8d24101df4
patch 11May18
2018-05-11 14:04:49 -06:00
671876efef
Make the description of global properties more explicit
2018-05-08 15:33:42 -04:00
53fc9f1f0f
updated doc for new fix restrain output
2018-05-08 10:11:00 +02:00
a4759210a8
Merge pull request #893 from ohenrich/user-cgdna
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Docs update and journal reference for USER-CGDNA package
2018-05-07 14:39:32 -06:00
7fed6c7e4c
Merge pull request #634 from craabreu/master
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Computation of forces/torques on rigid bodies moved to post_force
2018-05-07 14:39:10 -06:00
7cf42e42eb
make links to citations unique across files 2/2
2018-05-07 14:25:18 -04:00
d80b375e26
make links to citations unique across files 1/2
2018-05-07 14:24:00 -04:00
5076b6d161
Removed old documentation
2018-05-07 18:25:55 +01:00
fcdcdb3286
Merge branch 'master' into user-cgdna
2018-05-07 18:19:24 +01:00
722549965e
Added reference to implementation paper
2018-05-07 18:13:18 +01:00
ca96a7ab05
Merge pull request #891 from akohlmey/collected-small-changes
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Collected small changes, fixes and updates
2018-05-07 10:43:19 -06:00
a7c9418629
Merge pull request #890 from jrgissing/bond_react_final_touches
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bond/react final touches
2018-05-07 10:37:47 -06:00
d9d33ac766
add ability to set multiplicity for dihedrals with fix restrain
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this introduces an optional keyword, so backward compatibility is preserved.
this closes #884
2018-05-07 07:23:29 -04:00
d51745fd27
whitespace cleanup
2018-05-07 07:23:29 -04:00
c3588f08b7
provide keyword/value option to compute ackland/atom for selecting legacy or current variant of implementation
2018-05-07 07:23:29 -04:00
ecfe5c8373
use american spelling of neighbor consistently in docs and code comments
2018-05-07 07:23:29 -04:00
5e49976b70
correct typo in fix bond/react docs
2018-05-06 11:17:34 -04:00
916ed71760
fix bond/react final touches
2018-05-06 00:34:03 -06:00
735bceb468
Merge branch 'master' into USER-BOCS
2018-05-05 10:21:21 -04:00
81293b0fda
changes to integrate USER-BOCS into LAMMPS and to closer follow the LAMMPS programming/documentation style
2018-05-05 10:21:11 -04:00
844858d3a7
2nd set of updates
2018-05-03 17:00:08 -06:00
2b8576c7c7
first updates
2018-05-03 16:55:22 -06:00
eeee2d3026
Merge pull request #803 from jrgissing/fix_bond_react
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Fix bond react
2018-05-03 14:16:46 -06:00
749f1ff407
Merge pull request #875 from akohlmey/collected-small-fixes
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Collected small changes and bug fixes for the next patch release
2018-05-03 11:28:00 -06:00
35294dafbc
Merge pull request #883 from giacomofiorin/colvars-update
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Fixes to Colvars library (version 2018-04-29)
2018-05-03 11:25:32 -06:00
75cffc78c5
updates to quadratic form of SNAP potential
2018-05-03 10:23:50 -06:00
0c005f5cb0
Small fixes to Colvars library
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Primarily a list of small fixes, combined with cosmetic changes and cleanups
in several files.
6d0c917 2018-04-29 Fix missing deallocation of output stream object (reported by HanatoK) [Giacomo Fiorin]
c92d369 2018-04-17 Do not test for atom group size [Jérôme Hénin]
431e52a 2018-04-06 Allow scripted/custom colvars to be periodic [Jérôme Hénin]
81d391f 2018-04-05 Split colvarcomp constructor into POD constructor + init() function [Giacomo Fiorin]
9b85d5f 2018-03-13 Fix issue with out-of-order atom selections; clarify format for ref positions [Giacomo Fiorin]
0e0ed37 2018-03-07 Support triclinic unit cells in VMD, clean up PBC functions [Giacomo Fiorin]
eed97c9 2018-02-24 Obtain integer version number from version string [Giacomo Fiorin]
c17f3cd 2018-02-23 Write trajectory labels only when needed [Giacomo Fiorin]
2018-05-02 15:03:56 -04:00
efbee4a292
Delete man_fix_bocs.html
2018-05-02 11:27:31 -04:00
25ac1fd16c
mention that fix reax/bonds and reax/c/bonds do not honor the group id
2018-05-01 18:55:00 -04:00
c5e884fb41
USER-BOCS
2018-04-26 09:34:47 -04:00
d5ec76290b
patch 20Apr18
2018-04-20 17:22:38 -06:00
91b407570a
docfix
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remove mention of as yet unreleased feature
2018-04-19 20:23:58 -06:00
48e42a4e1e
Merge pull request #824 from jrgissing/write_data-noextra
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Write_data nofix option
2018-04-13 10:27:21 -06:00
398f3173aa
remove trailing whitespace
2018-04-13 11:38:02 -04:00
798fcacd77
update example for API change in Fix::copy_arrays()
2018-04-13 11:37:51 -04:00
bc0fd5496a
add info to compute heat/flux doc page
2018-04-13 08:57:24 -06:00
6e31b7da63
doc typos
2018-04-11 22:06:22 -06:00
12bc84163d
remove or reformulate references to USER-CUDA package, which no longer exists
2018-04-04 11:06:20 -04:00
7786cb5a4b
patch 30Mar18
2018-03-30 15:21:55 -06:00
a19e8fb269
Merge branch 'master' into resetids
2018-03-30 09:15:24 -06:00
81caeffb38
Merge pull request #855 from lammps/dumpinc
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new dump_modify refresh and compute displace/atom refresh commands fo…
2018-03-30 09:07:19 -06:00
a4795df5f9
complete integration of reset_ids into the documentation build system
2018-03-30 10:49:38 -04:00
ef8423918a
fix typo
2018-03-29 17:04:53 -04:00
09313cf3b5
shift files into doc/src
2018-03-28 13:35:13 -06:00
5fd17670b1
new reset_ids command and dump_modify delay option
2018-03-28 11:31:35 -06:00
a524d8c193
Merge pull request #854 from lammps/readdump
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new option *add keep* added to read_dump
2018-03-27 14:39:35 -06:00
b571f5423a
Merge pull request #850 from lammps/addlib
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a few new lib interface methods
2018-03-27 14:39:16 -06:00
2aef3a0e96
new dump_modify refresh and compute displace/atom refresh commands for incremental dump files
2018-03-27 14:37:04 -06:00
e8b8428f6b
new option *add keep* added to read_dump
2018-03-27 10:08:58 -06:00
1956d93af9
doc tweak on added lib functions
2018-03-27 09:58:53 -06:00
