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Quiet warning
2019-08-12
M
a
r
k
A
br
a
h
a
m
Q
uiet warning
commit
|
commitdiff
|
tree
2019-08-12
Mark Abraham
Fix ocl_ke
r
nel target
commit
|
commitdiff
|
tree
2019-08-08
Mark Abrah
a
m
Fix es
t
ima
t
e of t
h
e size of
a
j list
commit
|
commitdiff
|
tree
2019-08-08
M
ark Ab
r
aham
I
nitialize
g
mx_
e
k
i
ndata_t and t_vcm properly
commit
|
commitdiff
|
tree
2019-08-08
Ma
r
k Ab
r
a
ham
Stop testing IC
C
on
W
i
ndow
s
commit
|
commitdiff
|
tree
2019-08-05
Mark Abr
a
ham
Add
quote
commit
|
commitdiff
|
tree
2019-08-05
Mark Abraham
R
emove libgromacs_gen
e
rat
e
d
c
ontrib
u
tio
n
s from Fin
d
CUDA
.
.
.
commit
|
commitdiff
|
tree
2019-08-01
Mark Abraham
M
anage
c
ompiler f
l
a
gs and some
i
n
clude opt
i
ons per
.
.
.
commit
|
commitdiff
|
tree
2019-08-01
Mark
A
braha
m
Improve use o
f
object libraries in
l
ibgromacs
commit
|
commitdiff
|
tree
2019-08-01
Mark Ab
r
aham
Merge "
M
e
r
ge r
e
l
e
as
e
-2019 in
t
o master"
commit
|
commitdiff
|
tree
2019-07-24
Mark Abr
a
ham
Remove t
e
s
t
s of make_unique
commit
|
commitdiff
|
tree
2019-07-23
Mark Abraham
U
p
dat
e
d
e
veloper guide
commit
|
commitdiff
|
tree
2019-07-16
M
ark Abraham
Ad
d
gpubuffero
p
s test
m
a
t
r
ix
commit
|
commitdiff
|
tree
2019-07-11
Mark
A
braham
F
i
x
p
r
e-submit build matrix an
d
description
commit
|
commitdiff
|
tree
2019-07-08
Mar
k
Abraha
m
Fix hwloc an
d
s
phinx detect
i
on
commit
|
commitdiff
|
tree
2019-07-08
Mark Abraham
Test
specific hwloc
v
ersi
o
n
s
commit
|
commitdiff
|
tree
2019-07-05
Ma
r
k
A
braham
Im
p
r
o
v
e
tes
t
s of index block const
r
ucti
o
n
commit
|
commitdiff
|
tree
2019-07-05
Mark A
b
raham
Modernize FindHwloc
.
cma
k
e
commit
|
commitdiff
|
tree
2019-07-04
M
ark Abraham
F
u
r
t
he
r
clang-tidy-7 fix
commit
|
commitdiff
|
tree
2019-07-04
M
a
rk
A
b
raham
Fix clang
-
tidy-7
issues
commit
|
commitdiff
|
tree
2019-07-03
M
a
rk Ab
r
aham
Reorder opti
o
ns
commit
|
commitdiff
|
tree
2019-07-02
Mark Abraham
Clarif
y
wording of release notes
commit
|
commitdiff
|
tree
2019-06-18
Ma
r
k Abraham
Mov
e
cod
e
handling m
d
ru
n
-gpu_id to taska
s
signm
e
nt
.
.
.
commit
|
commitdiff
|
tree
2019-06-12
Mark
A
braham
Fix pygments detection
f
or sphi
n
x for docs build
commit
|
commitdiff
|
tree
2019-06-11
Mark Abraham
Use RAII ap
p
roach
e
s for ha
r
dware info
r
mati
o
n det
e
c
ti
o
n
commit
|
commitdiff
|
tree
2019-06-11
Mark A
b
r
aham
Clea
n
up multi
s
im, communica
t
ion, and
REMD c
o
de
commit
|
commitdiff
|
tree
2019-06-11
Mark Abraham
In
i
t
iali
z
e a
l
l of g
m
x_domdec_comm_t
commit
|
commitdiff
|
tree
2019-05-24
M
ark A
b
raham
Reor
d
er code bef
o
re thre
a
d
-
M
P
I spawns threads
commit
|
commitdiff
|
tree
2019-05-23
Mar
k
Abraham
Teach Arra
y
RefWit
h
P
a
dding to make a const f
l
a
v
our
commit
|
commitdiff
|
tree
2019-05-23
Mark
Abr
a
h
am
R
e
vert "Fixed dvdlambda for S
H
A
K
E
+
FE"
commit
|
commitdiff
|
tree
2019-05-22
Mark Abraham
Re
w
rite
s
tarting b
e
havior
commit
|
commitdiff
|
tree
2019-05-22
M
a
rk Abraham
Int
r
oduce tri-s
t
a
te e
n
u
ms
for resta
r
ts
commit
|
commitdiff
|
tree
2019-05-22
Mark
A
bra
h
am
Move fun
c
tional
i
ty to mdrunutility
commit
|
commitdiff
|
tree
2019-05-20
Mark
A
braham
F
ix equation t
y
po
commit
|
commitdiff
|
tree
2019-05-14
Mark Abraham
Update i
n
frastr
u
cture needed for re
s
t
art r
e
writ
e
commit
|
commitdiff
|
tree
2019-05-08
Mark Abraham
Provide hook
f
or forks of G
R
OM
A
CS to
descri
b
e themselves
commit
|
commitdiff
|
tree
2019-05-07
Mar
k
Abraham
Pro
v
ide better help for using li
b
c++
commit
|
commitdiff
|
tree
2019-05-07
Ma
r
k Abraham
A
dd an
e
xample of using
an
M
P
I wrapper comp
i
ler
commit
|
commitdiff
|
tree
2019-05-06
Ma
r
k A
b
raham
I
m
p
r
ove how mdrun -noappend
names
output files
commit
|
commitdiff
|
tree
2019-05-03
Mark Ab
r
aham
More tests
f
or how m
d
run -cp
i
res
t
a
rts ha
n
dle files
commit
|
commitdiff
|
tree
2019-05-02
Ma
r
k A
b
raham
Enhance p
a
th search
func
t
ions
commit
|
commitdiff
|
tree
2019-04-30
Ma
r
k Ab
r
aham
Tes
t
the outp
u
t of "g
m
x md
r
un
help"
commit
|
commitdiff
|
tree
2019-04-25
Ma
r
k
A
br
a
ham
Update st
y
le
guide abou
t
cla
s
s enums
commit
|
commitdiff
|
tree
2019-04-23
Mark Abraham
Clarify pus
h
in
g
o
f
interaction types
commit
|
commitdiff
|
tree
2019-04-23
Mark Ab
r
aham
Updated clang -
W
eve
r
yth
i
ng che
c
ks to c
l
ang-7
commit
|
commitdiff
|
tree
2019-04-18
Ma
r
k Abraham
Cre
a
te
gmx::co
m
pat::optional
commit
|
commitdiff
|
tree
2019-04-18
Mark Abraha
m
Mov
e
p
u
ll
w
or
k
str
u
ct out of inputrec
commit
|
commitdiff
|
tree
2019-04-18
Mar
k
Abraham
Improve swap
c
oo
r
d
s sess
i
o
n
l
ifetime management
commit
|
commitdiff
|
tree
2019-04-17
Mar
k
Abr
a
ham
Fi
x
po
s
t
-
submit
commit
|
commitdiff
|
tree
2019-04-16
Mar
k
Abraham
Removed
m
drun -g
c
om
commit
|
commitdiff
|
tree
2019-04-13
Mar
k
Abra
h
a
m
Fix self-consisten
c
y
t
e
sts o
f
hwl
o
c data st
r
u
c
ture
s
commit
|
commitdiff
|
tree
2019-04-12
Mark Ab
r
aham
Improve warning
m
e
s
sages
ab
o
ut duplica
t
e defi
n
iti
o
ns
commit
|
commitdiff
|
tree
2019-04-10
Mark Abraha
m
Start mak
i
n
g
I
M
D
a
nd
s
wap model IMDModule
commit
|
commitdiff
|
tree
2019-04-10
M
a
r
k A
b
r
a
ham
R
e
use rvecs_
d
iffer in Inter
a
ctive
M
D modu
l
e
commit
|
commitdiff
|
tree
2019-04-10
M
a
rk Abraham
Make ImdSession into a Pimp
l
-
ed
class
with factory
.
.
.
commit
|
commitdiff
|
tree
2019-04-10
Mark
A
b
r
aham
Reform
IMD module
commit
|
commitdiff
|
tree
2019-04-09
Mark Abraham
Fix
t
y
p
o in AVX512 detection
code
commit
|
commitdiff
|
tree
2019-04-03
Mark
A
b
r
aham
Initial deact
i
v
at
i
on of gr
o
up scheme
.
commit
|
commitdiff
|
tree
2019-04-01
Mark Abr
a
ham
Move
MDModule
s
initi
a
l
i
zation e
a
rlier
commit
|
commitdiff
|
tree
2019-04-01
Mark
A
b
r
a
ham
M
ove
e
nerdata
o
wnership to mdrunner
commit
|
commitdiff
|
tree
2019-03-28
Mark Ab
r
aham
Move
D
omdecOptions
i
n
to it
s
own he
a
der
commit
|
commitdiff
|
tree
2019-03-25
Mark Ab
r
aham
Support A
r
rayRef of En
u
m
e
ra
t
ionArray
commit
|
commitdiff
|
tree
2019-03-25
Mark Abraham
C
o
nvert gmx
d
ump to
modul
e
commit
|
commitdiff
|
tree
2019-03-20
M
ark Abraham
Clean
u
p
m
drun help description
commit
|
commitdiff
|
tree
2019-03-20
Mar
k
Abraham
I
m
prove mi
m
ic
m
od
u
l
e
commit
|
commitdiff
|
tree
2019-03-19
Mark Abraham
Add suppor
t
for serial
i
zing 32-bit integers
commit
|
commitdiff
|
tree
2019-03-19
Mark Abraham
Fix clan
g
warning
commit
|
commitdiff
|
tree
2019-03-19
Mark Abraham
Update ElectricFie
l
d modu
l
e
commit
|
commitdiff
|
tree
2019-03-19
Mark
A
b
ra
h
am
Prevented
F
FTW
bui
l
d
e
rrors w
i
th clang and
AVX-512
commit
|
commitdiff
|
tree
2019-03-13
Ma
r
k
Abraham
P
r
ovide reminde
r
of
which nvcc i
s
i
n use
commit
|
commitdiff
|
tree
2019-03-12
Mark Ab
r
aham
Fi
x
memory leak
commit
|
commitdiff
|
tree
2019-03-07
Mark Abr
a
h
a
m
E
l
iminate mdlib/
m
drun
.
h
commit
|
commitdiff
|
tree
2019-03-07
Mark Ab
r
a
h
a
m
R
emove i
n
effective code for writin
g
more TE
R
fields
.
.
.
commit
|
commitdiff
|
tree
2019-03-07
Mark Abraham
New tests for pdb2gmx and editconf
commit
|
commitdiff
|
tree
2019-03-06
Mark Abraham
Clean
u
p use o
f
lo
o
p indices
commit
|
commitdiff
|
tree
2019-03-06
Mar
k
Abraham
Re
v
ert "Elimin
a
te mdlib
/
mdrun
.
h"
commit
|
commitdiff
|
tree
2019-03-06
Mark Abraham
Eliminate mdl
i
b/mdrun
.
h
commit
|
commitdiff
|
tree
2019-03-06
M
ark Abraha
m
Minor modernization in gmx_dump
commit
|
commitdiff
|
tree
2019-03-05
Mark Abraham
Make pdb2gmx tests
r
un in Je
n
kins
commit
|
commitdiff
|
tree
2019-03-02
Mark Abraham
Mer
g
e branch release
-
2019
commit
|
commitdiff
|
tree
2019-03-02
Ma
r
k Abraham
Remove defunct mdrun options
commit
|
commitdiff
|
tree
2019-02-27
Mark Abraham
Keep n
i
che CMake variables as advanced
commit
|
commitdiff
|
tree
2019-02-27
Mark Abraham
Rem
o
ve min
o
r broken functionality in gmx bar
commit
|
commitdiff
|
tree
2019-02-26
Mark Abraham
Add new
line
to
trjconv notice to users
commit
|
commitdiff
|
tree
2019-02-25
Mark Abraham
Mo
v
e
c
od
e
out of s
i
m
_util
.
cpp
commit
|
commitdiff
|
tree
2019-02-25
M
a
rk Abraham
De-duplic
a
te gm
x
_tmp
n
a
m
and gm
x
_
fope
n
_temporary
commit
|
commitdiff
|
tree
2019-02-15
Mark
Abra
h
am
Impro
v
ed di
a
gnostics whe
n
PME cannot r
u
n on GPUs
commit
|
commitdiff
|
tree
2019-02-14
M
ark Abr
a
ham
Fix u
s
e of sele
c
ti
o
ns referr
i
ng to ind
e
x gr
o
up
s
commit
|
commitdiff
|
tree
2019-02-14
M
a
rk
A
br
a
ham
Revert changes to implementa
t
i
o
n of ins
e
rt-m
o
lec
u
les
.
.
.
commit
|
commitdiff
|
tree
2019-02-13
M
a
rk Abraham
Im
p
r
ov
e
d electric-field do
c
s
commit
|
commitdiff
|
tree
2019-02-13
M
a
rk Abraham
M
ake E
n
ergyOutput wrapper class
commit
|
commitdiff
|
tree
2019-02-13
Ma
r
k
Abrah
a
m
Reduc
e
coupling to paddedvector
.
h
commit
|
commitdiff
|
tree
2019-02-12
M
ark
Abraham
Qu
i
et clan
g
warn
i
ng
commit
|
commitdiff
|
tree
2019-02-12
Mark Abraham
Rem
o
ve
g
mx::Regex
commit
|
commitdiff
|
tree
2019-02-08
Mark Abraham
Fix Int
e
l compiler w
a
rn
i
ng
commit
|
commitdiff
|
tree
2019-02-08
Mark Ab
r
aham
Remove
copy_energy
from energy-wr
i
ting steps
commit
|
commitdiff
|
tree
2019-02-08
M
a
rk Ab
r
aham
Reform energy output
t
ests
commit
|
commitdiff
|
tree
2019-02-04
M
ark Ab
r
aham
Remove SIMD su
p
port from group scheme
commit
|
commitdiff
|
tree
2019-01-30
Mark Abraham
Merg
e
remote branch releas
e
-2018 into release-2
0
19
commit
|
commitdiff
|
tree
2019-01-30
Ma
r
k Abraham
Fix re
l
ease no
t
es issue li
n
k
s
commit
|
commitdiff
|
tree
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