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tsoc
openmm
Commits
6e543d20
"vscode:/vscode.git/clone" did not exist on "8647eaadbb41587f2f52ff56af668ffb653c0467"
Commit
6e543d20
authored
Nov 25, 2009
by
Peter Eastman
Browse files
Fixed compilation errors
parent
9904545a
Changes
4
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Showing
4 changed files
with
11 additions
and
19 deletions
+11
-19
libraries/validate/include/ValidateOpenMM.h
libraries/validate/include/ValidateOpenMM.h
+4
-8
libraries/validate/src/ValidateOpenMM.cpp
libraries/validate/src/ValidateOpenMM.cpp
+2
-2
libraries/validate/src/ValidateOpenMMForces.cpp
libraries/validate/src/ValidateOpenMMForces.cpp
+5
-5
openmmapi/include/openmm/Force.h
openmmapi/include/openmm/Force.h
+0
-4
No files found.
libraries/validate/include/ValidateOpenMM.h
View file @
6e543d20
...
...
@@ -44,11 +44,7 @@
#include <sstream>
#include <typeinfo>
#ifdef _MSC_VER
#include <limits>
#define isinf !_finite
#define isnan _isnan
#endif
#include <limits>
namespace
OpenMM
{
...
...
@@ -111,14 +107,14 @@ public:
static
const
std
::
string
CUSTOM_NONBONDED_FORCE
;
/**
* Return true if input number is nan
* Return true if input number is nan
or infinity
*
* @param number number to test
*
* @return true if number is nan
* @return true if number is nan
or infinity
*/
static
int
isNan
(
double
number
);
static
int
isNan
OrInfinity
(
double
number
);
/**
* Get force name
...
...
libraries/validate/src/ValidateOpenMM.cpp
View file @
6e543d20
...
...
@@ -78,8 +78,8 @@ ValidateOpenMM::~ValidateOpenMM() {
}
int
ValidateOpenMM
::
isNan
(
double
number
){
return
isinf
(
number
)
||
isnan
(
number
)
?
1
:
0
;
int
ValidateOpenMM
::
isNan
OrInfinity
(
double
number
){
return
(
number
!=
number
||
number
==
std
::
numeric_limits
<
double
>::
infinity
()
||
number
==
-
std
::
numeric_limits
<
double
>::
infinity
()
)
?
1
:
0
;
}
FILE
*
ValidateOpenMM
::
getLog
(
void
)
const
{
...
...
libraries/validate/src/ValidateOpenMMForces.cpp
View file @
6e543d20
...
...
@@ -46,7 +46,7 @@ ForceValidationResult::ForceValidationResult( const Context& context1, const Con
_potentialEnergies
[
0
]
=
state1
.
getPotentialEnergy
();
_potentialEnergies
[
1
]
=
state2
.
getPotentialEnergy
();
if
(
ValidateOpenMM
::
isNan
(
_potentialEnergies
[
0
]
)
||
ValidateOpenMM
::
isNan
(
_potentialEnergies
[
1
]
)
){
if
(
ValidateOpenMM
::
isNan
OrInfinity
(
_potentialEnergies
[
0
]
)
||
ValidateOpenMM
::
isNan
OrInfinity
(
_potentialEnergies
[
1
]
)
){
_nansDetected
++
;
}
...
...
@@ -154,7 +154,7 @@ void ForceValidationResult::_calculateNormOfForceVector( int forceIndex ){
for
(
unsigned
int
ii
=
0
;
ii
<
_forces
[
forceIndex
].
size
();
ii
++
){
Vec3
f1
=
_forces
[
forceIndex
][
ii
];
_norms
[
forceIndex
].
push_back
(
std
::
sqrt
(
(
f1
[
0
]
*
f1
[
0
])
+
(
f1
[
1
]
*
f1
[
1
])
+
(
f1
[
2
]
*
f1
[
2
])
)
);
if
(
ValidateOpenMM
::
isNan
(
f1
[
0
]
)
||
ValidateOpenMM
::
isNan
(
f1
[
1
]
)
||
ValidateOpenMM
::
isNan
(
f1
[
2
]
)
){
if
(
ValidateOpenMM
::
isNan
OrInfinity
(
f1
[
0
]
)
||
ValidateOpenMM
::
isNan
OrInfinity
(
f1
[
1
]
)
||
ValidateOpenMM
::
isNan
OrInfinity
(
f1
[
2
]
)
){
_nansDetected
++
;
}
}
...
...
@@ -375,7 +375,7 @@ void ForceValidationResult::compareForces( double tolerance ){
clearInconsistentForceIndexList
(
);
for
(
unsigned
int
jj
=
0
;
jj
<
forces1
.
size
();
jj
++
){
if
(
ValidateOpenMM
::
isNan
(
forceNorms1
[
jj
]
)
||
ValidateOpenMM
::
isNan
(
forceNorms2
[
jj
]
)
){
if
(
ValidateOpenMM
::
isNan
OrInfinity
(
forceNorms1
[
jj
]
)
||
ValidateOpenMM
::
isNan
OrInfinity
(
forceNorms2
[
jj
]
)
){
registerInconsistentForceIndex
(
jj
);
}
else
{
double
delta
=
std
::
sqrt
(
(
forces1
[
jj
][
0
]
-
forces2
[
jj
][
0
])
*
(
forces1
[
jj
][
0
]
-
forces2
[
jj
][
0
])
+
...
...
@@ -405,7 +405,7 @@ void ForceValidationResult::compareForceNorms( double tolerance ){
clearInconsistentForceIndexList
(
);
for
(
unsigned
int
jj
=
0
;
jj
<
forceNorms0
.
size
();
jj
++
){
if
(
ValidateOpenMM
::
isNan
(
forceNorms0
[
jj
]
)
||
ValidateOpenMM
::
isNan
(
forceNorms1
[
jj
]
)
){
if
(
ValidateOpenMM
::
isNan
OrInfinity
(
forceNorms0
[
jj
]
)
||
ValidateOpenMM
::
isNan
OrInfinity
(
forceNorms1
[
jj
]
)
){
registerInconsistentForceIndex
(
jj
);
}
else
{
double
sum
=
0.5
*
(
fabs
(
forceNorms0
[
jj
]
)
+
fabs
(
forceNorms1
[
jj
]
)
);
...
...
@@ -829,7 +829,7 @@ std::string ValidateOpenMMForces::getSummary( std::vector<ForceValidationResult*
std
::
vector
<
double
>
forceNorms2
=
forceValidationResults
[
ii
]
->
getForceNorms
(
1
);
for
(
unsigned
int
kk
=
0
;
kk
<
inconsistentIndices
.
size
()
&&
kk
<
maxMissesToPrint
;
kk
++
){
int
jj
=
inconsistentIndices
[
kk
];
if
(
isNan
(
forceNorms1
[
jj
]
)
||
isNan
(
forceNorms2
[
jj
]
)
){
if
(
isNan
OrInfinity
(
forceNorms1
[
jj
]
)
||
isNan
OrInfinity
(
forceNorms2
[
jj
]
)
){
(
void
)
LOCAL_SPRINTF5
(
value
,
" nan at index %6d norms: [%12.5e %12.5e]"
,
jj
,
forceNorms1
[
jj
],
forceNorms2
[
jj
]
);
summary
<<
_getLine
(
tab
,
"Error"
,
value
);
}
else
{
...
...
openmmapi/include/openmm/Force.h
View file @
6e543d20
...
...
@@ -66,10 +66,6 @@ protected:
* The ForceImpl will be deleted automatically when the Context is deleted.
*/
virtual
ForceImpl
*
createImpl
()
=
0
;
private:
Force
&
operator
=
(
const
Force
&
rhs
);
Force
(
const
Force
&
rhs
);
};
}
// namespace OpenMM
...
...
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