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 ab2ebe1 was             4d2b33, checked in by Frederik Heber <heber@…>, 14 years ago | 
        
          | 
FIX: molecule does not need a periodentafel.
 removed periodentafel param from cstor.
removed member variable elemente
removed AddXyzFile which was sole user of elemente.
removed depending functions in MoleculeListClass which were all remnants from
old menu interface.
 | 
        
          | 
              
Property                 mode
 set to                 100644 | 
        
          | File size:
            1.4 KB | 
      
      
| Rev | Line |  | 
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| [42127c] | 1 | /* | 
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|  | 2 | * MoleculeListClass.hpp | 
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|  | 3 | * | 
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|  | 4 | *  Created on: Oct 20, 2011 | 
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|  | 5 | *      Author: heber | 
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|  | 6 | */ | 
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|  | 7 |  | 
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|  | 8 | #ifndef MOLECULELISTCLASS_HPP_ | 
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|  | 9 | #define MOLECULELISTCLASS_HPP_ | 
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|  | 10 |  | 
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|  | 11 | #ifdef HAVE_CONFIG_H | 
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|  | 12 | #include <config.h> | 
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|  | 13 | #endif | 
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|  | 14 |  | 
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|  | 15 | #include <iosfwd> | 
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|  | 16 | #include <list> | 
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|  | 17 | #include <string> | 
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|  | 18 |  | 
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| [02ce36] | 19 | #include "CodePatterns/Observer/Observable.hpp" | 
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|  | 20 | #include "CodePatterns/Observer/ObservedIterator.hpp" | 
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| [42127c] | 21 | #include "CodePatterns/Cacheable.hpp" | 
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|  | 22 |  | 
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| [babcc1] | 23 | #include "Parser/ParserTypes.hpp" | 
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|  | 24 |  | 
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| [42127c] | 25 | class molecule; | 
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|  | 26 | class periodentafel; | 
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|  | 27 | class World; | 
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|  | 28 |  | 
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|  | 29 | typedef std::list<molecule *> MoleculeList; | 
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|  | 30 | typedef std::pair<MoleculeList::iterator, bool> MoleculeListTest; | 
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|  | 31 |  | 
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|  | 32 |  | 
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|  | 33 | /** A list of \a molecule classes. | 
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|  | 34 | */ | 
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|  | 35 | class MoleculeListClass : public Observable | 
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|  | 36 | { | 
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|  | 37 | public: | 
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|  | 38 | MoleculeList ListOfMolecules; //!< List of the contained molecules | 
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|  | 39 | int MaxIndex; | 
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|  | 40 |  | 
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|  | 41 | MoleculeListClass(World *world); | 
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|  | 42 | ~MoleculeListClass(); | 
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|  | 43 |  | 
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|  | 44 | bool AddHydrogenCorrection(std::string &path); | 
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|  | 45 | bool StoreForcesFile(std::string &path, int *SortIndex); | 
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|  | 46 | void insert(molecule *mol); | 
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|  | 47 | void erase(molecule *mol); | 
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|  | 48 | molecule * ReturnIndex(int index); | 
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| [babcc1] | 49 | bool OutputConfigForListOfFragments(std::string &prefix, int *SortIndex, ParserTypes type); | 
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| [42127c] | 50 | int NumberOfActiveMolecules(); | 
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|  | 51 | void Enumerate(std::ostream *out); | 
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|  | 52 | void Output(std::ostream *out); | 
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|  | 53 | int CountAllAtoms() const; | 
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|  | 54 |  | 
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|  | 55 | private: | 
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|  | 56 | World *world; //!< The world this List belongs to. Needed to avoid deadlocks in the destructor | 
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|  | 57 | }; | 
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|  | 58 |  | 
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|  | 59 | #endif /* MOLECULELISTCLASS_HPP_ */ | 
|---|
       
      
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