Added index bounds checking to lots of methods

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

@@ -33,7 +33,7 @@
  * This tests the Cuda implementation of CudaAmoebaVdwForce.
  */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/Context.h"
 #include "OpenMMAmoeba.h"
 #include "AmoebaTinkerParameterFile.h"

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

@@ -33,7 +33,7 @@
  * This tests the Cuda implementation of CudaAmoebaHarmonicAngleForce.
  */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/Context.h"
 #include "OpenMMAmoeba.h"
 #include "openmm/System.h"

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

@@ -33,7 +33,7 @@
  * This tests the Reference implementation of HarmonicBondForce.
  */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/Context.h"
 #include "OpenMMAmoeba.h"
 #include "openmm/System.h"

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

@@ -33,7 +33,7 @@
  * This tests the Reference implementation of ReferenceAmoebaHarmonicInPlaneAngleForce.
  */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 //#include "AmoebaTinkerParameterFile.h"
 #include "openmm/Context.h"
 #include "OpenMMAmoeba.h"

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

@@ -33,7 +33,7 @@
  * This tests the Reference implementation of ReferenceAmoebaOutOfPlaneBendForce.
  */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 //#include "AmoebaTinkerParameterFile.h"
 #include "openmm/Context.h"
 #include "OpenMMAmoeba.h"

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

@@ -33,7 +33,7 @@
  * This tests the Reference implementation of ReferenceAmoebaPiTorsionForce.
  */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/Context.h"
 #include "OpenMMAmoeba.h"
 #include "openmm/System.h"

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

@@ -33,7 +33,7 @@
  * This tests the Reference implementation of ReferenceAmoebaStretchBendForce.
  */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 //#include "AmoebaTinkerParameterFile.h"
 const double DegreesToRadians = 3.14159265/180.0;
 #include "openmm/Context.h"

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

@@ -33,7 +33,7 @@
  * This tests the Reference implementation of ReferenceAmoebaTorsionForce.
  */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 //#include "AmoebaTinkerParameterFile.h"
 #include "openmm/Context.h"
 #include "OpenMMAmoeba.h"

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

@@ -33,7 +33,7 @@
  * This tests the Reference implementation of AmoebaTorsionTorsionForce.
  */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/Context.h"
 #include "OpenMMAmoeba.h"
 #include "openmm/System.h"

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

@@ -33,7 +33,7 @@
  * This tests the Cuda implementation of UreyBradleyForce.
  */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 //#include "AmoebaTinkerParameterFile.h"
 #include "openmm/Context.h"
 #include "OpenMMAmoeba.h"

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

@@ -33,7 +33,7 @@
  * This tests the Reference implementation of ReferenceAmoebaVdwForce.
  */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/Context.h"
 #include "OpenMMAmoeba.h"
 #include "openmm/System.h"

plugins/amoeba/serialization/tests/TestSerializeAmoebaGeneralizedKirkwoodForce.cpp

@@ -29,7 +29,7 @@
  * USE OR OTHER DEALINGS IN THE SOFTWARE.                                     *
  * -------------------------------------------------------------------------- */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/AmoebaGeneralizedKirkwoodForce.h"
 #include "openmm/serialization/XmlSerializer.h"
 #include <iostream>

plugins/amoeba/serialization/tests/TestSerializeAmoebaHarmonicAngleForce.cpp

@@ -29,7 +29,7 @@
  * USE OR OTHER DEALINGS IN THE SOFTWARE.                                     *
  * -------------------------------------------------------------------------- */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/AmoebaHarmonicAngleForce.h"
 #include "openmm/serialization/XmlSerializer.h"
 #include <iostream>

plugins/amoeba/serialization/tests/TestSerializeAmoebaHarmonicBondForce.cpp

@@ -29,7 +29,7 @@
  * USE OR OTHER DEALINGS IN THE SOFTWARE.                                     *
  * -------------------------------------------------------------------------- */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/AmoebaHarmonicBondForce.h"
 #include "openmm/serialization/XmlSerializer.h"
 #include <iostream>

plugins/amoeba/serialization/tests/TestSerializeAmoebaHarmonicInPlaneAngleForce.cpp

@@ -29,7 +29,7 @@
  * USE OR OTHER DEALINGS IN THE SOFTWARE.                                     *
  * -------------------------------------------------------------------------- */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/AmoebaHarmonicInPlaneAngleForce.h"
 #include "openmm/serialization/XmlSerializer.h"
 #include <iostream>

plugins/amoeba/serialization/tests/TestSerializeAmoebaMultipoleForce.cpp

@@ -29,7 +29,7 @@
  * USE OR OTHER DEALINGS IN THE SOFTWARE.                                     *
  * -------------------------------------------------------------------------- */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/AmoebaMultipoleForce.h"
 #include "openmm/serialization/XmlSerializer.h"
 #include <iostream>

plugins/amoeba/serialization/tests/TestSerializeAmoebaOutOfPlaneBendForce.cpp

@@ -29,7 +29,7 @@
  * USE OR OTHER DEALINGS IN THE SOFTWARE.                                     *
  * -------------------------------------------------------------------------- */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/AmoebaOutOfPlaneBendForce.h"
 #include "openmm/serialization/XmlSerializer.h"
 #include <iostream>

plugins/amoeba/serialization/tests/TestSerializeAmoebaPiTorsionForce.cpp

@@ -29,7 +29,7 @@
  * USE OR OTHER DEALINGS IN THE SOFTWARE.                                     *
  * -------------------------------------------------------------------------- */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/AmoebaPiTorsionForce.h"
 #include "openmm/serialization/XmlSerializer.h"
 #include <iostream>

plugins/amoeba/serialization/tests/TestSerializeAmoebaStretchBendForce.cpp

@@ -29,7 +29,7 @@
  * USE OR OTHER DEALINGS IN THE SOFTWARE.                                     *
  * -------------------------------------------------------------------------- */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/AmoebaStretchBendForce.h"
 #include "openmm/serialization/XmlSerializer.h"
 #include <iostream>

plugins/amoeba/serialization/tests/TestSerializeAmoebaTorsionForce.cpp

@@ -29,7 +29,7 @@
  * USE OR OTHER DEALINGS IN THE SOFTWARE.                                     *
  * -------------------------------------------------------------------------- */
 
-#include "../../../tests/AssertionUtilities.h"
+#include "openmm/internal/AssertionUtilities.h"
 #include "openmm/AmoebaTorsionForce.h"
 #include "openmm/serialization/XmlSerializer.h"
 #include <iostream>