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Fix no-MPI CUDA build
2019-09-24
M
a
r
k
A
b
raham
Fix no-MPI CUDA build
commit
|
commitdiff
|
tree
2019-09-24
Mark Abrah
a
m
Merge "
M
erg
e
branch r
e
lease-2019
i
nto master
"
commit
|
commitdiff
|
tree
2019-09-24
M
ark Abraham
F
i
x clang
unuse
d
-function
w
arning
s
commit
|
commitdiff
|
tree
2019-09-23
M
ark Abrah
a
m
Fi
x
es to broken
CUDA c
o
mpiler flags
commit
|
commitdiff
|
tree
2019-09-23
M
a
rk
A
braham
Fix 1D-1pulse support
commit
|
commitdiff
|
tree
2019-09-20
Mark Abraham
Refac
t
o
r to crea
t
e a
G
p
u
TaskAssign
m
ents ob
j
ect
commit
|
commitdiff
|
tree
2019-09-19
Ma
r
k Abraham
Use G
P
U halo ex
c
hange only when compat
i
bl
e
DD i
s
available
commit
|
commitdiff
|
tree
2019-09-19
Mark
Abr
a
ham
Fur
t
her improve getDD
G
r
i
dSetup
commit
|
commitdiff
|
tree
2019-09-16
Mark Abr
a
ham
Avoid sh
o
rt-range GPU
o
perations
w
ith no
wor
k
commit
|
commitdiff
|
tree
2019-09-12
Mark Abraham
Disable
report-methods end-to-
e
n
d test
commit
|
commitdiff
|
tree
2019-09-11
Mark Abraham
Make gmx_m
u
lti
s
i
m_t a C++
object
commit
|
commitdiff
|
tree
2019-09-11
Mark
Abraham
Fix
m
u
l
ti-sim restart handling
i
n
corner cases
commit
|
commitdiff
|
tree
2019-09-10
Mark
A
braham
A
void
warning in no-mpi build
commit
|
commitdiff
|
tree
2019-09-10
M
a
rk Abraham
Us
e
more RAII seman
t
ics with t_commrec
commit
|
commitdiff
|
tree
2019-09-06
Mark Abraham
C
l
e
an up comm
r
ec
un
i
for
m
ly
commit
|
commitdiff
|
tree
2019-09-05
M
ark
Abraham
Update m
d
run test comparison infrast
r
uctur
e
commit
|
commitdiff
|
tree
2019-09-03
Mark Abrah
a
m
Simplify energy-file co
m
pariso
n
s
in tes
t
s
commit
|
commitdiff
|
tree
2019-09-02
M
ark
A
braha
m
Move initialization of clFFT
commit
|
commitdiff
|
tree
2019-08-30
Mark Abraham
Fix buil
d
matr
i
ces
commit
|
commitdiff
|
tree
2019-08-29
Mark Abraham
More quotes
commit
|
commitdiff
|
tree
2019-08-28
M
ark
A
braham
Fix in
t
e
gration
i
ssues
commit
|
commitdiff
|
tree
2019-08-28
Mark Abraham
Improved usability
o
f grompp by re
j
ect
i
ng mo
r
e invalid
.
.
.
commit
|
commitdiff
|
tree
2019-08-27
Mark Abrah
a
m
Add integr
a
tion tests for exact restarts
commit
|
commitdiff
|
tree
2019-08-26
M
ark Abraham
Make FEP rerun
t
ests cover the intended
l
ambda space
commit
|
commitdiff
|
tree
2019-08-26
Mark Abraham
Converted a
CUDA config to
u
se cl
a
ng
h
ost
-
on
l
y compilat
i
on
commit
|
commitdiff
|
tree
2019-08-26
Mark Abraham
Fix pairlist bug
commit
|
commitdiff
|
tree
2019-08-23
Mark Abraham
Update
c
lang-tidy
to clang version 8
commit
|
commitdiff
|
tree
2019-08-22
Mark Abra
h
am
M
e
rge branch release-20
1
9
commit
|
commitdiff
|
tree
2019-08-22
Mark
A
brah
a
m
Improve clang-anal
y
zer build time
commit
|
commitdiff
|
tree
2019-08-22
M
a
rk Abraham
F
i
x
r
elease
m
a
t
rix
commit
|
commitdiff
|
tree
2019-08-21
Mark Abraham
Improve organizatio
n
of LINCS
reporting
commit
|
commitdiff
|
tree
2019-08-20
M
a
r
k
Abraham
App
l
y
clang-tid
y
-8 readability-upp
e
rcase-l
i
teral-suffix
commit
|
commitdiff
|
tree
2019-08-20
Mark Abraham
Use p
o
tential-s
h
i
f
t as d
e
fault
m
o
difier
commit
|
commitdiff
|
tree
2019-08-20
Mark Abr
a
ham
Re
d
uce cosine ac
c
elera
t
i
on qua
n
tity properly
commit
|
commitdiff
|
tree
2019-08-20
Mark Abraham
Fix issues for clang-analyzer-8
commit
|
commitdiff
|
tree
2019-08-19
Mark Ab
r
aham
Moder
n
i
z
e
t_matrix, t_mapping, t_rgb
commit
|
commitdiff
|
tree
2019-08-19
Mark Abra
h
am
Modernize t_psda
t
a
commit
|
commitdiff
|
tree
2019-08-16
M
ark
A
b
r
aham
Updat
e
testing mat
r
ices and fix
w
ar
n
ings
commit
|
commitdiff
|
tree
2019-08-16
Mark Abraha
m
Move ke
y
value
t
reewriter code
commit
|
commitdiff
|
tree
2019-08-16
Mark A
b
raham
St
o
p nbnxm/
g
rid
.
h dep
e
nding on
S
I
MD module
commit
|
commitdiff
|
tree
2019-08-15
Mark Abraham
Remove run-tim
e
c
h
eck from calc_shifts
commit
|
commitdiff
|
tree
2019-08-14
Mark Abraham
Fix
v
v
integrat
o
rs
commit
|
commitdiff
|
tree
2019-08-13
Mark
A
braha
m
R
emove
w
orkaround
for buggy cmake
commit
|
commitdiff
|
tree
2019-08-13
Mark Abraham
Fix icc 19
co
d
egen issue
commit
|
commitdiff
|
tree
2019-08-12
M
a
rk Abraham
Quie
t
w
arning
commit
|
commitdiff
|
tree
2019-08-12
Mark Abrah
a
m
Fix ocl_kernel target
commit
|
commitdiff
|
tree
2019-08-08
Mark Ab
r
aham
Fix estimate
o
f t
h
e size
of a j list
commit
|
commitdiff
|
tree
2019-08-08
Mark Abraham
I
ni
t
ializ
e
gmx_ekindata_t and
t_vcm proper
l
y
commit
|
commitdiff
|
tree
2019-08-08
Mark A
b
raham
Stop
t
est
i
ng ICC on Windows
commit
|
commitdiff
|
tree
2019-08-06
Mark
A
braham
Fix f
o
r MSVC+
C
UDA
commit
|
commitdiff
|
tree
2019-08-05
M
a
rk Abraham
Add quote
commit
|
commitdiff
|
tree
2019-08-05
Mark A
b
raham
Remov
e
li
b
gromacs_ge
n
erated contributions from F
i
n
dC
U
DA
.
.
.
commit
|
commitdiff
|
tree
2019-08-01
Mark Abrah
a
m
Mana
g
e compiler
f
l
a
g
s
and some
i
nclude option
s
p
er
.
.
.
commit
|
commitdiff
|
tree
2019-08-01
Mark Abr
a
ham
Imp
r
o
v
e
use of o
b
ject
l
ibraries in libgromac
s
commit
|
commitdiff
|
tree
2019-08-01
Ma
r
k Abraham
Merge "Merge re
l
ease-2
0
1
9
into m
a
st
e
r"
commit
|
commitdiff
|
tree
2019-07-24
Mark A
b
rah
a
m
R
e
m
ov
e
tests
o
f make_unique
commit
|
commitdiff
|
tree
2019-07-23
Mar
k
Abraham
U
pdate de
v
eloper gui
d
e
commit
|
commitdiff
|
tree
2019-07-16
Mark Abraham
Add
gpubuffe
r
ops test matri
x
commit
|
commitdiff
|
tree
2019-07-11
Mar
k
Abraham
Fix
p
re-
s
ubmit
build mat
r
ix and de
s
cription
commit
|
commitdiff
|
tree
2019-07-08
Mark Abr
a
ham
Fix
h
wloc a
n
d sphinx detection
commit
|
commitdiff
|
tree
2019-07-08
M
ark
Abraha
m
Test specific
h
wloc ver
s
ions
commit
|
commitdiff
|
tree
2019-07-05
Mark Ab
r
aham
Improve test
s
of index block con
s
truction
commit
|
commitdiff
|
tree
2019-07-05
Mark A
b
rah
a
m
Modernize FindHwloc
.
cmak
e
commit
|
commitdiff
|
tree
2019-07-04
Ma
r
k
Ab
r
a
ham
F
u
rther c
l
ang
-
t
i
dy-7
f
ix
commit
|
commitdiff
|
tree
2019-07-04
Mark Abraham
F
i
x
cl
a
ng-tidy-7 issues
commit
|
commitdiff
|
tree
2019-07-03
Mark
A
braham
Reor
d
er options
commit
|
commitdiff
|
tree
2019-07-02
Mark Abraham
Clarify wor
d
ing of release notes
commit
|
commitdiff
|
tree
2019-06-18
Mark Abrah
a
m
Move code handling mdrun -g
p
u_
i
d to
ta
s
ka
s
sig
n
ment
.
.
.
commit
|
commitdiff
|
tree
2019-06-12
M
ark Abraham
Fix py
g
ments detection
f
or sphinx
for d
o
cs build
commit
|
commitdiff
|
tree
2019-06-11
Mark Abraham
U
s
e RAII approa
c
hes for hardware i
n
formation detection
commit
|
commitdiff
|
tree
2019-06-11
Mark Abraham
Clean u
p
multisim,
c
o
m
munication,
a
nd REMD code
commit
|
commitdiff
|
tree
2019-06-11
M
a
rk Abrah
a
m
Initia
l
ize
all of gmx_
d
omdec_comm_t
commit
|
commitdiff
|
tree
2019-05-24
M
a
rk Abraham
R
eo
r
d
e
r
c
o
de bef
o
r
e thr
e
ad-MPI spawns threa
d
s
commit
|
commitdiff
|
tree
2019-05-23
Mark Abraham
Teach ArrayRefW
i
t
hP
a
dding to mak
e
a con
s
t
fla
v
our
commit
|
commitdiff
|
tree
2019-05-23
Ma
r
k
Abraham
Revert "Fixed
dv
d
lambda f
o
r S
H
AKE + FE"
commit
|
commitdiff
|
tree
2019-05-22
Mark A
b
raham
Re
w
r
i
t
e
starting behavior
commit
|
commitdiff
|
tree
2019-05-22
Mark Abraham
Intro
d
uce tri-s
t
a
te
e
nums for restarts
commit
|
commitdiff
|
tree
2019-05-22
Mark
Abraham
Move functionali
t
y to mdru
n
ut
i
lity
commit
|
commitdiff
|
tree
2019-05-20
Mark Ab
r
aham
Fix
e
quation
t
ypo
commit
|
commitdiff
|
tree
2019-05-14
Mark
Abraham
Update
i
nfr
a
stru
c
ture
needed for restart rewrite
commit
|
commitdiff
|
tree
2019-05-08
Ma
r
k Abraham
P
rovide hook for for
k
s of GROMACS t
o
describe themselves
commit
|
commitdiff
|
tree
2019-05-07
M
a
rk A
b
raham
Provide bet
t
er help for us
i
n
g
libc++
commit
|
commitdiff
|
tree
2019-05-07
Mark Ab
r
ah
a
m
Add
a
n example
of using an MPI wr
a
pper compi
l
er
commit
|
commitdiff
|
tree
2019-05-06
Mark
A
br
a
ham
Improve how mdrun
-
noappend names output file
s
commit
|
commitdiff
|
tree
2019-05-03
M
a
rk Abraha
m
More tests f
o
r how mdrun -cpi res
t
arts ha
n
dl
e
files
commit
|
commitdiff
|
tree
2019-05-02
Mark Abraham
Enhance
p
a
t
h
s
earch func
t
i
o
ns
commit
|
commitdiff
|
tree
2019-04-30
Mark Abraham
Test the o
u
tput of "gmx mdru
n
help"
commit
|
commitdiff
|
tree
2019-04-25
Mark
A
brah
a
m
Update style gu
i
de abo
u
t class e
n
ums
commit
|
commitdiff
|
tree
2019-04-23
Mark Abraham
C
l
ari
f
y pushing of interaction types
commit
|
commitdiff
|
tree
2019-04-23
M
ark
Abraham
U
p
dat
e
d clang
-
Weverythi
n
g
c
hecks to cla
n
g
-7
commit
|
commitdiff
|
tree
2019-04-18
M
ark
A
braham
C
r
e
a
t
e gm
x
::comp
a
t::optional
commit
|
commitdiff
|
tree
2019-04-18
Mark Abraham
Move pu
l
l
work struct out of inputrec
commit
|
commitdiff
|
tree
2019-04-18
M
ark Abraham
Improv
e
swapcoords
s
ession
l
ifetime
m
a
n
a
gement
commit
|
commitdiff
|
tree
2019-04-17
Ma
r
k Abraham
F
ix pos
t
-submit
commit
|
commitdiff
|
tree
2019-04-16
M
ark Abrah
a
m
Re
m
oved mdrun -gcom
commit
|
commitdiff
|
tree
2019-04-13
M
a
rk
A
braham
Fix self-consist
e
ncy
tests
of hw
l
oc dat
a
structures
commit
|
commitdiff
|
tree
2019-04-12
Mark Ab
r
aham
Improve warnin
g
messages about duplicate definition
s
commit
|
commitdiff
|
tree
2019-04-10
Mark Abraha
m
Start ma
k
ing
I
M
D
and swap model IMDModule
commit
|
commitdiff
|
tree
2019-04-10
Mark Abraham
Reuse rvecs
_
dif
f
er in InteractiveMD
m
odule
commit
|
commitdiff
|
tree
2019-04-10
Mark Abraha
m
Make Im
d
Sess
i
on into a Pi
m
pl-e
d
c
l
a
s
s with fa
c
tory
.
.
.
commit
|
commitdiff
|
tree
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