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
      
      
      
| Line |   | 
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| 1 | /*
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| 2 |  * Project: MoleCuilder
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| 3 |  * Description: creates and alters molecular systems
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| 4 |  * Copyright (C)  2010-2012 University of Bonn. All rights reserved.
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| 5 |  * Please see the LICENSE file or "Copyright notice" in builder.cpp for details.
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| 6 |  */
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| 7 | 
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| 8 | /*
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| 9 |  * MoleculeOrderDescriptor.cpp
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| 10 |  *
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| 11 |  *  Created on: Dec 7, 2010
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| 12 |  *      Author: heber
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| 13 |  */
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| 14 | 
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| 15 | // include config.h
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| 16 | #ifdef HAVE_CONFIG_H
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| 17 | #include <config.h>
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| 18 | #endif
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| 19 | 
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| 20 | #include "CodePatterns/MemDebug.hpp"
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| 21 | 
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| 22 | #include "MoleculeOrderDescriptor.hpp"
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| 23 | #include "MoleculeOrderDescriptor_impl.hpp"
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| 24 | 
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| 25 | #include "molecule.hpp"
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| 26 | 
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| 27 | using namespace std;
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| 28 | 
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| 29 | 
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| 30 | MoleculeOrderDescriptor_impl::MoleculeOrderDescriptor_impl(int _id) :
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| 31 |   id(_id)
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| 32 | {}
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| 33 | 
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| 34 | MoleculeOrderDescriptor_impl::~MoleculeOrderDescriptor_impl()
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| 35 | {}
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| 36 | 
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| 37 | bool MoleculeOrderDescriptor_impl::predicate(std::pair<moleculeId_t,molecule*> _molecule)
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| 38 | {
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| 39 |   molecule *mol = find();
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| 40 |   return (mol == _molecule.second);
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| 41 | }
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| 42 | 
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| 43 | MoleculeDescriptor MoleculeByOrder(int id){
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| 44 |   return MoleculeDescriptor(MoleculeDescriptor::impl_ptr(new MoleculeOrderDescriptor_impl(id)));
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| 45 | }
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| 46 | 
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| 47 | World::MoleculeSet& MoleculeOrderDescriptor_impl::getMolecules()
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| 48 | {
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| 49 |   return World::getInstance().molecules;
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| 50 | }
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| 51 | 
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| 52 | molecule* MoleculeOrderDescriptor_impl::find() {
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| 53 |   World::MoleculeSet &molecules = getMolecules();
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| 54 | 
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| 55 |   int i=0;
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| 56 |   molecule *mol = NULL;
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| 57 |   if (id == 0) {
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| 58 |     return NULL;
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| 59 |   } else if (id > 0) {
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| 60 |     World::MoleculeSet::internal_iterator res = molecules.begin_internal();
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| 61 |     for (; res != molecules.end_internal(); ++res) { // when iterator is normal, ++ goes forward!
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| 62 |       ++i;
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| 63 |       if (id == i) {
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| 64 |         mol = res->second;
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| 65 |         break;
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| 66 |       }
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| 67 |     }
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| 68 |   } else {
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| 69 |     World::MoleculeSet::reverse_internal_iterator res = molecules.rbegin_internal();
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| 70 |     for (; res != molecules.rend_internal(); ++res) {  // when iterator is reverse, ++ goes backward!
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| 71 |       --i;
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| 72 |       if (id == i) {
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| 73 |         mol = res->second;
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| 74 |         break;
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| 75 |       }
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| 76 |     }
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| 77 |   }
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| 78 | 
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| 79 |   return mol;
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| 80 | }
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| 81 | 
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| 82 | vector<molecule*> MoleculeOrderDescriptor_impl::findAll(){
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| 83 |   molecule *res = find();
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| 84 |   return (res)?(vector<molecule*>(1,res)):(vector<molecule*>());
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| 85 | }
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