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Cmake now honors CFLAGS/CXXFLAGS as much as it can.
2010-08-11
Sander Pronk
Cmake now ho
n
ors CFLAGS/
C
X
X
FL
A
GS as mu
c
h as it can
.
commit
|
commitdiff
|
tree
2010-08-09
S
an
d
er Pr
o
nk
Small fix
t
o
d
eal wit
h
possible overflows in d
h
b
innin
g
.
commit
|
commitdiff
|
tree
2010-08-09
S
a
nder Pr
o
nk
N
o
w correctly checkpoint
s
on dhdl histograms/li
s
ts
.
.
.
commit
|
commitdiff
|
tree
2010-08-06
San
d
er
P
r
o
nk
BAR calculatio
n
s can now
s
tore en
e
rgy his
t
ograms in
.
.
.
commit
|
commitdiff
|
tree
2010-08-02
Sander Pro
n
k
Added an u
n
install targe
t
to CMake builds
.
commit
|
commitdiff
|
tree
2010-08-02
Sander
Pronk
Added missing
.
h
file
.
commit
|
commitdiff
|
tree
2010-08-02
Sander Pron
k
Fixed
s
hared library build
b
y r
e
mo
v
ing
refer
e
nces to
.
.
.
commit
|
commitdiff
|
tree
2010-07-30
Sa
n
der Pronk
More
o
nerou
s
locking of open_fi
l
es in gmx_fio
.
commit
|
commitdiff
|
tree
2010-07-30
Sander Pronk
F
i
x
ed ffclose bug in futil
.
c,
gmx_fio
_
close now check
s
.
.
.
commit
|
commitdiff
|
tree
2010-07-30
Sa
n
d
er Pronk
Merge bra
n
ch 'mast
e
r
' of g
i
t
.
gromacs
.
o
rg:grom
a
cs
commit
|
commitdiff
|
tree
2010-07-30
S
ander Pronk
Fixed a potential mutex
p
roblem in gmx_fi
o
.
c
commit
|
commitdiff
|
tree
2010-07-29
Sander Pronk
.
e
d
r bl
o
ck gmxdum
p
fixes
.
commit
|
commitdiff
|
tree
2010-07-27
Sander
Pronk
Re-added sch
e
d
.
h defi
n
e i
n
config
.
h
.
c
m
akein
.
commit
|
commitdiff
|
tree
2010-07-26
Sande
r
Pronk
Merge
branch 'master
'
of git
.
gromacs
.
org:gromacs
commit
|
commitdiff
|
tree
2010-07-26
Sander Pron
k
Adde
d
support for Window
s
_fs
e
eki64
.
commit
|
commitdiff
|
tree
2010-07-26
S
a
nder Pronk
Windows fixes
.
commit
|
commitdiff
|
tree
2010-07-26
S
ander Pronk
Merge branch
'
master' of git
.
groma
c
s
.
org:gromacs
commit
|
commitdiff
|
tree
2010-07-26
Sander Pr
o
nk
Fixed more thread_mpi i
n
stallation i
s
sues
.
commit
|
commitdiff
|
tree
2010-07-26
S
and
e
r Pronk
Merge branch
'master' of g
i
t
.
g
r
omacs
.
org:
g
romacs
commit
|
commitdiff
|
tree
2010-07-26
Sand
e
r Pronk
Fix
e
d
t
hre
a
d_mpi distribu
t
i
on
i
ssues
.
commit
|
commitdiff
|
tree
2010-07-26
San
d
er Pronk
Merg
e
branch 'master' of g
i
t
.
gro
m
acs
.
org:gro
m
a
c
s
commit
|
commitdiff
|
tree
2010-07-26
Sa
n
d
er Pro
n
k
Fix
e
d fault
y
commit
.
commit
|
commitdiff
|
tree
2010-07-26
S
a
nde
r
P
ronk
Removed
redundant h
e
ad
e
r
files from thread
_
mpi
.
commit
|
commitdiff
|
tree
2010-07-25
Sander P
r
on
k
Remove
d
e
xtrane
o
us a
r
gument from
f
i
l
ter_ter()
.
commit
|
commitdiff
|
tree
2010-07-24
Sand
e
r
Pronk
New
.
edr file format: now
s
upports
b
l
ocks of a
r
bitra
r
y
.
.
.
commit
|
commitdiff
|
tree
2010-07-22
Sander Pronk
Smal
l
bugf
i
x for previous commit
.
commit
|
commitdiff
|
tree
2010-07-22
S
a
nder Pronk
Se
r
ialized access
to FORTRAN bindings of gromacs's
.
.
.
commit
|
commitdiff
|
tree
2010-07-22
S
a
n
d
er
Pronk
Ove
r
linking issues with 3
d
party tools fixe
d
for autot
o
ols
.
commit
|
commitdiff
|
tree
2010-07-21
Sander Pronk
Removed reference
to orig
.
h in thread_mpi Mak
e
file
.
am
commit
|
commitdiff
|
tree
2010-07-21
Sander Pronk
thre
a
d_mpi header files a
r
e n
o
w
i
n sync w
i
th source
.
.
.
commit
|
commitdiff
|
tree
2010-07-20
Sande
r
P
r
o
nk
Small C syn
t
ax f
i
x
.
commit
|
commitdiff
|
tree
2010-07-06
Sander Pron
k
Min
o
r Windows thread fixes
.
commit
|
commitdiff
|
tree
2010-07-05
Sander P
r
onk
Added option to ingore fsync
f
ailu
r
es
.
commit
|
commitdiff
|
tree
2010-07-05
Sander Pronk
Mo
r
e thread
_
mpi fixes
.
commit
|
commitdiff
|
tree
2010-07-05
Sa
n
der Pr
o
n
k
Added
m
i
s
s
i
ng
inc
l
ude f
i
les in threa
d
_mpi
commit
|
commitdiff
|
tree
2010-07-05
S
a
n
d
er
P
ronk
Fixed thread_mpi header installs
.
commit
|
commitdiff
|
tree
2010-07-05
S
a
nd
e
r
Pronk
F
i
xed header f
i
les to be able to
link 3d pa
r
ty code
.
.
.
commit
|
commitdiff
|
tree
2010-07-02
San
d
e
r
Pro
n
k
Fixed missing pr
o
totype in genbo
r
n
.
c
commit
|
commitdiff
|
tree
2010-07-02
Sander
P
ronk
SSE fix
f
or incorrect cast; fixes
b
u
g
441
.
commit
|
commitdiff
|
tree
2010-07-02
Sander Pr
o
nk
more cflags
.
commit
|
commitdiff
|
tree
2010-07-02
Sander Pronk
more cfla
g
s
.
commit
|
commitdiff
|
tree
2010-07-01
San
d
er Pronk
Added
p
athscale cflag
s
.
commit
|
commitdiff
|
tree
2010-07-01
Sander Pronk
Automatic C
F
LAGS in
CMake for PGI, x
l
c comp
i
lers
.
commit
|
commitdiff
|
tree
2010-07-01
Sand
e
r Pronk
More
t
hread safety
f
ixes in gmxlib
.
commit
|
commitdiff
|
tree
2010-06-30
San
d
er Pro
n
k
Now sets the right
FLAGS variables
w
i
th CMake
.
commit
|
commitdiff
|
tree
2010-06-30
Sander Pronk
Streamlined CFLAGS testing in cm
a
k
e
.
commit
|
commitdiff
|
tree
2010-06-30
Sander Pronk
Added te
s
t f
o
r M
S
VC _aligned
_
malloc
.
commit
|
commitdiff
|
tree
2010-06-30
Sander Pronk
C
90 fixes in
q
m_
o
r
ca
.
c
, fi
x
ed lin
e
endings to UNIX
.
.
.
commit
|
commitdiff
|
tree
2010-06-29
Sander Pronk
Bug
f
i
x for the pr
e
vious comm
i
t
commit
|
commitdiff
|
tree
2010-06-29
San
d
er Pronk
Simpli
f
ied
al
i
g
ned ma
l
lo
c
s and fr
e
es
.
commit
|
commitdiff
|
tree
2010-06-29
Sande
r
Pronk
M
erge br
a
nch 'maste
r
' of git
.
g
r
omacs
.
org
:
g
romacs
commit
|
commitdiff
|
tree
2010-06-29
Sander
Pronk
M
ade aligned_malloc t
h
r
ead saf
e
.
commit
|
commitdiff
|
tree
2010-06-27
San
d
er Pronk
minor
t
hread mpi fix
for C
+
+
.
commit
|
commitdiff
|
tree
2010-06-24
Sander Pronk
XDR fil
e
I/O is now thread safe
.
commit
|
commitdiff
|
tree
2010-06-22
Sander
P
ro
n
k
M
o
re C90 fixes in me
m
b
e
d
.
commit
|
commitdiff
|
tree
2010-06-22
Sander Pronk
C
9
0 fixes
.
commit
|
commitdiff
|
tree
2010-06-22
Sander Pronk
v
m
dio erro
r
message fix
.
commit
|
commitdiff
|
tree
2010-06-22
Sa
n
der
P
r
o
nk
Most (if not all) file operation
s
are now thread safe
.
commit
|
commitdiff
|
tree
2010-06-15
Sander Pronk
Fixe
d
re
t
urn
va
l
ues for MPI_Co
m
m_compar
e
in thread_mpi
.
commit
|
commitdiff
|
tree
2010-06-14
Sander Pronk
Add
e
d M
P
I_Com
m
_compare() to
thread_mpi
.
commit
|
commitdiff
|
tree
2010-06-12
S
a
nder Pronk
M
o
re C90 pedantr
y
.
commit
|
commitdiff
|
tree
2010-06-11
Sander Pronk
Fixed
another
batch
o
f // comm
e
nts
.
commit
|
commitdiff
|
tree
2010-06-11
Sander
Pronk
Removed ref
e
renc
e
s to MP
I
_Wtime
(
) for when M
P
I is n
o
t
.
.
.
commit
|
commitdiff
|
tree
2010-06-11
Sander Pronk
Merge branch 'maste
r
' of git@git
.
gromacs
.
org:gromacs
commit
|
commitdiff
|
tree
2010-06-11
S
a
nder Pronk
Pointer arithmetic bug fix in mshi
f
t
.
c
commit
|
commitdiff
|
tree
2010-06-11
S
ander Pronk
F
i
xed an al
l
oc
a
tio
n
erro
r
during thread spa
w
ns
.
commit
|
commitdiff
|
tree
2010-06-11
S
a
n
der
Pronk
Auto
m
atic C flags for icc with
cmake
.
commit
|
commitdiff
|
tree
2010-06-11
Sander
P
ronk
x86 assembly
f
i
x
i
n th
r
ead sync atomics
.
commit
|
commitdiff
|
tree
2010-06-11
Sander Pronk
M
e
rge branch 'threadsp
a
wn'
commit
|
commitdiff
|
tree
2010-06-11
Sander Pro
n
k
C
leaned u
p
code
t
hat determines thread n
u
mber
.
commit
|
commitdiff
|
tree
2010-06-11
S
ander Pronk
Removed -std=gn
u
99 from CXXFL
A
GS for
C++
.
commit
|
commitdiff
|
tree
2010-06-11
Sander Pronk
Numb
e
r
o
f threads is
now also determined
by system
.
.
.
commit
|
commitdiff
|
tree
2010-06-10
Sander Pronk
cmake cou
n
terp
a
rt to D
a
vid's binary
r
e
namings
.
commit
|
commitdiff
|
tree
2010-06-09
Sander Pro
n
k
cm
a
ke bug
fixes:
now c
o
m
p
iles with cmak
e
2
.
6
.
0
.
commit
|
commitdiff
|
tree
2010-06-09
Sander Pron
k
Automatic compi
l
er flags
assembly/sse kernels with
.
.
.
commit
|
commitdiff
|
tree
2010-06-06
Sander
P
ronk
Previous chec
k
poi
n
t's won't be o
v
erwritten by newer
.
.
.
commit
|
commitdiff
|
tree
2010-06-03
Sander Pronk
Che
c
kpo
i
nting
i
s now
s
lightl
y
m
o
r
e
rel
i
a
b
l
y
d
o
ne to
.
.
.
commit
|
commitdiff
|
tree
2010-06-03
Sander Pronk
Bug fixes - now co
m
piles on
W
indow
s
.
commit
|
commitdiff
|
tree
2010-06-01
Sander Pr
o
nk
Fixed w
a
r
n
i
ngs, including some that were a
l
mo
s
t
certainly
.
.
.
commit
|
commitdiff
|
tree
2010-05-31
Sa
n
der Pronk
Remove
d
'inli
n
e'
k
e
y
word for xlc
on linu
x
a
t
om
i
c
s
.
commit
|
commitdiff
|
tree
2010-05-16
Sa
n
der
Pronk
F
ixe
d
f
u
rther bui
l
d is
s
ues
i
n gem
i
na
t
e
.
c
commit
|
commitdiff
|
tree
2010-05-14
Sande
r
Pr
o
nk
CM
a
ke f
i
xes
.
commit
|
commitdiff
|
tree
2010-05-14
Sander Pronk
Simplified
e
rror
check
f
o
r fsync()
.
commit
|
commitdiff
|
tree
2010-05-13
Sand
e
r
P
r
onk
fsync() retu
r
n value i
s
checked
.
commit
|
commitdiff
|
tree
2010-05-13
Sander Pronk
Turned off fsync for FAHC
O
RE
.
commit
|
commitdiff
|
tree
2010-05-13
Sander Pronk
Checkpoints no
w
call f
s
ync() on
a
ll open ou
t
put files
.
commit
|
commitdiff
|
tree
2010-05-12
S
ander Pr
o
nk
Merge branch 'ma
s
ter' of git
.
gromac
s
.
org:gromacs
commit
|
commitdiff
|
tree
2010-05-12
Sander P
r
on
k
N
ow does some
t
hi
n
g
u
seful with
t
he USR1 signal
.
commit
|
commitdiff
|
tree
2010-05-11
S
an
d
er
P
ronk
Merg
e
branch 'ma
s
ter' of git
.
gromacs
.
o
r
g:gro
m
a
c
s
commit
|
commitdiff
|
tree
2010-05-11
Sander P
r
o
n
k
Further change
s
to the signal ha
n
dling
.
commit
|
commitdiff
|
tree
2010-05-10
Sander
Pronk
Merge branc
h
'master' o
f
git@git
.
gromacs
.
or
g
:gromacs
commit
|
commitdiff
|
tree
2010-05-10
Sander Pronk
M
a
de gmx_tune_pme work
with
threade
d
mdrun
.
commit
|
commitdiff
|
tree
2010-05-10
Sa
n
der Pronk
openmm fi
x
f
o
r last commit
commit
|
commitdiff
|
tree
2010-05-10
Sander Pronk
Cleaned up signal
h
andling co
d
e
.
commit
|
commitdiff
|
tree
2010-05-10
Sander Pro
n
k
R
es
t
ored proper signal
ha
n
dling when PM
E
nodes are
.
.
.
commit
|
commitdiff
|
tree
2010-05-07
S
ander Pronk
Fixed an unini
t
i
a
lized variable
in pme
.
c (solve_pme
_
yzx)
.
commit
|
commitdiff
|
tree
2010-05-04
Sander Pronk
cmake equivalent to previous commit
.
commit
|
commitdiff
|
tree
2010-05-04
Sander Pronk
Added check for
n
ew comp
i
ler opt
i
on
i
n gcc 4
.
5 to control
.
.
.
commit
|
commitdiff
|
tree
2010-04-27
Sander Pronk
thread_mpi me
m
ory usage
is now l
e
ss excessive
commit
|
commitdiff
|
tree
2010-04-12
Sand
e
r Pronk
F
i
xed g_
m
sd to print results with significant digits
.
.
.
commit
|
commitdiff
|
tree
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