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
Rev | Line | |
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[61c364] | 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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