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Commit e3b25204 authored by leeping's avatar leeping
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Merge github.com:leeping/openmm

parents 41e9a095 74415dd9
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platforms/reference/src/SimTKReference/ReferenceCCMAAlgorithm.cpp
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...@@ -25,9 +25,9 @@ ...@@ -25,9 +25,9 @@
#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "ReferenceCCMAAlgorithm.h" #include "ReferenceCCMAAlgorithm.h"
#include "ReferenceDynamics.h" #include "ReferenceDynamics.h"
#include "quern.h" #include "quern.h"
......
platforms/reference/src/SimTKReference/ReferenceConstraint.cpp
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#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceConstraint.h" #include "ReferenceConstraint.h"
#include "ReferenceDynamics.h" #include "ReferenceDynamics.h"
......
platforms/reference/src/SimTKReference/ReferenceCustomAngleIxn.cpp
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#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceCustomAngleIxn.h" #include "ReferenceCustomAngleIxn.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
......
platforms/reference/src/SimTKReference/ReferenceCustomBondIxn.cpp
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...@@ -25,9 +25,9 @@ ...@@ -25,9 +25,9 @@
#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceCustomBondIxn.h" #include "ReferenceCustomBondIxn.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
......
platforms/reference/src/SimTKReference/ReferenceCustomCompoundBondIxn.cpp
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#include <sstream> #include <sstream>
#include <utility> #include <utility>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
#include "ReferenceCustomCompoundBondIxn.h" #include "ReferenceCustomCompoundBondIxn.h"
......
platforms/reference/src/SimTKReference/ReferenceCustomDynamics.cpp
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...@@ -22,9 +22,9 @@ ...@@ -22,9 +22,9 @@
* WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE. * WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.
*/ */
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceVirtualSites.h" #include "ReferenceVirtualSites.h"
#include "ReferenceCustomDynamics.h" #include "ReferenceCustomDynamics.h"
#include "openmm/OpenMMException.h" #include "openmm/OpenMMException.h"
......
platforms/reference/src/SimTKReference/ReferenceCustomExternalIxn.cpp
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#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceCustomExternalIxn.h" #include "ReferenceCustomExternalIxn.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
......
platforms/reference/src/SimTKReference/ReferenceCustomGBIxn.cpp
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#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
#include "ReferenceCustomGBIxn.h" #include "ReferenceCustomGBIxn.h"
......
platforms/reference/src/SimTKReference/ReferenceCustomHbondIxn.cpp
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#include <sstream> #include <sstream>
#include <utility> #include <utility>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
#include "ReferenceCustomHbondIxn.h" #include "ReferenceCustomHbondIxn.h"
......
platforms/reference/src/SimTKReference/ReferenceCustomNonbondedIxn.cpp
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#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
#include "ReferenceCustomNonbondedIxn.h" #include "ReferenceCustomNonbondedIxn.h"
......
platforms/reference/src/SimTKReference/ReferenceCustomTorsionIxn.cpp
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#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceCustomTorsionIxn.h" #include "ReferenceCustomTorsionIxn.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
......
platforms/reference/src/SimTKReference/ReferenceDynamics.cpp
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#include <cstring> #include <cstring>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceDynamics.h" #include "ReferenceDynamics.h"
#include <cstdio> #include <cstdio>
......
platforms/reference/src/SimTKReference/ReferenceForce.cpp
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#include <cstring> #include <cstring>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
#include <cstdio> #include <cstdio>
......
platforms/reference/src/SimTKReference/ReferenceHarmonicBondIxn.cpp
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#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceHarmonicBondIxn.h" #include "ReferenceHarmonicBondIxn.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
......
platforms/reference/src/SimTKReference/ReferenceLJCoulomb14.cpp
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#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceLJCoulomb14.h" #include "ReferenceLJCoulomb14.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
......
platforms/reference/src/SimTKReference/ReferenceLJCoulombIxn.cpp
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#include <sstream> #include <sstream>
#include <complex> #include <complex>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceLJCoulombIxn.h" #include "ReferenceLJCoulombIxn.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
#include "PME.h" #include "PME.h"
......
platforms/reference/src/SimTKReference/ReferenceLincsAlgorithm.cpp
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#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "ReferenceLincsAlgorithm.h" #include "ReferenceLincsAlgorithm.h"
#include "ReferenceDynamics.h" #include "ReferenceDynamics.h"
#include "openmm/OpenMMException.h" #include "openmm/OpenMMException.h"
......
platforms/reference/src/SimTKReference/ReferenceMonteCarloBarostat.cpp
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#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceMonteCarloBarostat.h" #include "ReferenceMonteCarloBarostat.h"
using namespace std; using namespace std;
......
platforms/reference/src/SimTKReference/ReferencePairIxn.cpp
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#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
#include "ReferencePairIxn.h" #include "ReferencePairIxn.h"
......
platforms/reference/src/SimTKReference/ReferenceProperDihedralBond.cpp
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#include <string.h> #include <string.h>
#include <sstream> #include <sstream>
#include "../SimTKUtilities/SimTKOpenMMCommon.h" #include "SimTKOpenMMCommon.h"
#include "../SimTKUtilities/SimTKOpenMMLog.h" #include "SimTKOpenMMLog.h"
#include "../SimTKUtilities/SimTKOpenMMUtilities.h" #include "SimTKOpenMMUtilities.h"
#include "ReferenceProperDihedralBond.h" #include "ReferenceProperDihedralBond.h"
#include "ReferenceForce.h" #include "ReferenceForce.h"
......
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