Candidate_v1.7.0
        stable
      
      
        
          | Last change
 on this file since fc38cb 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 | 
      
      
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| 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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