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Added additional constructor to StringStream class for convenience.
2015-08-28
D
avid van der Spoel
A
dded additional c
o
nstruct
o
r to
S
tringStream cl
a
ss
.
.
.
commit
|
commitdiff
|
tree
2015-08-03
David van d
e
r Spoel
Made outpu
t
from dumping nei
g
htborli
s
ts ea
s
ie
r
to
read
.
commit
|
commitdiff
|
tree
2015-07-31
David va
n
d
er Spoel
Change initial p
a
rameters
for te
s
ting expfit
.
commit
|
commitdiff
|
tree
2015-07-29
David van
d
er Sp
o
e
l
Co
d
e f
o
r
c
hecking
x
v
g
files in testu
t
ils
.
commit
|
commitdiff
|
tree
2015-04-17
Davi
d
van der Sp
o
el
Updated exponential fitti
n
g
t
o make i
t
robust
.
commit
|
commitdiff
|
tree
2015-04-09
D
a
vi
d
van der
Spoel
Clarified comments for t
i
me-dependent el
e
ctric fields
.
commit
|
commitdiff
|
tree
2015-04-08
David
v
an d
e
r Spoel
Fix
e
d
incorrect output of gb_algorith as sa
_
algorithm
.
commit
|
commitdiff
|
tree
2015-03-02
Dav
i
d v
a
n der Spoel
Updated documentat
i
on for ele
c
tric fie
l
ds
.
commit
|
commitdiff
|
tree
2014-12-13
David van de
r
Spoel
Four new
quote
s
from around the world
.
commit
|
commitdiff
|
tree
2014-11-28
David van de
r
Spoel
Fi
x
es recently introduced bug i
n
g
m
x analyze
.
commit
|
commitdiff
|
tree
2014-11-24
Da
v
id van
d
er Sp
o
e
l
Added warn
i
ngs for ewald-geo
m
et
r
y and surface-epsilo
n
commit
|
commitdiff
|
tree
2014-10-28
D
a
vid van der
S
poel
E
v
e
n mo
r
e
refreshin
g
quotes
.
commit
|
commitdiff
|
tree
2014-10-14
D
avid van d
e
r Spoe
l
R
eorganizing analysis
o
f correlation functio
n
s
.
commit
|
commitdiff
|
tree
2014-09-23
David van d
e
r
S
poel
F
i
xes po
t
en
t
ial bug in neighb
o
rsearching
.
commit
|
commitdiff
|
tree
2014-09-17
David van der Spoel
Mer
g
e
r
e
le
a
se-
5
-0 into master
commit
|
commitdiff
|
tree
2014-09-10
David van der Sp
o
el
Remove
.
t
pa,
.
tpb,
.
tpx,
.
trj files
.
Pa
r
t of #1
5
00
.
commit
|
commitdiff
|
tree
2014-08-30
David van
der
Spoel
Fixes issue with vsiten and ver
l
et
b
u
ffers
.
commit
|
commitdiff
|
tree
2014-07-05
David van der S
p
o
el
Fixed inconsistency in
blocka handling
.
commit
|
commitdiff
|
tree
2014-06-29
David
van
d
er Spo
e
l
Fixes
#
1532, SEGV in g_
c
urre
n
t
.
commit
|
commitdiff
|
tree
2014-06-25
D
a
vid van
d
er S
p
oel
Ad
d
e
d check for
doma
i
n
decomposition a
n
d s
h
e
ll
s
.
commit
|
commitdiff
|
tree
2014-06-24
David van de
r
Spoel
Added
c
heck in
g
r
o
mpp for shells a
n
d
i
n
putrec issues
.
commit
|
commitdiff
|
tree
2014-06-22
Davi
d
v
a
n
der Spoel
I
mplem
e
n
ted fatal error
f
or n
s
tcal
c
energy!=1 with she
l
l
s
.
commit
|
commitdiff
|
tree
2014-06-13
David van der Spoel
Fix memor
y
-usage er
r
or in g_chi
commit
|
commitdiff
|
tree
2014-06-11
Dav
i
d van d
e
r Spoel
Fixes bug
where -e and -dt flags
d
id
n
o
t wor
k
anymore
.
commit
|
commitdiff
|
tree
2014-06-07
D
a
vid va
n
der
S
poel
Merge "Merge re
l
ease-5-
0
into master"
commit
|
commitdiff
|
tree
2014-06-07
Dav
i
d van der
S
poel
Merge rele
a
se-5-0 into master
commit
|
commitdiff
|
tree
2014-06-02
D
avid van der
S
poel
Fixed wrong
journal reference in manual
commit
|
commitdiff
|
tree
2014-05-31
David v
a
n der Spoel
P
e
rmit tr
j
conv to read
an
d
write velo
c
ities wi
t
h
TNG
.
.
.
commit
|
commitdiff
|
tree
2014-05-16
Da
v
i
d
v
a
n der Spoe
l
Fixes a
com
p
lica
t
ed bug in g_anaeig
.
commit
|
commitdiff
|
tree
2014-05-15
David van de
r
Spoel
Added cmake profiling supp
o
rt
commit
|
commitdiff
|
tree
2014-04-02
Da
v
id va
n
d
e
r Spoel
Removed possib
i
lity of compiling
w
ith GSL
.
commit
|
commitdiff
|
tree
2014-03-31
D
a
vi
d
van der Spoel
Fixed
c
omp
i
l
at
i
on
i
ssue in
f
gr
i
d
.
cpp du
e
to int/en
u
m
commit
|
commitdiff
|
tree
2014-03-06
D
a
vid
v
an
d
e
r Spo
e
l
Six ne
w
quotes from classic litera
t
ure
.
commit
|
commitdiff
|
tree
2014-02-11
Da
v
i
d
v
a
n
de
r
Spoel
Fixe
d
another
v
m
dio issue
.
commit
|
commitdiff
|
tree
2014-02-10
David van der S
p
oel
M
oved condi
t
i
onal cmak
e
c
o
d
e
for vmdio
.
commit
|
commitdiff
|
tree
2014-01-28
Da
v
id van der Spoel
Moved r
a
ndom number
g
e
n
er
a
tor code to
separate dir
.
commit
|
commitdiff
|
tree
2014-01-18
David van der Sp
o
el
This patch mo
v
es the statistics library to
i
ts o
w
n
.
.
.
commit
|
commitdiff
|
tree
2014-01-17
D
a
v
id van
der Spoel
This pa
t
ch move
s
preprocessing headers to
gmxpreproce
s
s
commit
|
commitdiff
|
tree
2014-01-15
D
a
v
i
d van der Spoel
T
his
p
atch moves the nr
a
ma
.
[ch] to the gmxana dir
.
commit
|
commitdiff
|
tree
2014-01-13
D
avid
v
a
n der S
p
oel
Cleaned up
l
ist of G
R
OMACS
a
uthors
commit
|
commitdiff
|
tree
2014-01-09
Dav
i
d
v
an der Sp
o
el
Fixed prec
i
s
ion
i
n thermal
e
x
pansion coefficient calc
.
commit
|
commitdiff
|
tree
2013-12-23
D
a
vid
v
an der Spoel
Fixed compilat
i
on issue due
t
o
gcc4
.
8
commit
|
commitdiff
|
tree
2013-12-21
D
avid van der Spoel
More Nobel quote
s
and
o
t
hers
commit
|
commitdiff
|
tree
2013-11-07
David van der
Spoel
12 new quotes
commit
|
commitdiff
|
tree
2013-09-30
D
a
vid van
d
er S
p
oel
Change name of gmxdump t
o
dump and gmxc
h
eck
t
o check
commit
|
commitdiff
|
tree
2013-09-29
David van der
S
p
oel
Fixes bug in p
r
ocessing v
i
rtu
a
l_site
s
n in grompp
.
commit
|
commitdiff
|
tree
2013-09-26
David van der S
p
oel
Made MW of th
e
Vsite particle
t
y
pe
.
commit
|
commitdiff
|
tree
2013-09-21
David van der S
p
oel
Mov
e
d ngmx to C
+
+
, rename
d
it to view
.
commit
|
commitdiff
|
tree
2013-08-30
David van d
e
r S
p
oel
Up
d
ated g_cluster
commit
|
commitdiff
|
tree
2013-07-24
David va
n
der Spoel
Fixes #1312 u
n
ini
t
i
a
lized error i
n
g_e
n
em
a
t
.
commit
|
commitdiff
|
tree
2013-07-17
Davi
d
v
a
n der Spoel
Adde
d
citatio
n
to free volume paper
.
commit
|
commitdiff
|
tree
2013-06-14
D
avid van
d
er Spoel
N
ew analysis tool
to co
m
pute the free vol
u
me and total
.
.
.
commit
|
commitdiff
|
tree
2013-05-30
David van der
S
poel
Fixes #1194 e
r
r
o
r r
e
ading 4
.
5
.
5 tpr files with dihr
e
s
commit
|
commitdiff
|
tree
2013-05-16
David van der Spoel
Fixed t
w
o compilatio
n
i
s
s
u
e
s
.
commit
|
commitdiff
|
tree
2013-05-02
D
a
vid v
a
n de
r
Sp
o
e
l
Fixe
s
#
1
238 g_hydorder d
o
es n
o
t c
a
ll set_pbc
.
commit
|
commitdiff
|
tree
2013-05-01
Da
v
i
d van d
e
r Spoe
l
Merg
e
"U
p
date
d
source for Van der Wa
a
ls
r
a
dii
.
"
commit
|
commitdiff
|
tree
2013-04-25
Da
v
i
d van d
e
r
Spo
e
l
Upd
a
ted source for Van
der Waals radii
.
commit
|
commitdiff
|
tree
2013-03-07
David van de
r
Spoel
Fixes
#1183
P
B
C
bug in g_m
i
n
dist
commit
|
commitdiff
|
tree
2013-02-13
David van der Spoel
Pl
a
in text
quotes
.
commit
|
commitdiff
|
tree
2013-01-11
David van der Spoel
Fixes #994 confusion i
n
atomprop
.
commit
|
commitdiff
|
tree
2012-11-26
D
a
vid van
der Spoel
F
ixes #1
0
35 N
a
N i
n
g_clus
t
e
r
o
ut
p
ut
.
commit
|
commitdiff
|
tree
2012-11-20
David van der S
p
oel
Fix
e
s bug in g_h
b
ond tha
t
makes it p
r
oduce fatal
error
.
commit
|
commitdiff
|
tree
2012-11-12
Dav
i
d van der Spoel
Fixes #1020 opt
i
ons i
n
g
_enemat
commit
|
commitdiff
|
tree
2012-10-21
Da
v
id
v
an de
r
Spo
e
l
Fixed
B
u
g #59
3
a
b
o
ut memory hole
i
n t
r
jcat
.
commit
|
commitdiff
|
tree
2012-10-04
David van der Spoel
Set r
e
tur
n
v
alue
t
o FAL
S
E (0) i
n
esti
m
a
te
_
dt in lib
x
drf
.
c
commit
|
commitdiff
|
tree
2012-09-15
D
a
vid van der S
p
o
e
l
Me
r
ge "Ad
a
pted NM
R
relate
d
data to new p
d
b
format
.
.
.
.
commit
|
commitdiff
|
tree
2012-09-07
Dav
i
d van de
r
S
p
o
el
Adapted NMR re
l
a
t
ed da
t
a
t
o new pdb f
o
r
m
at
.
commit
|
commitdiff
|
tree
2012-09-04
David van der Spoel
Made tutori
a
l
slig
h
t
l
y less confu
s
in
g
.
commit
|
commitdiff
|
tree
2012-08-16
David van der Spoel
Optional computation of fluct
.
props in g_energy
.
Fi
x
es
.
.
.
commit
|
commitdiff
|
tree
2012-06-30
David van
der Spoel
F
i
xed bu
g
in
f
ree energy calculation for Morse potent
i
als
commit
|
commitdiff
|
tree
2012-06-21
David
van der
S
poel
Fixes #961 - Shake reports wrong erro
r
commit
|
commitdiff
|
tree
2012-06-16
David van
d
er Sp
o
el
Fixes #882
-
looping bug in trx
i
o
.
c
commit
|
commitdiff
|
tree
2012-03-17
Da
v
id van
der Spo
e
l
Rem
o
v
e
d
qhop files from this branch
.
commit
|
commitdiff
|
tree
2012-03-10
Dav
i
d
van der Spoel
V
i
bration spectra from velocity ACF
o
r
Normal m
o
des
.
commit
|
commitdiff
|
tree
2012-01-31
David v
a
n
der Spoel
Changed order of
p
arameters in
top fil
e
commit
|
commitdiff
|
tree
2012-01-25
Da
v
id
van de
r
Spoel
A
dd
e
d
t
wo new bond
e
d functions
.
commit
|
commitdiff
|
tree
2012-01-17
David van
d
er Spoel
R
eplace stderr b
y
s
td
o
u
t in ed
i
tconf
te
r
minal output
.
.
.
commit
|
commitdiff
|
tree
2012-01-04
David van de
r
Spoe
l
Introduce
d
fatal
e
rror in grompp f
o
r
i
ncorrect use
.
.
.
commit
|
commitdiff
|
tree
2011-09-21
David van der
S
poe
l
C
ommented ou
t
part
o
f th
i
s n
e
w
program
t
h
at
was not
.
.
.
commit
|
commitdiff
|
tree
2011-09-21
David van der
S
po
e
l
Fixed docume
n
t
atio
n
i
ssue described in
redmine issue
.
.
.
commit
|
commitdiff
|
tree
2011-09-21
David van der S
p
o
el
Fixed documentation is
s
ue described in red
m
ine iss
u
e
.
.
.
commit
|
commitdiff
|
tree
2011-09-19
David va
n
der Spo
e
l
Fixed c
o
mpi
l
a
t
i
on issues
commit
|
commitdiff
|
tree
2011-09-19
David van der Spoel
Resolved ger
r
it issue ht
t
ps://gerrit
.
gromacs
.
org/#chang
e
,126
commit
|
commitdiff
|
tree
2011-05-23
David van der Sp
o
e
l
Re-
i
mplemented t
h
e flu
c
t
uati
o
n analysis,
b
as
e
d on Enthalpy
.
.
.
commit
|
commitdiff
|
tree
2011-05-23
D
a
vid van der Spoel
Re-i
m
plemented the fluct
u
a
t
io
n
analysis,
based on
E
nthal
p
y
.
.
.
commit
|
commitdiff
|
tree
2011-04-10
David va
n
der Sp
o
e
l
Merge branch 'r
e
l
e
a
s
e-4
-
5
-patches' of git
.
gromacs
.
org
.
.
.
commit
|
commitdiff
|
tree
2011-04-10
D
avid v
a
n der Spoe
l
Added
g
_
hydorder
.
1 man page
.
commit
|
commitdiff
|
tree
2011-04-06
David van der
S
poel
F
ixed he
a
d
e
r fo
r
gmx_conect
_
init
commit
|
commitdiff
|
tree
2011-04-06
Da
v
id
v
an
der Spoe
l
Fixed header for gmx_conect_in
i
t
commit
|
commitdiff
|
tree
2011-04-04
David van der Spoel
New entry
commit
|
commitdiff
|
tree
2011-01-22
David van
der Sp
o
el
F
i
x
e
d b
u
g 678
w
hich was d
u
e
t
o calli
n
g gmx_f
a
t
a
l
without
.
.
.
commit
|
commitdiff
|
tree
2011-01-22
D
a
vid van der S
p
oel
Fixed bug 678 wh
i
ch was due to calling gmx_f
a
tal without
.
.
.
commit
|
commitdiff
|
tree
2010-12-23
D
a
vid v
a
n der
Spo
e
l
Merge
branch 'release-4
-
5-
p
atches'
commit
|
commitdiff
|
tree
2010-12-23
D
a
vid van der Spoel
Fixed
b
ug in statistics which did no
t
a
l
low fit
t
ing
.
.
.
commit
|
commitdiff
|
tree
2010-12-11
David van
der Spoel
Merge br
a
nch 'rel
e
as
e
-4-5-patches'
commit
|
commitdiff
|
tree
2010-12-11
D
a
v
id v
a
n der
Spoel
M
erge branch 'release-4-5-p
a
t
ches
'
of gi
t
.
g
r
omacs
.
o
r
g
.
.
.
commit
|
commitdiff
|
tree
2010-12-11
D
a
vid v
a
n
de
r
Spoel
Merge branch 'master' of git
.
gromacs
.
org:gromacs
commit
|
commitdiff
|
tree
2010-12-11
David van der Spoel
M
e
rge branch 'relea
s
e-4-5-patches'
commit
|
commitdiff
|
tree
2010-12-11
D
a
v
i
d
v
a
n
der Spoel
Added 1 quote
.
commit
|
commitdiff
|
tree
2010-11-28
Da
v
id van de
r
Spoel
M
e
rge branch
'
relea
s
e-4-
5
-patches'
commit
|
commitdiff
|
tree
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