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Fix reference mode build unused function warnings
2017-10-30
A
l
e
ksei Iupinov
Fix reference
mode build unus
e
d functi
o
n warnings
commit
|
commitdiff
|
tree
2017-10-30
B
erk Hess
Remove u
n
used sig
n
paramete
r
from dih_angle
(
)
commit
|
commitdiff
|
tree
2017-10-30
Roland S
c
hu
l
z
A
r
rayRef:
R
eplace fromVector
with subArray
commit
|
commitdiff
|
tree
2017-10-30
David va
n
der Spoel
Ad
d
ed op
t
ion -wat
e
r tips3p t
o
pdb2gmx
.
commit
|
commitdiff
|
tree
2017-10-30
Aleksei I
u
pino
v
Bring PME GPU/CUDA i
n
t
e
rnal stru
c
ture
names to CamelCase
commit
|
commitdiff
|
tree
2017-10-27
Mark Abraham
F
ix hw detection
m
ore
commit
|
commitdiff
|
tree
2017-10-26
M
a
rk
A
brah
a
m
New quote
commit
|
commitdiff
|
tree
2017-10-20
Mark A
b
ra
h
am
Merge branch release-201
6
commit
|
commitdiff
|
tree
2017-10-20
B
erk He
s
s
Fix warning for confout w
i
th periodic
molecul
e
s
commit
|
commitdiff
|
tree
2017-10-16
Mark Abrah
a
m
M
erge branch
r
el
e
ase-2016
commit
|
commitdiff
|
tree
2017-10-15
Berk Hess
Improv
e
vsite
p
arallel
c
hec
k
ing
commit
|
commitdiff
|
tree
2017-10-13
Aleksei Iupin
o
v
Rela
x
PME
spline co
m
putation tolerance
in double pre
c
ision
.
.
.
commit
|
commitdiff
|
tree
2017-10-13
Ma
r
k Abraham
Update
tests f
o
r C++11 co
m
piler and s
t
andar
d
library
commit
|
commitdiff
|
tree
2017-10-13
Roland Schulz
Special
i
ze ArrayRef for SimdReal
commit
|
commitdiff
|
tree
2017-10-11
M
ark Abraham
Introduced hea
d
e
r
for
c
ommunication to/from PME ra
n
ks
commit
|
commitdiff
|
tree
2017-10-11
Ale
k
sei Iupi
n
o
v
Fix
c
lang warnings f
o
r
PME CUD
A
kernel
s
commit
|
commitdiff
|
tree
2017-10-11
Aleksei Iupinov
Rel
a
x PME s
o
lving
t
e
st
complex grid tolerance
commit
|
commitdiff
|
tree
2017-10-11
Mark Abraham
Clean
e
d up ewaldcoeff for PME-o
n
ly
r
anks
commit
|
commitdiff
|
tree
2017-10-11
A
l
ekse
i
Iupinov
PME solving - CUDA kernel + unit test
s
commit
|
commitdiff
|
tree
2017-10-11
P
a
ul Bauer
Change to mod
u
les
f
o
r build of web documentati
o
n
commit
|
commitdiff
|
tree
2017-10-11
Aleks
e
i Iupino
v
P
M
E force
g
ath
e
ring - CUDA k
e
rne
l
+
unit tests
commit
|
commitdiff
|
tree
2017-10-11
Aleksei Iupinov
P
ME splin
e
+spread CUDA k
e
rnel and uni
t
tests
commit
|
commitdiff
|
tree
2017-10-11
Mark
Abraham
Use c
l
ang-
5
in Jenkins
commit
|
commitdiff
|
tree
2017-10-11
Be
r
k Hess
Disable ARM
N
eon native rsqrt
i
t
e
r
ation
commit
|
commitdiff
|
tree
2017-10-09
Al
e
ksei Iu
p
inov
PME
G
P
U/
C
UDA data frame
w
o
r
k
.
commit
|
commitdiff
|
tree
2017-10-07
Mark
Abraham
Tell cppcheck that
.
cpp and
.
c
u
files
a
re c
+
+
commit
|
commitdiff
|
tree
2017-10-07
R
o
land Sch
u
lz
R
efactor load+SimdLoad*Pro
x
yInternal to
red
u
ce duplica
t
i
on
commit
|
commitdiff
|
tree
2017-10-06
Berk Hess
Add SIMD intrinsics version
o
f simple
u
p
d
ate
commit
|
commitdiff
|
tree
2017-10-06
Berk Hess
I
m
prove Padd
e
dRVecVector re
s
izin
g
commit
|
commitdiff
|
tree
2017-10-06
Aleksei Iupin
o
v
A
dd ti
m
ing a
c
cumulation capabili
t
y into Gp
u
Reg
i
onTimer
commit
|
commitdiff
|
tree
2017-10-05
Berk Hess
Mak
e
SIMD a
m
biguous test work with float/doubl
e
only
commit
|
commitdiff
|
tree
2017-10-05
Szilárd Páll
Fix pair li
s
t array
a
s
s
ertion
commit
|
commitdiff
|
tree
2017-10-05
Szil
á
rd Páll
Avoid
-
W
m
i
ss
i
ng-
p
rot
o
types warnings in
c
lang CUDA builds
commit
|
commitdiff
|
tree
2017-10-05
Roland Schulz
Fix that e
x
p(load(x)
)
is ambiguous
commit
|
commitdiff
|
tree
2017-10-04
Mark
A
braham
Enab
l
e group-scheme SIMD
with
G
MX
_
SIMD=AVX2_12
8
commit
|
commitdiff
|
tree
2017-10-04
Al
e
ksei
I
upinov
Add Gpu
R
egionTimer class
commit
|
commitdiff
|
tree
2017-10-03
Mark Abraham
Introduce and
use Alig
n
edAl
l
ocationPolicy
commit
|
commitdiff
|
tree
2017-10-02
Berk Hes
s
Remove hybrid gpu+cpu
n
onbo
n
de
d
mo
d
e
commit
|
commitdiff
|
tree
2017-09-26
Aleksei
I
upinov
Mov
e
CUDA texture setup code
f
rom NB CUDA module to
.
.
.
commit
|
commitdiff
|
tree
2017-09-17
M
ark Abraham
M
er
g
e br
a
nch r
e
lease-
2
016
commit
|
commitdiff
|
tree
2017-09-15
B
er
k
He
s
s
Re
m
ove nb-paramet
e
rs
from
t_forcerec
commit
|
commitdiff
|
tree
2017-09-15
Mark Abraham
Express
intent
o
f
matrix release build t
y
pes
e
xplicitly
commit
|
commitdiff
|
tree
2017-09-15
Mark Abraham
Bumpe
d
p
a
tch version fo
r
nex
t
release
commit
|
commitdiff
|
tree
2017-09-15
Mark Abraham
Version 201
6
.
4
commit
|
commitdiff
|
tree
2017-09-14
Aleks
e
i Iu
p
i
nov
F
i
x non-SIMD build fai
l
ing
commit
|
commitdiff
|
tree
2017-09-14
Szilárd Pál
l
CUDA 9/Volta support for the pruning kern
e
l
commit
|
commitdiff
|
tree
2017-09-14
Mark A
b
raham
Form
t
a
skassign
m
ent
m
odule
commit
|
commitdiff
|
tree
2017-09-14
Mark Abrah
a
m
Fix compat
m
o
dule
definition
commit
|
commitdiff
|
tree
2017-09-12
Erik
Lind
a
hl
I
m
p
rove accuracy
o
f SIMD
e
xp
f
or small
a
r
g
s
commit
|
commitdiff
|
tree
2017-09-12
Mark
A
bra
h
a
m
Merge br
a
nch r
e
lease-2016
commit
|
commitdiff
|
tree
2017-09-12
Berk Hess
Do not pass state to init_replica_excha
n
ge
commit
|
commitdiff
|
tree
2017-09-11
Szilárd Pál
l
NVIDIA V
o
lta performance
twe
a
ks
commit
|
commitdiff
|
tree
2017-09-11
Berk Hess
Fix PBC bugs in the
s
wa
p
code
commit
|
commitdiff
|
tree
2017-09-07
M
ark Abra
h
am
Introduce
type-safe GPU emulation v
a
riables
commit
|
commitdiff
|
tree
2017-09-07
R
o
land Schulz
Add isIn
t
egralConst
a
nt type
tra
i
t
commit
|
commitdiff
|
tree
2017-09-07
Mark Abraham
Enable group
-
scheme SIM
D
k
e
rnels on recent AVX extensions
commit
|
commitdiff
|
tree
2017-09-06
R
oland Schulz
P
ME-gather
:
U
se temp
l
ated
f
unctor i
n
stead of pre
p
roce
s
sor
commit
|
commitdiff
|
tree
2017-09-05
C
h
ristoph Junghans
Suppo
r
t
e
d quie
t
trajectory-h
a
ndling I/O
commit
|
commitdiff
|
tree
2017-09-05
M
ark Abra
h
a
m
Fixes for Solari
s
commit
|
commitdiff
|
tree
2017-09-05
Mark Abraha
m
F
i
x use of GPU in
f
ormatio
n
f
o
r
t
hread-MPI setup
commit
|
commitdiff
|
tree
2017-09-04
B
e
rk
H
ess
Fix two nbn
x
n
search
in
d
exin
g
b
ugs
commit
|
commitdiff
|
tree
2017-09-04
Roland
S
chulz
F
i
x accuracy f
o
r
cvtDouble2Float
/
cprod
commit
|
commitdiff
|
tree
2017-09-04
B
e
rk
Hess
Consolida
t
e archit
e
cture bo
o
l
eans
commit
|
commitdiff
|
tree
2017-09-03
Mar
k
Abra
h
am
Fix c
o
mpil
e
r flags for us
i
ng MKL
commit
|
commitdiff
|
tree
2017-09-03
Mark Abraham
Merge branch release
-
5-1 in
t
o release-
2
0
16
commit
|
commitdiff
|
tree
2017-08-25
Mark Abraham
Fix flat-bottomed
position restraints wi
t
h
m
ul
t
i
p
le
.
.
.
commit
|
commitdiff
|
tree
2017-08-22
M
a
rk
Abrah
a
m
Run GPU d
e
tection ev
e
n for m
d
r
un
-nb cpu
commit
|
commitdiff
|
tree
2017-08-22
Mark Abraham
Fixed
thread-MPI with non-default -npme
commit
|
commitdiff
|
tree
2017-08-22
Mar
k
Abraham
Fix
m
i
s
s
in
g
declaration of GMX_UNUSED_VAL
U
E
commit
|
commitdiff
|
tree
2017-08-22
Aleksei Iupi
n
ov
S
e
parate PME spread and gather wall
c
y
c
le counters
commit
|
commitdiff
|
tree
2017-08-22
Ber
k
Hess
Enable dyn
a
m
i
c pair
list p
r
uning
commit
|
commitdiff
|
tree
2017-08-22
Ma
r
k
A
braham
Merge branch release-20
1
6
commit
|
commitdiff
|
tree
2017-08-21
Te
e
mu Murtola
Sim
p
le
union-find str
u
c
t
u
re
commit
|
commitdiff
|
tree
2017-08-21
M
a
r
k
Abra
h
a
m
M
oved
increase_nst
l
ist() to nbnxn_t
u
ning
.
h
commit
|
commitdiff
|
tree
2017-08-21
Mark Ab
r
a
ham
F
ix
c
ompilation issues with ARM SIMD
commit
|
commitdiff
|
tree
2017-08-21
S
z
ilárd
P
áll
Add
O
p
e
n
C
L
pruning kernels and launch/timing
l
ogic
commit
|
commitdiff
|
tree
2017-08-18
Sz
i
lárd Páll
Improve
a
wkwar
d
ha
n
dling of GMX_CUDA_TARGET* help
commit
|
commitdiff
|
tree
2017-08-18
Ve
d
ra
n
Miletić
Improve the "f
i
les not presen
t
" error message
commit
|
commitdiff
|
tree
2017-08-18
S
zilárd Páll
Add CUDA pruning
k
ernel
s
and
l
aunch/
t
iming logic
commit
|
commitdiff
|
tree
2017-08-18
Berk
H
e
s
s
Add C
P
U referenc
e
and
S
I
MD pruning
k
ernels
commit
|
commitdiff
|
tree
2017-08-17
Mark Abraham
Replace consi
s
tency
che
c
king with asse
r
tion
commit
|
commitdiff
|
tree
2017-08-16
Berk Hes
s
Add dynamic
p
air-list pruni
n
g
fram
e
wo
r
k
commit
|
commitdiff
|
tree
2017-08-16
Berk Hess
Cl
e
a
n
up nbnxn cluster
p
air add
i
ti
o
n cod
e
commit
|
commitdiff
|
tree
2017-08-16
M
ark Abraham
P
a
rse
u
ser-supp
l
ied GPU task
a
ssign
m
ent only when needed
commit
|
commitdiff
|
tree
2017-08-15
Da
v
id van
der Sp
o
el
Worke
d
aro
u
nd missing
O
penMP im
p
lementation
i
n
ori
r
e
s
.
commit
|
commitdiff
|
tree
2017-08-15
Mark A
b
raham
Mer
g
e bran
c
h relea
s
e-5
-
1 into rel
e
ase-2016
commit
|
commitdiff
|
tree
2017-08-15
Ji
r
i Kr
a
us
CUDA 9/Volta support for the nonbo
n
d
e
d module
commit
|
commitdiff
|
tree
2017-08-15
Ma
r
k Abraham
Fix
v
a
lue of Ewald s
h
ift
commit
|
commitdiff
|
tree
2017-08-07
Mark Abra
h
am
Fix include dependen
c
y for getenv
commit
|
commitdiff
|
tree
2017-08-06
Mark Abraham
Simp
l
if
y
r
e
source-di
v
ision ef
f
icie
n
cy check
commit
|
commitdiff
|
tree
2017-08-06
Mark Abraham
Decoupl
e
t
ask assi
g
nment
f
r
om task
e
xecu
t
ion
commit
|
commitdiff
|
tree
2017-08-06
M
ark A
b
raham
Remove
d
unuse
d
h
ost
-
side all
o
cation code
commit
|
commitdiff
|
tree
2017-08-04
Mark Abra
h
am
St
o
p using hwi
n
fo_g
f
or reporting
co
d
e
commit
|
commitdiff
|
tree
2017-08-03
Mark Abraham
Remov
e
d
un
u
sed
i
n
clude statemen
t
s
commit
|
commitdiff
|
tree
2017-08-03
Berk Hess
Add check f
o
r nr
o
f or
i
entation
restraints
commit
|
commitdiff
|
tree
2017-08-03
Berk
He
s
s
F
i
x bu
g
s
with orientation restraints
commit
|
commitdiff
|
tree
2017-08-03
Carsten Kutzner
Added missing
.
mdp file docum
e
nt
a
tion for
the e
n
forced
.
.
.
commit
|
commitdiff
|
tree
2017-08-02
Berk H
e
s
s
Clean
u
p matrix in
v
ersion
commit
|
commitdiff
|
tree
2017-08-02
B
erk Hess
Fix orientat
i
on r
e
s
traint ref
e
rence
commit
|
commitdiff
|
tree
2017-08-02
David va
n
der Spoel
W
o
rked around missing Ope
n
MP implementat
i
on in orires
.
commit
|
commitdiff
|
tree
next