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
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
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1 | /*
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2 | * Project: MoleCuilder
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3 | * Description: creates and alters _atomecular 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 | * AtomOrderDescriptor.cpp
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10 | *
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11 | * Created on: Mar 22, 2012
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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 "AtomOrderDescriptor.hpp"
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23 | #include "AtomOrderDescriptor_impl.hpp"
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24 |
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25 | #include "Atom/atom.hpp"
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26 | #include "CodePatterns/Observer/ObservedContainer_impl.hpp"
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27 |
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28 | using namespace std;
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29 |
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30 |
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31 | AtomOrderDescriptor_impl::AtomOrderDescriptor_impl(int _id) :
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32 | id(_id)
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33 | {}
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34 |
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35 | AtomOrderDescriptor_impl::~AtomOrderDescriptor_impl()
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36 | {}
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37 |
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38 | bool AtomOrderDescriptor_impl::predicate(std::pair<atomId_t,atom*> _atom)
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39 | {
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40 | atom *Walker = find();
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41 | return (Walker == _atom.second);
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42 | }
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43 |
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44 | AtomDescriptor AtomByOrder(int id){
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45 | return AtomDescriptor(AtomDescriptor::impl_ptr(new AtomOrderDescriptor_impl(id)));
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46 | }
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47 |
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48 | World::AtomSet& AtomOrderDescriptor_impl::getAtoms()
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49 | {
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50 | return World::getInstance().atoms;
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51 | }
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52 |
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53 |
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54 | atom *AtomOrderDescriptor_impl::find(){
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55 | World::AtomSet &atoms = getAtoms();
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56 |
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57 | int i=0;
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58 | atom *_atom = NULL;
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59 | if (id == 0) {
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60 | return NULL;
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61 | } else if (id > 0) {
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62 | World::AtomSet::internal_iterator res = atoms.begin_internal();
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63 | for (; res != atoms.end_internal(); ++res) { // when iterator is normal, ++ goes forward!
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64 | ++i;
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65 | if (id == i) {
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66 | _atom = res->second;
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67 | break;
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68 | }
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69 | }
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70 | } else {
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71 | World::AtomSet::reverse_internal_iterator res = atoms.rbegin_internal();
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72 | for (; res != atoms.rend_internal(); ++res) { // when iterator is reverse, ++ goes backward!
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73 | --i;
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74 | if (id == i) {
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75 | _atom = res->second;
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76 | break;
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77 | }
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78 | }
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79 | }
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80 |
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81 | return _atom;
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82 | }
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83 |
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84 | vector<atom*> AtomOrderDescriptor_impl::findAll(){
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85 | atom *res = find();
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86 | return (res)?(vector<atom*>(1,res)):(vector<atom*>());
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87 | }
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