repo.or.cz
/
gromacs.git
/
search
commit
grep
author
committer
pickaxe
?
search:
re
summary
|
log
|
graphiclog1
|
graphiclog2
|
commit
|
commitdiff
|
tree
|
refs
|
edit
|
fork
first
·
prev
·
next
Worked around missing OpenMP implementation in orires.
2017-08-02
David van d
e
r Spoel
Worke
d
around
m
issing Open
M
P implemen
t
ation
i
n orires
.
commit
|
commitdiff
|
tree
2017-07-28
David van der Spoel
Added unit-
t
est for orient
a
tion
r
estraints
outp
u
t
.
commit
|
commitdiff
|
tree
2017-07-19
Dav
i
d van der Spoel
Removed unnecessary static decl
a
rations for comm
a
nd
.
.
.
commit
|
commitdiff
|
tree
2017-07-19
David van der Spoel
Fixed test-order dependency in gmxpreprocess tests
.
commit
|
commitdiff
|
tree
2017-07-19
David va
n
der S
p
o
e
l
Fi
x
non-reproducabi
l
ity of clustsize tests
.
commit
|
commitdiff
|
tree
2017-05-01
David van
d
e
r Spoel
Xpm te
s
t for gmx clu
s
tsize
commit
|
commitdiff
|
tree
2017-03-12
Da
v
id va
n
der Spoel
Added
t
ests for gmx c
l
ustsize
.
commit
|
commitdiff
|
tree
2017-03-04
David va
n
der
S
poe
l
Remove
s
r
ogue
p
rinting to
x
v
g
f
ile in
gmx
mindi
s
t
commit
|
commitdiff
|
tree
2017-02-27
David van der
Spoel
Fixes
bug in gmx solvate wi
t
h -shell
that
y
ielded 0
.
.
.
commit
|
commitdiff
|
tree
2017-02-03
D
a
vid van
der Spoel
Fixes SEGV in gmx order
.
commit
|
commitdiff
|
tree
2017-02-02
David van der Spoe
l
On
l
y print
a
l
l
da
n
g
ling a
t
oms with grompp -v
commit
|
commitdiff
|
tree
2017-01-23
D
a
vid v
a
n der Spoel
Added refer
e
nce for dih
e
dra
l
fun
c
tion in OPLS
.
commit
|
commitdiff
|
tree
2016-12-07
David van
d
e
r
S
poe
l
Coup
l
e of ne
w
quotes
commit
|
commitdiff
|
tree
2016-11-18
D
avid van der Spoe
l
Adde
d
first
tests of
b
o
nded force function
s
.
commit
|
commitdiff
|
tree
2016-10-14
David van de
r
Sp
o
el
Fix
e
s so
m
e
mem
o
ry
l
eaks as
s
ociated with testing appli
e
d
.
.
.
commit
|
commitdiff
|
tree
2016-10-07
David
v
a
n
der Spoel
Modularize electric fie
l
d h
a
ndl
i
ng
commit
|
commitdiff
|
tree
2016-09-27
David van de
r
S
poel
Fixed
s
cript
x
plor2gmx
.
p
l
to work with GM
X
DAT
A
commit
|
commitdiff
|
tree
2016-09-26
D
a
vid
van der Spoel
Fix
e
s issue with Release
b
uild in
c
orre
l
ation functions
.
commit
|
commitdiff
|
tree
2016-09-20
Dav
i
d
v
an der Spoel
Made correlation functio
n
routi
n
e use std::vec
t
or
commit
|
commitdiff
|
tree
2016-08-24
Dav
i
d
v
a
n de
r
Spo
e
l
Added
documen
t
ation for shell potentials
.
commit
|
commitdiff
|
tree
2016-08-03
David van der Spo
e
l
Thr
e
e
n
ew quotes
.
commit
|
commitdiff
|
tree
2016-07-29
David
v
an der Spoel
F
ixes incorrect charges in O
P
LS/AA
-
L for HISD and HIS
E
commit
|
commitdiff
|
tree
2016-07-08
David van der S
p
oel
I
ntroduce fatal
e
rror for t
o
o few f
r
ames in g
m
x dos
.
commit
|
commitdiff
|
tree
2016-06-27
David
v
an der Spoel
Mad
e
gmx
d
os work ag
a
in
.
commit
|
commitdiff
|
tree
2016-06-22
Da
v
id
van der Sp
o
e
l
R
e
moved spurious r_ij
i
n fo
r
ce fo
r
Morse pote
n
tial
.
.
.
commit
|
commitdiff
|
tree
2016-05-08
D
av
i
d van
d
er Spoe
l
Modif
y
lmfit libr
a
r
y
to avoid clashes w
i
th ot
h
er ver
s
ions
.
commit
|
commitdiff
|
tree
2016-03-23
D
a
vid van der Spoel
Re
m
oved srenew that was
ma
k
i
n
g ar
r
ay
s
maller
i
ncorrectly
.
commit
|
commitdiff
|
tree
2016-03-18
David van
d
er
Spoel
Fixed d
i
vision by zero
in
p
olarize
.
commit
|
commitdiff
|
tree
2016-01-20
D
av
i
d van der
S
poel
Coup
l
e of new quotes
commit
|
commitdiff
|
tree
2016-01-07
David van der Spoel
Made nor
m
al modes work with shells a
n
d vsites
commit
|
commitdiff
|
tree
2015-11-24
David van
d
er
Spoel
Fixes ne
w
ly introdu
c
e
d
bug
i
n
mak
e
_ndx
.
commit
|
commitdiff
|
tree
2015-11-23
D
a
vid van de
r
Spoel
Mov
e
d
d
o
mdec
str
u
ctur
e
s out
of com
m
rec
.
h
.
commit
|
commitdiff
|
tree
2015-11-22
David van
d
er
S
poel
C
l
ean
u
ps in
l
egacyheader/types/commrec
.
h
commit
|
commitdiff
|
tree
2015-11-21
David van de
r
Sp
o
el
Merged legacyheader
s
/t
y
pe
s
/qmmmr
e
c
.
h into m
d
lib/
q
mmm
.
h
commit
|
commitdiff
|
tree
2015-11-21
David van der Spoel
Merged genborn
.
h from legacyheaders/ty
p
es into mdlib
.
.
.
commit
|
commitdiff
|
tree
2015-11-20
D
a
v
i
d van der Spoe
l
Moved l
e
g
acyheaders/types/
g
roup
.
h to mdty
p
es
.
commit
|
commitdiff
|
tree
2015-11-20
David
v
an der
Spoel
Merged legacyheaders/typ
e
s/ns
.
h and nblis
t
.
h to mdtypes
.
.
.
commit
|
commitdiff
|
tree
2015-11-20
David van d
e
r Spoe
l
Com
b
ine enums
.
h and names*
.
commit
|
commitdiff
|
tree
2015-11-20
David van d
e
r Spoe
l
Merg
e
d legacy
h
eaders/nrnb
.
h
a
nd t
y
p
es/nrnb
.
h
to gmxlib
.
commit
|
commitdiff
|
tree
2015-11-20
David
van der Spo
e
l
Moved
mdatom
.
h from legacyhe
a
d
er/types
to md
t
y
pes
.
commit
|
commitdiff
|
tree
2015-11-20
David van de
r
S
po
e
l
M
o
ved legacyheaders/types/energ
y
.
h to mdtypes
.
commit
|
commitdiff
|
tree
2015-11-15
Da
v
i
d van der Spoel
M
e
rged legacyheaders
/
types
/
inputrec
.
h into
m
dtypes
.
.
.
commit
|
commitdiff
|
tree
2015-11-15
David van der Spoe
l
Merged le
g
acyheaders/t
y
pes/st
a
te
.
h into mdtypes/state
.
h
commit
|
commitdiff
|
tree
2015-11-13
David van der
S
p
oel
Repla
c
ed atom_id by int
.
commit
|
commitdiff
|
tree
2015-11-13
David van der Sp
o
el
Moved genborn
.
h
t
o
mdlib
commit
|
commitdiff
|
tree
2015-11-12
D
avid
van der
S
poel
Moved
t
xtdump
.
* to file
i
o
.
commit
|
commitdiff
|
tree
2015-11-12
David van der Spoel
Moved co
p
y
rite
.
* to fileio from gmxlib
and
l
egacy
h
eaders
.
commit
|
commitdiff
|
tree
2015-11-11
Dav
i
d v
a
n der Spoel
Moved inpu
t
r
ec
.
* f
r
om gmxlib and legacyheaders
t
o mdt
y
pes
.
commit
|
commitdiff
|
tree
2015-11-10
David
van de
r
Spoel
Removed legacyheaders/
t
ypedef
s
.
h
commit
|
commitdiff
|
tree
2015-11-03
David van der Spoel
Moved df
_
histor
y
u
tility
rou
t
ines from typede
f
s to
.
.
.
commit
|
commitdiff
|
tree
2015-11-01
David van der Sp
o
e
l
Repl
a
ced NOTSET from
ty
p
e
d
efs
.
h
by loca
l
soluti
o
ns
.
commit
|
commitdiff
|
tree
2015-10-23
David
van
d
er
Spoel
Remove
d
en
e
r
g
yhist
o
ry cod
e
f
rom
t
y
pedef
s
to a separ
a
te
.
.
.
commit
|
commitdiff
|
tree
2015-10-18
David
v
an
d
e
r
S
po
e
l
Moved pbc/cut-off related
util
i
ties from t
y
pedef
s
to
.
.
.
commit
|
commitdiff
|
tree
2015-10-15
David van der Spoel
Freed
m
emory in lega
c
y
s
tat
i
stics rout
i
nes
.
commit
|
commitdiff
|
tree
2015-10-03
David van de
r
Spoel
Removed simple
.
h
commit
|
commitdiff
|
tree
2015-10-02
David v
a
n
d
er
Spoe
l
Removed simple
.
h
from nb_kernel_ss
e
4_1_XX
commit
|
commitdiff
|
tree
2015-10-02
D
avid
v
a
n
d
er Spoel
Removed simple
.
h fro
m
nb_kernel_sse2
_
XX
commit
|
commitdiff
|
tree
2015-10-02
Dav
i
d van d
e
r Spoel
Removed
s
im
p
l
e
.
h from
nb_
k
er
n
el_c
and nb_kernel
_
spa
r
c64
_
h
p
c
.
.
.
commit
|
commitdiff
|
tree
2015-10-02
David va
n
der
Sp
o
el
Removed include
s
imple
.
h from nb_kernel_avx_128
_
fma_XX
commit
|
commitdiff
|
tree
2015-10-02
David van
der Spoel
Removed sim
p
l
e
.
h
from nb_k
e
r
nel_avx
_
256_XX
commit
|
commitdiff
|
tree
2015-10-02
Da
v
id va
n
der
S
poel
Rem
o
ved output_en
v
_t, now using gmx_output_env
_
t *
.
.
.
commit
|
commitdiff
|
tree
2015-10-01
Davi
d
v
a
n
der Spoel
Removed types/
n
rnb
.
h from t
y
pedefs
.
h
.
commit
|
commitdiff
|
tree
2015-09-30
D
a
vid van der Spoel
Remove
d
ty
p
es/nblist
.
h an
d
types/
n
s
gr
i
d
.
h fr
o
m typed
e
fs
.
h
commit
|
commitdiff
|
tree
2015-09-30
David van d
e
r Spoe
l
Removed types/md
a
tom
.
h
f
rom
ty
p
edefs
.
h
commit
|
commitdiff
|
tree
2015-09-29
David van d
e
r Spoel
Remov
e
d
t
y
pes/i
n
p
u
trec
.
h from typedefs
.
h and releted
.
.
.
commit
|
commitdiff
|
tree
2015-09-29
David van de
r
Spoel
Fixes bug in the compu
t
a
t
ion of Coeff
i
c
i
ent of
T
hermal
.
.
.
commit
|
commitdiff
|
tree
2015-09-27
David va
n
der Spoe
l
Removed ty
p
es/forcerec
.
h from t
y
pedefs
.
h
commit
|
commitdiff
|
tree
2015-09-25
David van der Spoe
l
Remove
d
i
nclude o
f
types/if
u
n
c
.
h from t
y
pede
f
s
.
h
commit
|
commitdiff
|
tree
2015-09-22
Davi
d
van der Spo
e
l
Re
m
ov
e
d four
i
ncludes from legacyhe
a
ders/t
y
pedef
s
.
h
commit
|
commitdiff
|
tree
2015-09-22
D
a
v
id van
d
er
Spoel
Removed l
e
gacyheaders/type
s
/commrec_f
w
d
.
h from type
d
ef
.
h
commit
|
commitdiff
|
tree
2015-09-10
David van der Spoel
M
o
v
ed cont
e
nt from mdrun
.
h to
s
ep
a
r
at
e
headers
.
commit
|
commitdiff
|
tree
2015-09-10
David van der
S
po
e
l
R
e
move
d
<sys/types
.
h> a
n
d "types/constr
.
h
" from typedef
s
commit
|
commitdiff
|
tree
2015-09-09
D
a
vid van d
e
r Spoel
R
emoved fileio/trx
.
h from typedefs
.
h
commit
|
commitdiff
|
tree
2015-09-08
David van
d
er Spoel
Moved functi
o
ns
opera
t
ing on
f
o
r
c
erec to separate header
.
commit
|
commitdiff
|
tree
2015-08-28
David van der
S
poel
Added en
e
rgy
(e
d
r) file type to
O
pt
i
ons hea
d
er
s
.
commit
|
commitdiff
|
tree
2015-08-28
D
a
v
i
d van der S
p
oel
Ad
d
ed
a
d
d
i
tional co
n
structor t
o
StringStream c
l
a
s
s
.
.
.
commit
|
commitdiff
|
tree
2015-08-03
David van d
e
r Spoe
l
Made ou
t
p
ut fro
m
dumping neightborlists easier to rea
d
.
commit
|
commitdiff
|
tree
2015-07-31
D
a
v
i
d v
a
n
d
e
r
S
p
oel
Change ini
t
i
a
l par
a
meters for tes
t
ing expfit
.
commit
|
commitdiff
|
tree
2015-07-29
David van d
e
r Spoel
Code for
c
hecki
n
g xvg
f
i
les in testutils
.
commit
|
commitdiff
|
tree
2015-04-17
Davi
d
v
an de
r
Spoe
l
U
pdated
e
x
p
onent
i
al
fit
t
ing to
m
ake it robust
.
commit
|
commitdiff
|
tree
2015-04-09
Dav
i
d van
der
S
poel
Clarifie
d
comments for time-depen
d
e
nt electric f
i
elds
.
commit
|
commitdiff
|
tree
2015-04-08
David van der Spo
e
l
Fixed incorre
c
t output of gb_algorit
h
as sa
_
alg
o
r
i
t
hm
.
commit
|
commitdiff
|
tree
2015-03-02
Da
v
id v
a
n
de
r
Spoel
Upd
a
te
d
documentation for ele
c
t
ric fields
.
commit
|
commitdiff
|
tree
2014-12-13
David van de
r
S
p
oel
Four
new quotes
f
rom around the world
.
commit
|
commitdiff
|
tree
2014-11-28
D
a
vid van der Spoel
Fixes recent
l
y introduced
b
ug in g
m
x a
n
alyze
.
commit
|
commitdiff
|
tree
2014-11-24
Davi
d
van der Spoe
l
Added warnings for ew
a
l
d-ge
o
metry and su
r
f
a
ce-epsilon
commit
|
commitdiff
|
tree
2014-10-28
David va
n
de
r
Spoel
E
v
en more
r
efresh
i
ng quotes
.
commit
|
commitdiff
|
tree
2014-10-14
Da
v
id van de
r
S
p
oel
Reorganizing analys
i
s of correla
t
ion
f
u
n
ctio
n
s
.
commit
|
commitdiff
|
tree
2014-09-23
D
avid van der Spo
e
l
Fixe
s
pote
n
tial
b
ug i
n
neig
h
b
o
rsearchi
n
g
.
commit
|
commitdiff
|
tree
2014-09-17
D
a
vid van
der Spoel
Merge release-5-0 into master
commit
|
commitdiff
|
tree
2014-09-10
Dav
i
d
van de
r
Spo
e
l
R
e
move
.
t
p
a,
.
tpb,
.
tpx,
.
trj files
.
Part
o
f
#1500
.
commit
|
commitdiff
|
tree
2014-08-30
Da
v
id van der Spoel
Fixes issue with v
s
i
t
en
an
d
verlet
b
u
f
fers
.
commit
|
commitdiff
|
tree
2014-07-05
David van der Spoel
Fixe
d
inco
n
s
i
s
tency in
blocka ha
n
dling
.
commit
|
commitdiff
|
tree
2014-06-29
David van der Spoel
Fixes #1532
,
S
E
G
V
i
n
g
_cu
r
r
ent
.
commit
|
commitdiff
|
tree
2014-06-25
D
a
vid van der Spoel
A
d
ded check for d
o
ma
i
n decom
p
osition and shells
.
commit
|
commitdiff
|
tree
2014-06-24
David
v
an
der
S
p
oel
A
d
de
d
c
heck in grompp fo
r
s
hells and inp
u
t
rec issues
.
commit
|
commitdiff
|
tree
2014-06-22
Davi
d
van der Spoe
l
Implem
e
nted f
a
tal err
o
r for nstcalcenergy!=1 w
i
th shel
l
s
.
commit
|
commitdiff
|
tree
2014-06-13
D
a
vid van de
r
Spoel
F
ix memor
y
-usag
e
error in g_chi
commit
|
commitdiff
|
tree
2014-06-11
David van der S
p
oel
Fi
x
es bug where -e and
-dt flags did no
t
work anym
o
re
.
commit
|
commitdiff
|
tree
2014-06-07
David van der Spoel
Merge "Merge
r
elease-5-0 in
t
o
m
ast
e
r"
commit
|
commitdiff
|
tree
next