Action_Thermostats
        Add_AtomRandomPerturbation
        Add_FitFragmentPartialChargesAction
        Add_RotateAroundBondAction
        Add_SelectAtomByNameAction
        Added_ParseSaveFragmentResults
        AddingActions_SaveParseParticleParameters
        Adding_Graph_to_ChangeBondActions
        Adding_MD_integration_tests
        Adding_ParticleName_to_Atom
        Adding_StructOpt_integration_tests
        AtomFragments
        Automaking_mpqc_open
        AutomationFragmentation_failures
        Candidate_v1.5.4
        Candidate_v1.6.0
        Candidate_v1.6.1
        Candidate_v1.7.0
        ChangeBugEmailaddress
        ChangingTestPorts
        ChemicalSpaceEvaluator
        CombiningParticlePotentialParsing
        Combining_Subpackages
        Debian_Package_split
        Debian_package_split_molecuildergui_only
        Disabling_MemDebug
        Docu_Python_wait
        EmpiricalPotential_contain_HomologyGraph
        EmpiricalPotential_contain_HomologyGraph_documentation
        Enable_parallel_make_install
        Enhance_userguide
        Enhanced_StructuralOptimization
        Enhanced_StructuralOptimization_continued
        Example_ManyWaysToTranslateAtom
        Exclude_Hydrogens_annealWithBondGraph
        FitPartialCharges_GlobalError
        Fix_BoundInBox_CenterInBox_MoleculeActions
        Fix_ChargeSampling_PBC
        Fix_ChronosMutex
        Fix_FitPartialCharges
        Fix_FitPotential_needs_atomicnumbers
        Fix_ForceAnnealing
        Fix_IndependentFragmentGrids
        Fix_ParseParticles
        Fix_ParseParticles_split_forward_backward_Actions
        Fix_PopActions
        Fix_QtFragmentList_sorted_selection
        Fix_Restrictedkeyset_FragmentMolecule
        Fix_StatusMsg
        Fix_StepWorldTime_single_argument
        Fix_Verbose_Codepatterns
        Fix_fitting_potentials
        Fixes
        ForceAnnealing_goodresults
        ForceAnnealing_oldresults
        ForceAnnealing_tocheck
        ForceAnnealing_with_BondGraph
        ForceAnnealing_with_BondGraph_continued
        ForceAnnealing_with_BondGraph_continued_betteresults
        ForceAnnealing_with_BondGraph_contraction-expansion
        FragmentAction_writes_AtomFragments
        FragmentMolecule_checks_bonddegrees
        GeometryObjects
        Gui_Fixes
        Gui_displays_atomic_force_velocity
        ImplicitCharges
        IndependentFragmentGrids
        IndependentFragmentGrids_IndividualZeroInstances
        IndependentFragmentGrids_IntegrationTest
        IndependentFragmentGrids_Sole_NN_Calculation
        JobMarket_RobustOnKillsSegFaults
        JobMarket_StableWorkerPool
        JobMarket_unresolvable_hostname_fix
        MoreRobust_FragmentAutomation
        ODR_violation_mpqc_open
        PartialCharges_OrthogonalSummation
        PdbParser_setsAtomName
        PythonUI_with_named_parameters
        QtGui_reactivate_TimeChanged_changes
        Recreated_GuiChecks
        Rewrite_FitPartialCharges
        RotateToPrincipalAxisSystem_UndoRedo
        SaturateAtoms_findBestMatching
        SaturateAtoms_singleDegree
        StoppableMakroAction
        Subpackage_CodePatterns
        Subpackage_JobMarket
        Subpackage_LinearAlgebra
        Subpackage_levmar
        Subpackage_mpqc_open
        Subpackage_vmg
        Switchable_LogView
        ThirdParty_MPQC_rebuilt_buildsystem
        TrajectoryDependenant_MaxOrder
        TremoloParser_IncreasedPrecision
        TremoloParser_MultipleTimesteps
        TremoloParser_setsAtomName
        Ubuntu_1604_changes
        stable
      
      
        
          | Last change
 on this file since 85dee9 was             e2925fd, checked in by Frederik Heber <heber@…>, 13 years ago | 
        
          | 
Split long-range calculations into two parts to overcome E-N-potential problems.
 
The general problem is that smeared-out nuclei charges cannot interact withelectron charge densities as they always overlap, hence we always make a large
 error. The idea then is - as the potential energy is symmetric both
 densities - to flip from N-E to E-N, i.\,e. to take the electron potential and
 evaluate at nuclei positions instead of smeared-out nuclei charges with
 eletronic charge distribution. However, then we need to make two calculations
 for the four contributions: E-E, E-N and N-N, N-E (=E-N).
 
 new enums SampleParticles_t eventually tells InterfaceVMGJob whether to
sample the nuclei charges onto the grid or not.
TreatGrid_t tells InterfaceVMGJob whether to actually add the electronic
charge onto the grid (this was added but is actually not required anymore).
FragmentationAutomationAction::performCall() now creates twice as many
long-range jobs. This requires two variables in VMGData for storing
integrated long-range energy: electron_long, nuclei_long, as both
calculations are combined into a single VMGData instance per fragment.
Summation of long-range contributions is split into three instead of formerly
two parts: electron (E-E), nuclei (N-N), and mixed (E-N). This allows to
easierly check their cancellation. This needs new member in fusion map
and name in printKeyNames.
naturally, the enums have to be passed a long way: VMGFragmentController,
VMGJob, VMGData.
VMGData now has serialization version 1 due to new entry.
we enhanced documentation in FragmentationLongRangeResults::operator()() of
how and what is summed per level.
FIX: InterfaceVMGJob::ImportRightHandSide() subtracted grid instead of
adding it. Now, we set correct sign of electron charge distribution in MPQC.
TESTFIX: Regression test AnalyseFragmentResults now has short- and long-range
part. Long-range part is only diff'ed when the compiled code has the
capabilities.
 | 
        
          | 
              
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          | File size:
            1.3 KB | 
      
      
| Rev | Line |  | 
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| [2bc560] | 1 | /* | 
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|  | 2 | * VMGData.hpp | 
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|  | 3 | * | 
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|  | 4 | *  Created on: Aug 6, 2012 | 
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|  | 5 | *      Author: heber | 
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|  | 6 | */ | 
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|  | 7 |  | 
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|  | 8 | #ifndef VMGDATA_HPP_ | 
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|  | 9 | #define VMGDATA_HPP_ | 
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|  | 10 |  | 
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|  | 11 |  | 
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|  | 12 | // include config.h | 
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|  | 13 | #ifdef HAVE_CONFIG_H | 
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|  | 14 | #include <config.h> | 
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|  | 15 | #endif | 
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|  | 16 |  | 
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|  | 17 |  | 
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|  | 18 | #include <boost/serialization/access.hpp> | 
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|  | 19 | #include <boost/serialization/vector.hpp> | 
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|  | 20 |  | 
|---|
|  | 21 | #include <iosfwd> | 
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|  | 22 | #include <vector> | 
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|  | 23 |  | 
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| [fbf143] | 24 | #include "Fragmentation/Summation/SetValues/SamplingGrid.hpp" | 
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| [2bc560] | 25 |  | 
|---|
|  | 26 | /** This struct contains all returned data from an VMGJob | 
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|  | 27 | * | 
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|  | 28 | */ | 
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|  | 29 | struct VMGData | 
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|  | 30 | { | 
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|  | 31 | /** Constructor for class VMGData. | 
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|  | 32 | * | 
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|  | 33 | * \param _props properties of sampled potential | 
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|  | 34 | */ | 
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|  | 35 | VMGData(const SamplingGridProperties &_props); | 
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|  | 36 |  | 
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|  | 37 | /** Default constructor for class VMGData. | 
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|  | 38 | * | 
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|  | 39 | */ | 
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|  | 40 | VMGData(); | 
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|  | 41 |  | 
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|  | 42 | //!> sampled potential on the grid as output | 
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|  | 43 | SamplingGrid sampled_potential; | 
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| [e2925fd] | 44 | //!> nuclei long-range contribution to energy | 
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|  | 45 | double nuclei_long; | 
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|  | 46 | //!> electron long-range contribution to energy | 
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|  | 47 | double electron_long; | 
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| [2bc560] | 48 |  | 
|---|
|  | 49 | private: | 
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|  | 50 | friend class boost::serialization::access; | 
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|  | 51 | // serialization | 
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|  | 52 | template <typename Archive> | 
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|  | 53 | void serialize(Archive& ar, const unsigned int version) | 
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|  | 54 | { | 
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|  | 55 | ar & sampled_potential; | 
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| [e2925fd] | 56 | if (version > 0) | 
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|  | 57 | ar & nuclei_long; | 
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|  | 58 | ar & electron_long; | 
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| [2bc560] | 59 | } | 
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|  | 60 | }; | 
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|  | 61 |  | 
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| [e2925fd] | 62 | BOOST_CLASS_VERSION(VMGData, 1) | 
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|  | 63 |  | 
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| [2bc560] | 64 | std::ostream & operator<<(std::ostream &ost, const VMGData &data); | 
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|  | 65 |  | 
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|  | 66 |  | 
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|  | 67 | #endif /* VMGDATA_HPP_ */ | 
|---|
       
      
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