source: src/parser.hpp@ 09af1b

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
Last change on this file since 09af1b was 6ac7ee, checked in by Frederik Heber <heber@…>, 16 years ago

Merge branch 'ConcaveHull' of ../espack2 into ConcaveHull

Conflicts:

molecuilder/src/boundary.cpp
molecuilder/src/boundary.hpp
molecuilder/src/builder.cpp
molecuilder/src/linkedcell.cpp
molecuilder/src/linkedcell.hpp
molecuilder/src/vector.cpp
molecuilder/src/vector.hpp
util/src/NanoCreator.c

Basically, this resulted from a lot of conversions two from spaces to one tab, which is my standard indentation. The mess was caused by eclipse auto-indenting. And in espack2:ConcaveHull was the new stuff, so all from ConcaveHull was replaced in case of doubt.
Additionally, vector had ofstream << operator instead ostream << ...

  • Property mode set to 100755
File size: 3.4 KB
Line 
1/** \file parsing.hpp
2 *
3 * Definitions of various class functions for the parsing of value files.
4 *
5 */
6
7
8#ifndef PARSING_HPP_
9#define PARSING_HPP_
10
11using namespace std;
12
13// include config.h
14#ifdef HAVE_CONFIG_H
15#include <config.h>
16#endif
17
18// ======================================= DEFINES ==========================================
19
20#define EnergySuffix ".energy.all"
21#define HcorrectionSuffix ".Hcorrection.all"
22#define ForcesSuffix ".forces.all"
23#define ShieldingSuffix ".sigma_all.csv"
24#define ShieldingPASSuffix ".sigma_all_PAS.csv"
25#define ShieldingFragmentSuffix ".sigma_all_fragment.all"
26#define ShieldingPASFragmentSuffix ".sigma_all_PAS_fragment.all"
27#define TimeSuffix ".speed"
28#define EnergyFragmentSuffix ".energyfragment.all"
29#define HcorrectionFragmentSuffix ".Hcorrectionfragment.all"
30#define ForceFragmentSuffix ".forcefragment.all"
31#define OrderSuffix ".Order"
32
33// ======================================= FUNCTIONS ==========================================
34
35bool FilePresent(const char *filename, bool test);
36bool TestParams(int argc, char **argv);
37
38
39// ======================================= CLASS MatrixContainer =============================
40
41class MatrixContainer {
42 public:
43 double ***Matrix;
44 int **Indices;
45 char *Header;
46 int MatrixCounter;
47 int *RowCounter;
48 int ColumnCounter;
49
50 MatrixContainer();
51 virtual ~MatrixContainer();
52
53 bool ParseMatrix(const char *name, int skiplines, int skipcolumns, int MatrixNr);
54 virtual bool ParseFragmentMatrix(char *name, char *prefix, string suffix, int skiplines, int skipcolumns);
55 bool AllocateMatrix(char *GivenHeader, int MCounter, int *RCounter, int CCounter);
56 bool ResetMatrix();
57 double FindMinValue();
58 double FindMaxValue();
59 bool SetLastMatrix(double value, int skipcolumns);
60 bool SetLastMatrix(double **values, int skipcolumns);
61 //bool ParseIndices();
62 //bool SumSubValues();
63 bool SumSubManyBodyTerms(class MatrixContainer &Matrix, class KeySetsContainer &KeySet, int Order);
64 bool WriteTotalFragments(const char *name, const char *prefix);
65 bool WriteLastMatrix(const char *name, const char *prefix, const char *suffix);
66};
67
68// ======================================= CLASS EnergyMatrix =============================
69
70class EnergyMatrix : public MatrixContainer {
71 public:
72 bool ParseIndices();
73 bool SumSubEnergy(class EnergyMatrix &Fragments, class EnergyMatrix *CorrectionFragments, class KeySetsContainer &KeySet, int Order, double sign);
74 bool ParseFragmentMatrix(char *name, char *prefix, string suffix, int skiplines, int skipcolumns);
75};
76
77// ======================================= CLASS ForceMatrix =============================
78
79class ForceMatrix : public MatrixContainer {
80 public:
81 bool ParseIndices(char *name);
82 bool SumSubForces(class ForceMatrix &Fragments, class KeySetsContainer &KeySet, int Order, double sign);
83 bool ParseFragmentMatrix(char *name, char *prefix, string suffix, int skiplines, int skipcolumns);
84};
85
86// ======================================= CLASS KeySetsContainer =============================
87
88class KeySetsContainer {
89 public:
90 int **KeySets;
91 int *AtomCounter;
92 int FragmentCounter;
93 int Order;
94 int *FragmentsPerOrder;
95 int **OrderSet;
96
97 KeySetsContainer();
98 ~KeySetsContainer();
99
100 bool ParseKeySets(const char *name, const int *ACounter, const int FCounter);
101 bool ParseManyBodyTerms();
102 bool Contains(const int GreaterSet, const int SmallerSet);
103};
104
105// ======================================= END =============================================
106
107#endif /*PARSING_HPP_*/
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