Replaced lots of tabs with spaces

platforms/reference/tests/TestReferenceEwald.cpp

@@ -88,14 +88,14 @@ void testEwaldExact() {
 //   The potential energy of an ion in a crystal is 
 //   E = - (M*e^2/ 4*pi*epsilon0*a0),
 //   where 
-//   M			:	Madelung constant (dimensionless, for FCC cells such as NaCl it is 1.7476)
-//   e			:	1.6022 × 10−19 C
-//   4*pi*epsilon0	: 	1.112 × 10−10 C²/(J m)
-//   a0			:	0.282 x 10-9 m (perfect cell)
+//   M            :    Madelung constant (dimensionless, for FCC cells such as NaCl it is 1.7476)
+//   e            :    1.6022 × 10−19 C
+//   4*pi*epsilon0:     1.112 × 10−10 C²/(J m)
+//   a0           :    0.282 x 10-9 m (perfect cell)
 // 
 //   E is then the energy per pair of ions, so for our case
 //   E has to be divided by 2 (per ion), multiplied by N(avogadro), multiplied by number of particles, and divided by 1000 for kJ
-   	double exactEnergy        = - (1.7476 * 1.6022e-19 * 1.6022e-19  * 6.02214e+23 * numParticles) / (1.112e-10 * 0.282e-9 * 2 * 1000);
+    double exactEnergy        = - (1.7476 * 1.6022e-19 * 1.6022e-19  * 6.02214e+23 * numParticles) / (1.112e-10 * 0.282e-9 * 2 * 1000);
     //cout << "exact\t\t: " << exactEnergy << endl;
     //cout << "calc\t\t: " << state.getPotentialEnergy() << endl;
     ASSERT_EQUAL_TOL(exactEnergy, state.getPotentialEnergy(), 100*EWALD_TOL);

plugins/amoeba/openmmapi/include/openmm/internal/windowsExportAmoeba.h

@@ -30,9 +30,9 @@
     #if defined(OPENMM_AMOEBA_BUILDING_SHARED_LIBRARY)
         #define OPENMM_EXPORT_AMOEBA __declspec(dllexport)
     #elif defined(OPENMM_AMOEBA_BUILDING_STATIC_LIBRARY) || defined(OPENMM_AMOEBA_USE_STATIC_LIBRARIES)
-		#define OPENMM_EXPORT_AMOEBA
+        #define OPENMM_EXPORT_AMOEBA
     #else
-		#define OPENMM_EXPORT_AMOEBA __declspec(dllimport)   // i.e., a client of a shared library
+        #define OPENMM_EXPORT_AMOEBA __declspec(dllimport)   // i.e., a client of a shared library
     #endif
 #else
     #define OPENMM_EXPORT_AMOEBA // Linux, Mac

plugins/amoeba/openmmapi/src/AmoebaMultipoleForce.cpp

@@ -69,19 +69,19 @@ void AmoebaMultipoleForce::setCutoffDistance(double distance) {
     cutoffDistance = distance;
 }
 
-double AmoebaMultipoleForce::getAEwald() const {		 
-    return aewald;		 
-}		 
-		 
-void AmoebaMultipoleForce::setAEwald(double inputAewald ) {			 
-    aewald = inputAewald;		 
-}		 
+double AmoebaMultipoleForce::getAEwald() const { 
+    return aewald; 
+} 
  
-int AmoebaMultipoleForce::getPmeBSplineOrder( void ) const {		 
-    return pmeBSplineOrder;		 
-}		 
-		 
-void AmoebaMultipoleForce::getPmeGridDimensions( std::vector<int>& gridDimension ) const {		 
+void AmoebaMultipoleForce::setAEwald(double inputAewald ) { 
+    aewald = inputAewald; 
+} 
+ 
+int AmoebaMultipoleForce::getPmeBSplineOrder( void ) const { 
+    return pmeBSplineOrder; 
+} 
+ 
+void AmoebaMultipoleForce::getPmeGridDimensions( std::vector<int>& gridDimension ) const { 
     if( gridDimension.size() < 3 ){
         gridDimension.resize(3);
     }
@@ -93,15 +93,15 @@ void AmoebaMultipoleForce::getPmeGridDimensions( std::vector<int>& gridDimension
         gridDimension[0] = gridDimension[1] = gridDimension[2] = 0;
     }
     return;
-}		 
-		 
+} 
+ 
 void AmoebaMultipoleForce::setPmeGridDimensions( const std::vector<int>& gridDimension ) {
     pmeGridDimension.resize(3);
     pmeGridDimension[0] = gridDimension[0];
     pmeGridDimension[1] = gridDimension[1];
     pmeGridDimension[2] = gridDimension[2];
     return;
-}		 
+} 
 
 int AmoebaMultipoleForce::getMutualInducedMaxIterations( void ) const {
     return mutualInducedMaxIterations;

plugins/amoeba/platforms/cuda/tests/TestCudaAmoebaMultipoleForce.cpp

@@ -1350,7 +1350,7 @@ static void setupAndGetForcesEnergyMultipoleLargeWater( AmoebaMultipoleForce::No
     system.addForce(amoebaBondForce);
 
     static std::vector<Vec3> positions; // Static to work around bug in Visual Studio that makes compilation very very slow.
-	positions.resize(numberOfParticles);
+    positions.resize(numberOfParticles);
 
     positions[0]             = Vec3(   8.0394300e-01,   5.8680350e-01,    4.9277700e-02 );
     positions[1]             = Vec3(   7.5814940e-01,   5.0226660e-01,    4.0375900e-02 );
@@ -2040,7 +2040,7 @@ static void testPMEMutualPolarizationLargeWater( FILE* log ) {
                                                 cutoff, inputPmeGridDimension, testName,
                                                 forces, energy, outputMultipoleMoments, inputGrid, outputGridPotential, log );
     static std::vector<Vec3> expectedForces; // Static to work around bug in Visual Studio that makes compilation very very slow.
-	expectedForces.resize(numberOfParticles);
+    expectedForces.resize(numberOfParticles);
 
     double expectedEnergy     =  -1.3268930e+04;
 

plugins/amoeba/platforms/reference/include/windowsExportAmoebaReference.h

@@ -30,9 +30,9 @@
     #if defined(OPENMM_AMOEBA_REFERENCE_BUILDING_SHARED_LIBRARY)
         #define OPENMM_AMOEBA_REFERENCE_EXPORT __declspec(dllexport)
     #elif defined(OPENMM_AMOEBA_REFERENCE_BUILDING_STATIC_LIBRARY) || defined(OPENMM_AMOEBA_REFERENCE_USE_STATIC_LIBRARIES)
-		#define OPENMM_AMOEBA_REFERENCE_EXPORT
+        #define OPENMM_AMOEBA_REFERENCE_EXPORT
     #else
-		#define OPENMM_AMOEBA_REFERENCE_EXPORT __declspec(dllimport)   // i.e., a client of a shared library
+        #define OPENMM_AMOEBA_REFERENCE_EXPORT __declspec(dllimport)   // i.e., a client of a shared library
     #endif
 #else
     #define OPENMM_AMOEBA_REFERENCE_EXPORT // Linux, Mac

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

@@ -1686,7 +1686,7 @@ RealOpenMM AmoebaReferenceMultipoleForce::calculateElectrostaticPotentialForPart
 
     getPeriodicDelta( deltaR );
 
-	 RealOpenMM r2            = deltaR.dot( deltaR );
+    RealOpenMM r2            = deltaR.dot( deltaR );
     RealOpenMM r             = SQRT( r2 );
 
     RealOpenMM rr1           = 1.0/r;
@@ -3777,7 +3777,7 @@ RealOpenMM AmoebaReferenceGeneralizedKirkwoodMultipoleForce::calculateKirkwoodED
     RealOpenMM yr         = deltaR[1];
     RealOpenMM zr         = deltaR[2];
 
-	 r                     = SQRT(r2);
+    r                     = SQRT(r2);
     rr1                   = 1.0/r;
     rr3                   = rr1/r2;
     rr5                   = 3.0*rr3/r2;

plugins/amoeba/platforms/reference/tests/TestReferenceAmoebaMultipoleForce.cpp

@@ -1256,7 +1256,7 @@ static void setupAndGetForcesEnergyMultipoleLargeWater( AmoebaMultipoleForce::No
     system.addForce(amoebaMultipoleForce);
  
     static std::vector<Vec3> positions; // Static to work around bug in Visual Studio that makes compilation very very slow.
-	positions.resize(numberOfParticles);
+    positions.resize(numberOfParticles);
 
     positions[0]             = Vec3(   8.0394300e-01,   5.8680350e-01,    4.9277700e-02 );
     positions[1]             = Vec3(   7.5814940e-01,   5.0226660e-01,    4.0375900e-02 );
@@ -1947,7 +1947,7 @@ static void testPMEMutualPolarizationLargeWater( FILE* log ) {
                                                 cutoff, inputPmeGridDimension, testName,
                                                 forces, energy, outputMultipoleMoments, inputGrid, outputGridPotential, log );
     static std::vector<Vec3> expectedForces; // Static to work around bug in Visual Studio that makes compilation very very slow.
-	expectedForces.resize(numberOfParticles);
+    expectedForces.resize(numberOfParticles);
 
     double expectedEnergy     =  -1.3268930e+04;
 

plugins/amoeba/serialization/include/openmm/serialization/internal/windowsExportAmoebaSerialization.h

@@ -30,9 +30,9 @@
     #if defined(OPENMM_AMOEBA_SERIALIZATION_BUILDING_SHARED_LIBRARY)
         #define OPENMM_EXPORT_AMOEBA_SERIALIZATION __declspec(dllexport)
     #elif defined(OPENMM_AMOEBA_SERIALIZATION_BUILDING_STATIC_LIBRARY) || defined(OPENMM_AMOEBA_SERIALIZATION_USE_STATIC_LIBRARIES)
-		#define OPENMM_EXPORT_AMOEBA_SERIALIZATION
+        #define OPENMM_EXPORT_AMOEBA_SERIALIZATION
     #else
-		#define OPENMM_EXPORT_AMOEBA_SERIALIZATION __declspec(dllimport)   // i.e., a client of a shared library
+        #define OPENMM_EXPORT_AMOEBA_SERIALIZATION __declspec(dllimport)   // i.e., a client of a shared library
     #endif
 #else
     #define OPENMM_EXPORT_AMOEBA_SERIALIZATION // Linux, Mac

plugins/rpmd/openmmapi/include/openmm/internal/windowsExportRpmd.h

@@ -30,9 +30,9 @@
     #if defined(OPENMM_RPMD_BUILDING_SHARED_LIBRARY)
         #define OPENMM_EXPORT_RPMD __declspec(dllexport)
     #elif defined(OPENMM_RPMD_BUILDING_STATIC_LIBRARY) || defined(OPENMM_RPMD_USE_STATIC_LIBRARIES)
-		#define OPENMM_EXPORT_RPMD
+        #define OPENMM_EXPORT_RPMD
     #else
-		#define OPENMM_EXPORT_RPMD __declspec(dllimport)   // i.e., a client of a shared library
+        #define OPENMM_EXPORT_RPMD __declspec(dllimport)   // i.e., a client of a shared library
     #endif
 #else
     #define OPENMM_EXPORT_RPMD // Linux, Mac

serialization/src/LangevinIntegratorProxy.cpp

@@ -53,9 +53,9 @@ void* LangevinIntegratorProxy::deserialize(const SerializationNode& node) const
     if (node.getIntProperty("version") != 1 && node.getIntProperty("version") != 2)
         throw OpenMMException("Unsupported version number");
     LangevinIntegrator *integrator = new LangevinIntegrator(node.getDoubleProperty("temperature"),
-															node.getDoubleProperty("friction"),
-		                                                    node.getDoubleProperty("stepSizeInPs"));
+                                                            node.getDoubleProperty("friction"),
+                                                            node.getDoubleProperty("stepSizeInPs"));
     integrator->setConstraintTolerance(node.getDoubleProperty("constraintTolerance"));
     integrator->setRandomNumberSeed(node.getIntProperty("randomSeed"));
-	return integrator;
+    return integrator;
 }
\ No newline at end of file

serialization/src/SerializationProxyRegistration.cpp

@@ -111,7 +111,7 @@ extern "C" void registerSerializationProxies() {
     SerializationProxy::registerProxy(typeid(PeriodicTorsionForce), new PeriodicTorsionForceProxy());
     SerializationProxy::registerProxy(typeid(RBTorsionForce), new RBTorsionForceProxy());
     SerializationProxy::registerProxy(typeid(System), new SystemProxy());
-	SerializationProxy::registerProxy(typeid(State), new StateProxy());
-	SerializationProxy::registerProxy(typeid(VerletIntegrator), new VerletIntegratorProxy());
-	SerializationProxy::registerProxy(typeid(LangevinIntegrator), new LangevinIntegratorProxy());
+    SerializationProxy::registerProxy(typeid(State), new StateProxy());
+    SerializationProxy::registerProxy(typeid(VerletIntegrator), new VerletIntegratorProxy());
+    SerializationProxy::registerProxy(typeid(LangevinIntegrator), new LangevinIntegratorProxy());
 }
\ No newline at end of file

serialization/src/StateProxy.cpp

@@ -74,7 +74,7 @@ void StateProxy::serialize(const void* object, SerializationNode& node) const {
         SerializationNode& positionsNode = node.createChildNode("Positions");
         vector<Vec3> statePositions = s.getPositions();
         for (int i=0; i<statePositions.size();i++) {
-    	   positionsNode.createChildNode("Position").setDoubleProperty("x", statePositions[i][0]).setDoubleProperty("y", statePositions[i][1]).setDoubleProperty("z", statePositions[i][2]);
+           positionsNode.createChildNode("Position").setDoubleProperty("x", statePositions[i][0]).setDoubleProperty("y", statePositions[i][1]).setDoubleProperty("z", statePositions[i][2]);
         }
     } catch (const OpenMMException &) {
         // do nothing
@@ -84,7 +84,7 @@ void StateProxy::serialize(const void* object, SerializationNode& node) const {
         SerializationNode& velocitiesNode = node.createChildNode("Velocities");
         vector<Vec3> stateVelocities = s.getVelocities();
         for (int i=0; i<stateVelocities.size();i++) {
-    	   velocitiesNode.createChildNode("Velocity").setDoubleProperty("x", stateVelocities[i][0]).setDoubleProperty("y", stateVelocities[i][1]).setDoubleProperty("z", stateVelocities[i][2]);
+           velocitiesNode.createChildNode("Velocity").setDoubleProperty("x", stateVelocities[i][0]).setDoubleProperty("y", stateVelocities[i][1]).setDoubleProperty("z", stateVelocities[i][2]);
         }
     } catch (const OpenMMException &) {
         // do nothing
@@ -94,7 +94,7 @@ void StateProxy::serialize(const void* object, SerializationNode& node) const {
         SerializationNode& forcesNode = node.createChildNode("Forces");
         vector<Vec3> stateForces = s.getForces();
         for (int i=0; i<stateForces.size();i++) {
-        	forcesNode.createChildNode("Force").setDoubleProperty("x", stateForces[i][0]).setDoubleProperty("y", stateForces[i][1]).setDoubleProperty("z", stateForces[i][2]);
+            forcesNode.createChildNode("Force").setDoubleProperty("x", stateForces[i][0]).setDoubleProperty("y", stateForces[i][1]).setDoubleProperty("z", stateForces[i][2]);
         }
     } catch (const OpenMMException &) {
         // do nothing
@@ -198,5 +198,5 @@ void* StateProxy::deserialize(const SerializationNode& node) const {
     builder.setPeriodicBoxVectors(outAVec, outBVec, outCVec);
     State *s = new State();
     *s = builder.getState();
-	return s;
+    return s;
 }
\ No newline at end of file

serialization/src/VerletIntegratorProxy.cpp

@@ -53,5 +53,5 @@ void* VerletIntegratorProxy::deserialize(const SerializationNode& node) const {
     double constraintTol = node.getDoubleProperty("constraintTolerance");
     VerletIntegrator *integrator = new VerletIntegrator(stepSize);
     integrator->setConstraintTolerance(constraintTol);
-	return integrator;
+    return integrator;
 }
\ No newline at end of file