Candidate_v1.7.0
        stable
      
      
        
          | Last change
 on this file since 6b7765 was             999eaf, checked in by Frederik Heber <frederik.heber@…>, 5 years ago | 
        
          | 
Added EvaluateStabilityAction to estimate a molecule's stability.
 removes every bond and checks the energies of the products against the
educt equipped with enough hydrogen molecules to compensate for the
cut bond times its degree.
outputs a CSV file with entries per bond.
extended HomologyGraph to allow direct use of AtomIdSet, i.e. atomic
ids coming from a selection in the World or from the molecule.
DOCU: Added subsection on this action to section homology.
TEST: Added regression test case.
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Property                 mode
 set to                 100644 | 
        
          | File size:
            1.4 KB | 
      
      
| Rev | Line |  | 
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| [999eaf] | 1 | /* | 
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|  | 2 | * StabilityEvaluator.hpp | 
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|  | 3 | * | 
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|  | 4 | *  Created on: Apr 18, 2021 | 
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|  | 5 | *      Author: heber | 
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|  | 6 | */ | 
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|  | 7 |  | 
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|  | 8 |  | 
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|  | 9 | #ifndef FRAGMENTATION_EVALUATION_STABILITYEVALUATOR_HPP_ | 
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|  | 10 | #define FRAGMENTATION_EVALUATION_STABILITYEVALUATOR_HPP_ | 
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|  | 11 |  | 
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|  | 12 | // include config.h | 
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|  | 13 | #ifdef HAVE_CONFIG_H | 
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|  | 14 | #include <config.h> | 
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|  | 15 | #endif | 
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|  | 16 |  | 
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|  | 17 | #include <iosfwd> | 
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|  | 18 | #include <string> | 
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|  | 19 | #include <vector> | 
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|  | 20 |  | 
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|  | 21 | class HomologyContainer; | 
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|  | 22 | class HomologyGraph; | 
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|  | 23 | class molecule; | 
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|  | 24 |  | 
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|  | 25 | /** | 
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|  | 26 | * Evaluates the stability for a given molecule by removing each bond | 
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|  | 27 | * and computing the energy of the products. | 
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|  | 28 | */ | 
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|  | 29 | class StabilityEvaluator { | 
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|  | 30 | public: | 
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|  | 31 | StabilityEvaluator(const molecule * _mol); | 
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|  | 32 |  | 
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|  | 33 | /** | 
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|  | 34 | * Contains all information on a single removed bond. | 
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|  | 35 | */ | 
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|  | 36 | struct StabilityCriterion { | 
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|  | 37 | std::string formula_educt1; | 
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|  | 38 | std::string formula_educt2; | 
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|  | 39 | double energy_educts; | 
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|  | 40 | std::string formula_product1; | 
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|  | 41 | std::string formula_product2; | 
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|  | 42 | double energy_products; | 
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|  | 43 | bool isStable;  //!< states whether energy_educts < energy_products | 
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|  | 44 | }; | 
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|  | 45 |  | 
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|  | 46 | typedef std::vector<StabilityCriterion> stabilities_t; | 
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|  | 47 |  | 
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|  | 48 | stabilities_t operator()() const; | 
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|  | 49 |  | 
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|  | 50 | private: | 
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|  | 51 | double getLowestEnergyFromHomologyContainer(const HomologyGraph &nodes_graph) const; | 
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|  | 52 |  | 
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|  | 53 |  | 
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|  | 54 | private: | 
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|  | 55 | const molecule * mol; | 
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|  | 56 |  | 
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|  | 57 | const HomologyContainer &container; | 
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|  | 58 | }; | 
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|  | 59 |  | 
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|  | 60 | std::ostream& operator<<(std::ostream &ost, const StabilityEvaluator::StabilityCriterion &_stability); | 
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|  | 61 |  | 
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|  | 62 | #endif /* FRAGMENTATION_EVALUATION_STABILITYEVALUATOR_HPP_ */ | 
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