| Alg7.h | |
| AlgNbor.C | |
| AlgNbor.h | |
| AlgRecBisection.C | |
| AlgRecBisection.h | |
| AlgSeven.C | |
| Array.h | |
| AtomMap.C | |
| AtomMap.h | |
| AVXTileLists.C | |
| AVXTileLists.h | |
| AVXTiles.C | |
| AVXTiles.h | |
| AVXTilesKernel.C | |
| AVXTilesKernel.h | |
| BackEnd.C | |
| BackEnd.h | |
| BOCgroup.h | |
| Box.h | |
| BroadcastClient.C | |
| BroadcastClient.h | |
| BroadcastMgr.C | |
| BroadcastMgr.h | |
| BroadcastObject.h | |
| Broadcasts.h | |
| ccsinterface.C | |
| ccsinterface.h | |
| CollectionMaster.C | |
| CollectionMaster.h | |
| CollectionMgr.C | |
| CollectionMgr.h | |
| colvarproxy_namd.C | |
| colvarproxy_namd.h | |
| colvarproxy_namd_version.h | |
| common.C | |
| common.h | |
| Communicate.C | |
| Communicate.h | |
| CompressPsf.C | |
| CompressPsf.h | |
| Compute.C | |
| Compute.h | |
| ComputeAngles.C | |
| ComputeAngles.h | |
| ComputeAngles.inl | |
| ComputeAniso.C | |
| ComputeAniso.h | |
| ComputeAniso.inl | |
| ComputeBondedCUDA.C | |
| ComputeBondedCUDA.h | |
| ComputeBondedCUDAKernel.cu | |
| ComputeBondedCUDAKernel.h | |
| ComputeBonds.C | |
| ComputeBonds.h | |
| ComputeBonds.inl | |
| ComputeCOMCudaKernel.h | |
| ComputeConsForce.C | |
| ComputeConsForce.h | |
| ComputeConsForceCUDA.C | |
| ComputeConsForceCUDA.h | |
| ComputeConsForceCUDAKernel.cu | |
| ComputeConsForceCUDAKernel.h | |
| ComputeConsForceMsgs.C | |
| ComputeConsForceMsgs.h | |
| ComputeCrossterms.C | |
| ComputeCrossterms.h | |
| ComputeCUDAMgr.C | |
| ComputeCUDAMgr.h | |
| ComputeCylindricalBC.C | |
| ComputeCylindricalBC.h | |
| ComputeDihedrals.C | |
| ComputeDihedrals.h | |
| ComputeDihedrals.inl | |
| ComputeDPME.C | |
| ComputeDPME.h | |
| ComputeDPMEMsgs.C | |
| ComputeDPMEMsgs.h | |
| ComputeDPMTA.C | |
| ComputeDPMTA.h | |
| ComputeEField.C | |
| ComputeEField.h | |
| ComputeEwald.C | |
| ComputeEwald.h | |
| ComputeExt.C | |
| ComputeExt.h | |
| ComputeFmmSerial.C | |
| ComputeFmmSerial.h | |
| ComputeFullDirect.C | |
| ComputeFullDirect.h | |
| ComputeFullDirectBase.h | |
| ComputeGBIS.C | |
| ComputeGBIS.inl | |
| ComputeGBISCUDAKernel.h | |
| ComputeGBISser.C | |
| ComputeGBISser.h | |
| ComputeGlobal.C | |
| ComputeGlobal.h | |
| ComputeGlobalMasterVirialCUDAKernel.cu | |
| ComputeGlobalMasterVirialCUDAKernel.h | |
| ComputeGlobalMsgs.C | |
| ComputeGlobalMsgs.h | |
| ComputeGridForce.C | |
| ComputeGridForce.h | |
| ComputeGridForceCUDA.C | |
| ComputeGridForceCUDA.h | |
| ComputeGridForceCUDAKernel.cu | |
| ComputeGridForceCUDAKernel.h | |
| ComputeGromacsPair.C | |
| ComputeGromacsPair.h | |
| ComputeGromacsPair.inl | |
| ComputeGroupRes1GroupCUDAKernel.cu | |
| ComputeGroupRes1GroupCUDAKernel.h | |
| ComputeGroupRes2GroupCUDAKernel.cu | |
| ComputeGroupRes2GroupCUDAKernel.h | |
| ComputeGroupRestraintsCUDA.C | |
| ComputeGroupRestraintsCUDA.h | |
| ComputeHomePatch.C | |
| ComputeHomePatch.h | |
| ComputeHomePatches.C | |
| ComputeHomePatches.h | |
| ComputeHomeTuples.h | |
| ComputeImpropers.C | |
| ComputeImpropers.h | |
| ComputeLCPO.C | |
| ComputeLCPO.h | |
| ComputeLjPmeSerial.C | |
| ComputeLjPmeSerial.h | |
| ComputeLonepairsCUDA.C | |
| ComputeLonepairsCUDA.h | |
| ComputeLonepairsCUDAKernel.cu | |
| ComputeLonepairsCUDAKernel.h | |
| ComputeMap.C | |
| ComputeMap.h | |
| ComputeMgr.C | |
| ComputeMgr.h | |
| ComputeMoa.C | |
| ComputeMoa.h | |
| ComputeMsm.C | |
| ComputeMsm.h | |
| ComputeMsmMsa.C | |
| ComputeMsmMsa.h | |
| ComputeMsmSerial.C | |
| ComputeMsmSerial.h | |
| ComputeNonbondedAlch.h | |
| ComputeNonbondedBase.h | |
| ComputeNonbondedBase2.h | |
| ComputeNonbondedBase2KNL.h | |
| ComputeNonbondedCUDAExcl.C | |
| ComputeNonbondedCUDAExcl.h | |
| ComputeNonbondedCUDAExcl.inl | |
| ComputeNonbondedFEP.C | |
| ComputeNonbondedGo.C | |
| ComputeNonbondedInl.h | |
| ComputeNonbondedLES.C | |
| ComputeNonbondedPair.C | |
| ComputeNonbondedPair.h | |
| ComputeNonbondedPProf.C | |
| ComputeNonbondedSelf.C | |
| ComputeNonbondedSelf.h | |
| ComputeNonbondedSplitting.h | |
| ComputeNonbondedStd.C | |
| ComputeNonbondedTabEnergies.C | |
| ComputeNonbondedTI.C | |
| ComputeNonbondedUtil.C | |
| ComputeNonbondedUtil.h | |
| ComputePatch.C | |
| ComputePatch.h | |
| ComputePatchPair.C | |
| ComputePatchPair.h | |
| ComputePme.C | |
| ComputePme.h | |
| ComputePmeCUDA.C | |
| ComputePmeCUDA.h | |
| ComputePmeCUDAKernel.cu | |
| ComputePmeCUDAKernel.h | |
| ComputePmeCUDAMgr.C | |
| ComputePmeCUDAMgr.h | |
| ComputeQM.C | |
| ComputeQM.h | |
| ComputeRestraints.C | |
| ComputeRestraints.h | |
| ComputeRestraintsCUDA.C | |
| ComputeRestraintsCUDA.h | |
| ComputeRestraintsCUDAKernel.cu | |
| ComputeRestraintsCUDAKernel.h | |
| ComputeSelfTuples.h | |
| ComputeSMDCUDA.C | |
| ComputeSMDCUDA.h | |
| ComputeSMDCUDAKernel.cu | |
| ComputeSMDCUDAKernel.h | |
| ComputeSphericalBC.C | |
| ComputeSphericalBC.h | |
| ComputeStir.C | |
| ComputeStir.h | |
| ComputeTclBC.C | |
| ComputeTclBC.h | |
| ComputeThole.C | |
| ComputeThole.h | |
| ComputeThole.inl | |
| ConfigList.C | |
| ConfigList.h | |
| Controller.C | |
| Controller.h | |
| CudaComputeGBISKernel.cu | |
| CudaComputeGBISKernel.h | |
| CudaComputeNonbonded.C | |
| CudaComputeNonbonded.h | |
| CudaComputeNonbondedInteractions.h | |
| CudaComputeNonbondedKernel.cu | |
| CudaComputeNonbondedKernel.h | |
| CudaComputeNonbondedKernel.hip.h | |
| CudaComputeNonbondedKernelHip.cu | |
| CudaGlobalMasterClient.C | |
| CudaGlobalMasterClient.h | |
| CudaGlobalMasterClientKernel.cu | |
| CudaGlobalMasterClientKernel.h | |
| CudaGlobalMasterServer.C | |
| CudaGlobalMasterServer.h | |
| CudaGlobalMasterServerKernel.cu | |
| CudaGlobalMasterServerKernel.h | |
| CudaNonbondedTables.C | |
| CudaNonbondedTables.h | |
| CudaPmeSolver.C | |
| CudaPmeSolver.h | |
| CudaPmeSolverUtil.C | |
| CudaPmeSolverUtil.h | |
| CudaPmeSolverUtilKernel.cu | |
| CudaPmeSolverUtilKernel.h | |
| CudaRecord.h | |
| CudaTileListKernel.cu | |
| CudaTileListKernel.h | |
| CudaTileListKernel.hip.h | |
| CudaTileListKernelHip.cu | |
| CudaUtils.C | |
| CudaUtils.h | |
| DataExchanger.C | |
| DataExchanger.h | |
| DataStream.C | |
| DataStream.h | |
| dcdlib.C | |
| dcdlib.h | |
| Debug.h | |
| DeviceCUDA.C | |
| DeviceCUDA.h | |
| DeviceCUDAkernel.cu | |
| diffbinpdb.c | |
| dlloader.h | |
| DumpBench.C | |
| DumpBench.h | |
| DumpBenchParams.h | |
| dumpdcd.c | |
| eabf.h | |
| eabf1D.C | |
| eabf1D.h | |
| eabf2D.C | |
| eabf2D.h | |
| eabffunc.C | |
| eabffunc.h | |
| eabfTcl.C | |
| elements.h | |
| erf.C | |
| fitrms.C | |
| fitrms.h | |
| fixdcd.c | |
| flipbinpdb.c | |
| flipdcd.c | |
| FreeEnergyAssert.C | |
| FreeEnergyAssert.h | |
| FreeEnergyEnums.h | |
| FreeEnergyGroup.C | |
| FreeEnergyGroup.h | |
| FreeEnergyLambda.C | |
| FreeEnergyLambda.h | |
| FreeEnergyLambdMgr.C | |
| FreeEnergyLambdMgr.h | |
| FreeEnergyMain.C | |
| FreeEnergyParse.C | |
| FreeEnergyParse.h | |
| FreeEnergyRestrain.C | |
| FreeEnergyRestrain.h | |
| FreeEnergyRMgr.C | |
| FreeEnergyRMgr.h | |
| FreeEnergyVector.C | |
| FreeEnergyVector.h | |
| fstream_namd.C | |
| fstream_namd.h | |
| GBData.h | |
| GlobalMaster.C | |
| GlobalMaster.h | |
| GlobalMasterColvars.h | |
| GlobalMasterEasy.C | |
| GlobalMasterEasy.h | |
| GlobalMasterFreeEnergy.C | |
| GlobalMasterFreeEnergy.h | |
| GlobalMasterIMD.C | |
| GlobalMasterIMD.h | |
| GlobalMasterMisc.C | |
| GlobalMasterMisc.h | |
| GlobalMasterServer.C | |
| GlobalMasterServer.h | |
| GlobalMasterSMD.C | |
| GlobalMasterSMD.h | |
| GlobalMasterSymmetry.C | |
| GlobalMasterSymmetry.h | |
| GlobalMasterTcl.C | |
| GlobalMasterTcl.h | |
| GlobalMasterTest.C | |
| GlobalMasterTest.h | |
| GlobalMasterTMD.C | |
| GlobalMasterTMD.h | |
| GoMolecule.C | |
| GridForceGrid.C | |
| GridForceGrid.h | |
| GridForceGrid.inl | |
| GridforceGridCUDA.C | |
| GridforceGridCUDA.h | |
| GridforceGridCUDAKernel.h | |
| GromacsTopFile.C | |
| GromacsTopFile.h | |
| GroupRestraintsParam.C | |
| GroupRestraintsParam.h | |
| heap.C | |
| heap.h | |
| HipDefines.h | |
| HomePatch.C | |
| HomePatch.h | |
| HomePatchList.h | |
| Hydrogen.h | |
| imd.C | |
| imd.h | |
| IMDOutput.C | |
| IMDOutput.h | |
| InfoStream.C | |
| InfoStream.h | |
| largefiles.h | |
| Lattice.h | |
| LdbCoordinator.C | |
| LdbCoordinator.h | |
| LincsSolver.C | |
| LincsSolver.h | |
| LjPmeBase.h | |
| LjPmeCompute.C | |
| LjPmeCompute.h | |
| LjPmeKSpace.C | |
| LjPmeKSpace.h | |
| LjPmeMgr.C | |
| LjPmeMgr.h | |
| LjPmeRealSpace.C | |
| LjPmeRealSpace.h | |
| LJTable.C | |
| LJTable.h | |
| loaddcd.c | |
| main.C | |
| main.h | |
| mainfunc.C | |
| MathArray.h | |
| Matrix4.C | |
| Matrix4.h | |
| Matrix4Symmetry.C | |
| Matrix4Symmetry.h | |
| Measure.C | |
| Measure.h | |
| memusage.C | |
| memusage.h | |
| MGridforceParams.C | |
| MGridforceParams.h | |
| MigrateAtomsMsg.C | |
| MigrateAtomsMsg.h | |
| Migration.h | |
| MigrationBondedCUDAKernel.cu | |
| MigrationBondedCUDAKernel.h | |
| MigrationCUDAKernel.cu | |
| MigrationCUDAKernel.h | |
| Molecule.C | |
| Molecule.h | |
| Molecule2.C | |
| MoleculeQM.C | |
| MShakeKernel.cu | |
| MShakeKernel.h | |
| msm.c | |
| msm.h | |
| msm_defn.h | |
| msm_longrng.c | |
| msm_longrng_sprec.c | |
| msm_setup.c | |
| msm_shortrng.c | |
| msm_shortrng_sprec.c | |
| MsmMacros.h | |
| MsmMap.h | |
| MStream.C | |
| MStream.h | |
| NamdCentLB.C | |
| NamdCentLB.h | |
| NamdDummyLB.C | |
| NamdDummyLB.h | |
| NamdEventsProfiling.h | |
| NamdHybridLB.C | |
| NamdHybridLB.h | |
| NamdOneTools.C | |
| NamdOneTools.h | |
| NamdState.C | |
| NamdState.h | |
| NamdTypes.h | |
| Node.C | |
| Node.h | |
| ObjectArena.h | |
| Output.C | |
| Output.h | |
| OwnerBox.h | |
| packmsg.h | |
| ParallelIOMgr.C | |
| ParallelIOMgr.h | |
| Parameters.C | |
| Parameters.h | |
| parm.C | |
| parm.h | |
| ParseOptions.C | |
| ParseOptions.h | |
| Patch.C | |
| Patch.h | |
| PatchData.C | |
| PatchData.h | |
| PatchMap.C | |
| PatchMap.h | |
| PatchMap.inl | |
| PatchMgr.C | |
| PatchMgr.h | |
| PatchTypes.h | |
| PDB.C | |
| PDB.h | |
| PDBData.C | |
| PDBData.h | |
| PluginIOMgr.C | |
| PluginIOMgr.h | |
| PmeBase.h | |
| PmeBase.inl | |
| PmeKSpace.C | |
| PmeKSpace.h | |
| PmeRealSpace.C | |
| PmeRealSpace.h | |
| PmeSolver.C | |
| PmeSolver.h | |
| PmeSolverUtil.h | |
| Pointer.h | |
| PressureProfile.h | |
| Priorities.h | |
| ProcessorPrivate.C | |
| ProcessorPrivate.h | |
| ProxyMgr.C | |
| ProxyMgr.h | |
| ProxyPatch.C | |
| ProxyPatch.h | |
| pub3dfft.C | |
| pub3dfft.h | |
| Random.h | |
| ReadAmberParm.C | |
| ReadAmberParm.h | |
| Rebalancer.C | |
| Rebalancer.h | |
| RecBisection.C | |
| RecBisection.h | |
| ReductionMgr.C | |
| ReductionMgr.h | |
| RefineOnly.C | |
| RefineOnly.h | |
| RefineTorusLB.C | |
| RefineTorusLB.h | |
| ReserveArray.h | |
| ResizeArray.h | |
| ResizeArrayIter.h | |
| ResizeArrayPrimIter.h | |
| ResizeArrayRaw.h | |
| ScriptTcl.C | |
| ScriptTcl.h | |
| Sequencer.C | |
| Sequencer.h | |
| SequencerCUDA.C | |
| SequencerCUDA.h | |
| SequencerCUDAKernel.cu | |
| SequencerCUDAKernel.h | |
| Set.C | |
| Set.h | |
| Settle.C | |
| Settle.h | |
| SimParameters.C | |
| SimParameters.h | |
| SortableResizeArray.h | |
| SortAtoms.C | |
| SortAtoms.h | |
| SortedArray.h | |
| sortreplicas.c | |
| strlib.C | |
| strlib.h | |
| structures.h | |
| Sync.C | |
| Sync.h | |
| TclCommands.C | |
| TclCommands.h | |
| TclVec.C | |
| Tensor.h | |
| TestArray.C | |
| TestArray.h | |
| Thread.h | |
| TorusLB.C | |
| TorusLB.h | |
| TupleString.h | |
| TupleTypesCUDA.h | |
| UniqueSet.h | |
| UniqueSetIter.h | |
| UniqueSetRaw.h | |
| UniqueSortedArray.h | |
| varsizemsg.h | |
| Vector.h | |
| vmdsock.C | |
| vmdsock.h | |
| wkfutils.c | |
| wkfutils.h | |
| WorkDistrib.C | |
| WorkDistrib.h | |
| xxh3.h | |
| xxhash.h | |
