Moved AMOEBA reference code into OpenMM namespace

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceAngleForce.cpp

@@ -26,7 +26,7 @@
 #include "AmoebaReferenceAngleForce.h"
 
 using std::vector;
-using OpenMM::RealVec;
+using namespace OpenMM;
 
 /**---------------------------------------------------------------------------------------
 

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceAngleForce.h

@@ -28,7 +28,7 @@
 #include "RealVec.h"
 #include <vector>
 
-// ---------------------------------------------------------------------------------------
+namespace OpenMM {
 
 class AmoebaReferenceAngleForce {
 
@@ -137,6 +137,6 @@ private:
          
 };
 
-// ---------------------------------------------------------------------------------------
+} // namespace OpenMM
 
 #endif // _AmoebaReferenceAngleForce___

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceBondForce.cpp

@@ -26,7 +26,7 @@
 #include "AmoebaReferenceForce.h"
 
 using std::vector;
-using OpenMM::RealVec;
+using namespace OpenMM;
 
 /**---------------------------------------------------------------------------------------
 

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceBondForce.h

@@ -28,7 +28,7 @@
 #include "RealVec.h"
 #include <vector>
 
-// ---------------------------------------------------------------------------------------
+namespace OpenMM {
 
 class AmoebaReferenceBondForce {
 
@@ -102,6 +102,6 @@ private:
      
 };
 
-// ---------------------------------------------------------------------------------------
+} // namespace OpenMM
 
 #endif // _AmoebaReferenceBondForce___

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceForce.cpp

@@ -25,7 +25,7 @@
 #include "AmoebaReferenceForce.h"
 #include <vector>
 
-using OpenMM::RealVec;
+using namespace OpenMM;
 
 /**---------------------------------------------------------------------------------------
 

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceForce.h

@@ -29,7 +29,7 @@
 #include "openmm/Vec3.h"
 #include <vector>
 
-// ---------------------------------------------------------------------------------------
+namespace OpenMM {
 
 class AmoebaReferenceForce {
 
@@ -137,6 +137,6 @@ public:
 
 };
 
-// ---------------------------------------------------------------------------------------
+} // namespace OpenMM
 
 #endif // _AmoebaReferenceForce___

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceGeneralizedKirkwoodForce.cpp

@@ -24,7 +24,7 @@
 #include "AmoebaReferenceGeneralizedKirkwoodForce.h"
 
 using std::vector;
-using OpenMM::RealVec;
+using namespace OpenMM;
 
 AmoebaReferenceGeneralizedKirkwoodForce::AmoebaReferenceGeneralizedKirkwoodForce( ) : _numParticles(0),
                                                                                       _includeCavityTerm(1),

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceGeneralizedKirkwoodForce.h

@@ -31,7 +31,7 @@
 using namespace OpenMM;
 using namespace std;
 
-// ---------------------------------------------------------------------------------------
+namespace OpenMM {
 
 class AmoebaReferenceGeneralizedKirkwoodForce {
 
@@ -251,4 +251,6 @@ private:
 
 };
 
+} // namespace OpenMM
+
 #endif // _AmoebaReferenceGeneralizedKirkwoodForce___

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceInPlaneAngleForce.cpp

@@ -26,7 +26,7 @@
 #include "AmoebaReferenceInPlaneAngleForce.h"
 
 using std::vector;
-using OpenMM::RealVec;
+using namespace OpenMM;
 
 /**---------------------------------------------------------------------------------------
 

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceInPlaneAngleForce.h

@@ -28,7 +28,7 @@
 #include "RealVec.h"
 #include <vector>
 
-// ---------------------------------------------------------------------------------------
+namespace OpenMM {
 
 class AmoebaReferenceInPlaneAngleForce {
 
@@ -140,6 +140,6 @@ private:
          
 };
 
-// ---------------------------------------------------------------------------------------
+} // namespace OpenMM
 
 #endif // _AmoebaReferenceInPlaneAngleForce___

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceMultipoleForce.cpp

@@ -31,7 +31,7 @@
 #include "openmm/internal/MSVC_erfc.h"
 
 using std::vector;
-using OpenMM::RealVec;
+using namespace OpenMM;
 
 #undef AMOEBA_DEBUG
 

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceMultipoleForce.h

@@ -31,6 +31,8 @@
 #include "fftpack.h"
 #include <complex>
 
+namespace OpenMM {
+
 typedef std::map< unsigned int, RealOpenMM> MapIntRealOpenMM;
 typedef MapIntRealOpenMM::iterator MapIntRealOpenMMI;
 typedef MapIntRealOpenMM::const_iterator MapIntRealOpenMMCI;
@@ -1664,4 +1666,6 @@ private:
 
 };
 
+} // namespace OpenMM
+
 #endif // _AmoebaReferenceMultipoleForce___

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceOutOfPlaneBendForce.cpp

@@ -26,7 +26,7 @@
 #include "AmoebaReferenceOutOfPlaneBendForce.h"
 
 using std::vector;
-using OpenMM::RealVec;
+using namespace OpenMM;
 
 /**---------------------------------------------------------------------------------------
 

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceOutOfPlaneBendForce.h

@@ -28,7 +28,7 @@
 #include "RealVec.h"
 #include <vector>
 
-// ---------------------------------------------------------------------------------------
+namespace OpenMM {
 
 class AmoebaReferenceOutOfPlaneBendForce {
 
@@ -114,6 +114,6 @@ private:
          
 };
 
-// ---------------------------------------------------------------------------------------
+} // namespace OpenMM
 
 #endif // _AmoebaReferenceOutOfPlaneBendForce___

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferencePiTorsionForce.cpp

@@ -27,7 +27,7 @@
 #include <vector>
 
 using std::vector;
-using OpenMM::RealVec;
+using namespace OpenMM;
 
 /**---------------------------------------------------------------------------------------
 

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferencePiTorsionForce.h

@@ -28,7 +28,7 @@
 #include "RealVec.h"
 #include <vector>
 
-// ---------------------------------------------------------------------------------------
+namespace OpenMM {
 
 class AmoebaReferencePiTorsionForce {
 
@@ -109,6 +109,6 @@ private:
          
 };
 
-// ---------------------------------------------------------------------------------------
+} // namespace OpenMM
 
 #endif // _AmoebaReferencePiTorsionForce___

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceStretchBendForce.cpp

@@ -27,7 +27,7 @@
 #include <vector>
 
 using std::vector;
-using OpenMM::RealVec;
+using namespace OpenMM;
 
 /**---------------------------------------------------------------------------------------
 

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceStretchBendForce.h

@@ -28,7 +28,7 @@
 #include "RealVec.h"
 #include <vector>
 
-// ---------------------------------------------------------------------------------------
+namespace OpenMM {
 
 class AmoebaReferenceStretchBendForce {
 
@@ -110,6 +110,6 @@ private:
  
 };
 
-// ---------------------------------------------------------------------------------------
+} // namespace OpenMM
 
 #endif // _AmoebaReferenceStretchBendForce___

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceTorsionTorsionForce.cpp

@@ -26,7 +26,7 @@
 #include "AmoebaReferenceTorsionTorsionForce.h"
 
 using std::vector;
-using OpenMM::RealVec;
+using namespace OpenMM;
 
 /**---------------------------------------------------------------------------------------
 

plugins/amoeba/platforms/reference/src/SimTKReference/AmoebaReferenceTorsionTorsionForce.h

@@ -28,7 +28,7 @@
 #include "RealVec.h"
 #include <vector>
 
-// ---------------------------------------------------------------------------------------
+namespace OpenMM {
 
 class AmoebaReferenceTorsionTorsionForce {
 
@@ -212,6 +212,6 @@ private:
          
 };
 
-// ---------------------------------------------------------------------------------------
+} // namespace OpenMM
 
 #endif // _AmoebaReferenceTorsionTorsionForce___