Diffusion lammps (master) History

USER
master6e7504f15328576112eb80f…

Oct 18 2017

small updates to recently added docs and rename of an example dir
281b1dc37571
·Steve Plimpton on Oct 18 2017, 22:56.
Merge pull request #671 from danicholson/user-uef
e93f8f888975
·Steve Plimpton / GitHub on Oct 18 2017, 21:38.

Oct 4 2017

Ensure consistency with documentation
957263431aaf
·Ulf R. Pedersen / GitHub on Oct 4 2017, 09:38.

Oct 3 2017

make fix rhok examples more consistent with LAMMPS conventions:
f07719e924b2
·Axel Kohlmeyer on Oct 3 2017, 16:08.
Update readme.md
5f527091b8a6
·Ulf R. Pedersen / GitHub on Oct 3 2017, 12:02.
Update readme.md
30aaa7e47bb5
·Ulf R. Pedersen / GitHub on Oct 3 2017, 12:00.
Update readme.md
74dcf0bf9bfc
·Ulf R. Pedersen / GitHub on Oct 3 2017, 11:54.
Update readme.md
e9b07a7a1092
·Ulf R. Pedersen / GitHub on Oct 3 2017, 11:52.
Update readme.md
fd8f5f8f9e48
·Ulf R. Pedersen / GitHub on Oct 3 2017, 11:52.
Update readme.md
5c59eb637bca
·Ulf R. Pedersen / GitHub on Oct 3 2017, 11:49.
Update readme.md
250ef9f837be
·Ulf R. Pedersen / GitHub on Oct 3 2017, 11:46.
Update readme.md
e44f370d4949
·Ulf R. Pedersen / GitHub on Oct 3 2017, 11:44.
Update readme.md
1e790fbafef8
·Ulf R. Pedersen / GitHub on Oct 3 2017, 11:44.
Update in.setup
35cc79597261
·Ulf R. Pedersen / GitHub on Oct 3 2017, 11:17.
Rename setup.lmp to in.setup
245bf745521d
·Ulf R. Pedersen / GitHub on Oct 3 2017, 11:16.
Rename pinning.lmp to in.pinning
7e8bbe84814b
·Ulf R. Pedersen / GitHub on Oct 3 2017, 11:16.
Rename crystal.lmp to in.crystal
e6d687faaca5
·Ulf R. Pedersen / GitHub on Oct 3 2017, 11:15.
reran npt_biaxial examples
1dffb0cf82ad
·David Nicholson on Oct 3 2017, 05:27.

Oct 2 2017

rerun logfiles for USER-UEF example inputs
00aef0fe0014
·Axel Kohlmeyer on Oct 2 2017, 23:40.

Sep 29 2017

reran examples
4ef63feea7d3
·David Nicholson on Sep 29 2017, 21:50.

Sep 28 2017

initial commit. doc is in the works
855b6000efcb
·David Nicholson on Sep 28 2017, 22:34.

Sep 25 2017

Update readme.md
f1aea57e300e
·Ulf R. Pedersen / GitHub on Sep 25 2017, 18:48.
Example of Interface Pinning Computation
b35f2ff8b44b
·Ulf R. Pedersen on Sep 25 2017, 18:44.

Sep 21 2017

Added readme.m
3381a4337887
·Ulf R. Pedersen on Sep 21 2017, 16:20.
Added readme file, and removed old files
73708b091c42
·Ulf R. Pedersen on Sep 21 2017, 16:17.

Sep 18 2017

activate virial contribution in `fix lb/rigid/pc/sphere` by default and protect…
5f1842829e48
·Axel Kohlmeyer on Sep 18 2017, 03:10.

Sep 6 2017

Merge pull request #640 from ohenrich/user-cgdna
4161868bcf69
·Steve Plimpton / GitHub on Sep 6 2017, 16:52.

Sep 5 2017

Merge pull request #620 from amilumas/master
b1706060529b
·Steve Plimpton / GitHub on Sep 5 2017, 18:08.
Added sequence-dependent stacking and base-pairing strength
12fe614ddf58
·Oliver Henrich on Sep 5 2017, 11:48.

Aug 31 2017

add reference outputs to temper/npt example
4d2ed30b3526
·Axel Kohlmeyer on Aug 31 2017, 20:13.
fully integrate temper/npt command into manual
f3dda30f8ef3
·Axel Kohlmeyer on Aug 31 2017, 19:53.
Mods for extra/special/per/atom and add toluene
a5b65c1af48c
·Julien Devemy on Aug 31 2017, 15:03.

Aug 28 2017

Add files via upload
6a4bbddb3b7a
·Amulya / GitHub on Aug 28 2017, 20:56.
Create in.temper_npt
2add18e013dd
·Amulya / GitHub on Aug 28 2017, 20:55.

Aug 19 2017

new USER-MESO package
f945d4567d4f
·Steve Plimpton on Aug 19 2017, 01:33.

Jul 28 2017

add reference outputs for QUIP/GAP example
7d0d701eaf09
·Axel Kohlmeyer on Jul 28 2017, 22:05.
update QUIP examples to closer match typical LAMMPS examples
85120842dd84
·Axel Kohlmeyer on Jul 28 2017, 21:20.

Jul 24 2017

Merge pull request #595 from libAtoms/idces2quip
1ddace4dba51
·sjplimp / GitHub on Jul 24 2017, 16:55.

Jul 22 2017

Clarified some points in in.molecular example
1afab981b022
·Max Veit on Jul 22 2017, 15:40.
Update in.molecular
1af937e99d71
·Axel Kohlmeyer / GitHub on Jul 22 2017, 04:00.
Add a (contrived) molecular example for USER-QUIP
4e0a249e2779
·Max Veit on Jul 22 2017, 02:33.

Jul 14 2017

move updated gauss_flow example to the correct folder
1c92eecea7fc
·Axel Kohlmeyer on Jul 14 2017, 20:01.
restore gaussian flow example that was lost. tweak input to make it usable for…
4d4c03a1e4f5
·Axel Kohlmeyer on Jul 14 2017, 18:33.

Jul 13 2017

Merge pull request #560 from aershadinia/master
d3a45f6d5057
·sjplimp / GitHub on Jul 13 2017, 19:22.

Jul 6 2017

make example input / output conform with LAMMPS conventions (no dump files, no…
7193fffe0d1c
·Axel Kohlmeyer on Jul 6 2017, 22:08.
some edits to make examples more illustrative.
47649ff50f3a
·Abdo on Jul 6 2017, 08:35.

Jul 5 2017

adjust EES wall input example to print out some thermodynamic info that can be…
d451dbb1a079
·Axel Kohlmeyer on Jul 5 2017, 19:54.
Examples moved
8e279d4ec84e
·Abdo on Jul 5 2017, 16:16.

Jun 22 2017

update examples for fix filter/corotate to comply with new CHARMM restrictions
b0ddabbcde94
·Axel Kohlmeyer on Jun 22 2017, 06:19.

Jun 15 2017

Merge pull request #531 from ohenrich/user-cgdna
1a29048940e9
·sjplimp / GitHub on Jun 15 2017, 16:54.
Merge pull request #527 from dstelter92/master
0a6b3f87901c
·sjplimp / GitHub on Jun 15 2017, 16:54.
Merge pull request #525 from akohlmey/user-tally-refactor
a4bc233d8631
·sjplimp / GitHub on Jun 15 2017, 16:51.
Corrected minor bug in utility script
c98bb7fa5f2a
·Oliver Henrich on Jun 15 2017, 13:57.
Changed affiliation
77ca68a2b4da
·Oliver Henrich on Jun 15 2017, 13:52.

Jun 14 2017

updated thermo_modify in example
e7634a44f442
·dstelter92 on Jun 14 2017, 19:11.
removed unneeded .gitignore
3214d639aa2e
·dstelter92 on Jun 14 2017, 18:26.
Added compute_scalar to fix_grem for easier output managment, updated example…
0ad66ecb89dc
·dstelter92 on Jun 14 2017, 18:18.

Jun 13 2017

update USER-TALLY examples
7a05d87f7c47
·Axel Kohlmeyer on Jun 13 2017, 04:20.

May 31 2017

add example input for compute cnp/atom
2b3c124e61d7
·Axel Kohlmeyer on May 31 2017, 06:43.

May 16 2017

import multi-element compatible pair style edip as edip/multi
35e92733e9da
·Axel Kohlmeyer on May 16 2017, 23:40.

May 11 2017

rename some USER/misc dirs
7c3b8e014c7b
·Steve Plimpton on May 11 2017, 18:15.
Merge pull request #474 from rbberger/dump_vtk_fixes
d7f54464c628
·sjplimp / GitHub on May 11 2017, 17:25.
Merge pull request #466 from DallasTrinkle/meam-spline-multicomponent
deff6ffaac3b
·sjplimp / GitHub on May 11 2017, 17:22.
Added two examples of using the VTK dump style
4ecf876a6453
·Richard Berger on May 11 2017, 01:52.

May 9 2017

add a couple of simple example single/multi-elment inputs for meam/spline pair…
d0da0639f02b
·Axel Kohlmeyer on May 9 2017, 21:51.

May 4 2017

new Section package and start doc pages and build scripts
addd87c0f7a4
·Steve Plimpton on May 4 2017, 19:22.

Apr 27 2017

rename examples folder for USER-CGSDK package
949d61e01eda
·Axel Kohlmeyer on Apr 27 2017, 01:26.

Mar 28 2017

Update to oxDNA2
604afebf6fef
·Oliver Henrich on Mar 28 2017, 19:22.
Upgrade to oxDNA2
8afed61db1c8
·Oliver Henrich on Mar 28 2017, 19:16.

Mar 23 2017

include citation for reference paper into pair style momb
568b67eee9cb
·Axel Kohlmeyer on Mar 23 2017, 17:00.
make pair style momb example follow LAMMPS conventions more closely
865b41e2014e
·Axel Kohlmeyer on Mar 23 2017, 16:50.
add example log file generated from 17Nov16 version of lammps, make minimize…
02e65900e6ef
·Tonnam Balankura on Mar 23 2017, 16:03.
rename zhou to momb in examples
1075be7eca96
·Tonnam Balankura on Mar 23 2017, 15:18.

Mar 22 2017

Merge branch 'add-pair-zhou' of https://github.com/tonnamb/lammps into pull-417
43f27250b5a5
·Axel Kohlmeyer on Mar 22 2017, 19:05.
Verified oxDNA with modified nucleotide layout
743508437575
·Oliver Henrich on Mar 22 2017, 16:59.

Mar 20 2017

re-ran example with fixed exchanges
5c39dfd74089
·dstelter92 on Mar 20 2017, 14:22.

Mar 19 2017

add examples for pair_zhou
d04ea8653dea
·Tonnam Balankura on Mar 19 2017, 02:21.

Mar 16 2017

simplify and shorten examples for fix filter/corotate and combine into a single…
bed288339e74
·Axel Kohlmeyer on Mar 16 2017, 20:02.
UPLOAD examples
8f37285b056a
·Abdoreza Ershadinia / GitHub on Mar 16 2017, 13:12.
Readme for examples
ef72145540a5
·Abdoreza Ershadinia / GitHub on Mar 16 2017, 13:10.

Mar 15 2017

Merge branch 'filter_corotate' of https://github.com/lukin17/lammps into pull…
0d8f74f0c52e
·Axel Kohlmeyer on Mar 15 2017, 23:54.
Added fix filter/corotate.
c3ce3747e049
·lukin17 on Mar 15 2017, 11:34.

Mar 14 2017

Minor updates in documentation and setup tool, merge before upgrade to oxDNA2
7a75cd111c3d
·Oliver Henrich on Mar 14 2017, 12:39.
Updated documentation and simple setup tool
23b828793333
·Oliver Henrich on Mar 14 2017, 12:36.

Mar 7 2017

Merge pull request #399 from rbberger/docs_spelling_fixes
920641bbffbc
·sjplimp / GitHub on Mar 7 2017, 17:47.
Merge pull request #394 from jaapkroe/kolmogorov-crespi
4af6557568e7
·sjplimp / GitHub on Mar 7 2017, 17:46.
Merge pull request #389 from akohlmey/update-agni-potential
0798885bdb2a
·sjplimp / GitHub on Mar 7 2017, 17:35.
new neigh_modify exclude option, other SNAP changes
efaa4c67109f
·Steve Plimpton on Mar 7 2017, 17:31.
Fix more typos in examples
d6800405a518
·Richard Berger on Mar 7 2017, 06:57.

Mar 6 2017

Convert USER/lb/polymer files to UNIX line endings and remove trailing…
17486a9319f8
·Richard Berger on Mar 6 2017, 03:16.
Fix typos in examples folder
778a79b8eef7
·Richard Berger on Mar 6 2017, 03:10.

Feb 28 2017

Added Kolmogorov-Crespi potential
a1b40b902d3e
·Jaap Kroes on Feb 28 2017, 14:59.

Feb 24 2017

remove outdated log files, too.
9999f363a1f8
·Axel Kohlmeyer on Feb 24 2017, 21:34.
update AGNI potential for Al, reference runs and output and citation
a18b4ef4b0cf
·Axel Kohlmeyer on Feb 24 2017, 21:33.

Jan 18 2017

Merge pull request #337 from ohenrich/user-cgdna
3af4b3c28c8b
·sjplimp / GitHub on Jan 18 2017, 19:31.

Jan 17 2017

Merge pull request #339 from akohlmey/fixes-for-srp-example
c52a26382f89
·sjplimp / GitHub on Jan 17 2017, 17:36.
Merge pull request #331 from timattox/USER-DPD_fix_example_typo
1b9e50c8cbaa
·sjplimp / GitHub on Jan 17 2017, 17:08.
fix spring doc page update
5cd856c97f97
·Steve Plimpton on Jan 17 2017, 17:02.

Jan 16 2017

rather than adjusting the communication cutoff, we just print out the minimum…
0a2b78acb877
·Axel Kohlmeyer on Jan 16 2017, 21:47.

Jan 14 2017

update USER-CGDNA examples to follow LAMMPS style
8360e70f4ebd
·Axel Kohlmeyer on Jan 14 2017, 00:56.

lammps/examples/USERmaster6e7504f15328576112eb80f…

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lammps/examples/USER
master6e7504f15328576112eb80f…