in some cases
2019-01-17 23:13:21 -07:00
6702f65fbb Fix mistake in virial calculation for improper_fourier and improper_umbrella 2019-01-15 10:06:42 +01:00
b0af54ac37 bond/react:limit reaction occurrences 2019-01-13 00:07:03 -07:00
a3b45d789a correct local/aligned storage issue in airebo/intel macros for vecorization 2019-01-11 10:08:06 -05:00
15b475690c fix memory leak in fix bond/react 2019-01-10 17:09:30 -05:00
cf00346db4 detect when something tries to delete a callback that was never added 2019-01-10 16:52:40 -05:00
4155b88468 fix 2 bugs in fix bond/react
- correct logic when deleting internal fix
- remove line attempting to dele a callback to Atom(), that was never added
2019-01-10 16:51:30 -05:00
bedbf408f7 use per-target unique temporary name to avoid corruption when creating lmpinstalledpkgs.h from concurrent builds 2019-01-10 16:50:00 -05:00
6f8c544a7d add option to print_var_error() function to delegate errors to error->one() instead of error->all()
this change is applied to cases that may happen on individual ranks only, e.g. out-of-range access, division by zero, invalid argument.
2019-01-10 16:50:00 -05:00
48cbfc2b1b Update README 2019-01-10 09:09:09 +01:00
8387b2953b bond_react:correctly delete internally-created fixes 2019-01-09 23:14:24 -07:00
4377662a1e Added 4D memory grow routine
Added a 4D memory grow routine that will be required in possible future patches.
2019-01-09 17:28:42 -05:00