hybridisationProcessor.h
Go to the documentation of this file.00001 // -*- Mode: C++; tab-width: 2; -*- 00002 // vi: set ts=2: 00003 // 00004 00005 #ifndef BALL_STRUCTURE_HYBRIDISATIONPROCESSOR_H 00006 #define BALL_STRUCTURE_HYBRIDISATIONPROCESSOR_H 00007 00008 #ifndef BALL_CONCEPT_PROCESSOR_H 00009 #include <BALL/CONCEPT/processor.h> 00010 #endif 00011 00012 #ifndef BALL_KERNEL_ATOMCONTAINER_H 00013 #include <BALL/KERNEL/atomContainer.h> 00014 #endif 00015 00016 #ifndef BALL_DATATYPE_HASHMAP_H 00017 #include <BALL/DATATYPE/hashMap.h> 00018 #endif 00019 00020 #ifndef BALL_KERNEL_BOND_H 00021 #include <BALL/KERNEL/bond.h> 00022 #endif 00023 00024 #ifndef BALL_DATATYPE_OPTIONS_H 00025 #include <BALL/DATATYPE/options.h> 00026 #endif 00027 00028 #ifndef BALL_DATATYPE_STRINGHASHMAP_H 00029 #include <BALL/DATATYPE/stringHashMap.h> 00030 #endif 00031 00032 00033 #include <map> 00034 00035 00036 namespace BALL 00037 { 00038 00042 class BALL_EXPORT HybridisationProcessor 00043 : public UnaryProcessor<AtomContainer> 00044 { 00045 00046 public: 00047 00051 00052 struct BALL_EXPORT Option 00053 { 00057 static const char* ATOM_TYPE_SMARTS_FILENAME; 00058 00062 static const char* ATOM_TYPE_FF_FILENAME; 00063 00073 static const String METHOD; 00074 00075 }; 00076 00078 struct BALL_EXPORT Default 00079 { 00081 static const char* ATOM_TYPE_SMARTS_FILENAME; 00082 00086 static const char* ATOM_TYPE_FF_FILENAME; 00087 00091 static const String METHOD; 00092 }; 00093 00094 struct BALL_EXPORT Method 00095 { 00096 static const String SMART_MATCHING; 00097 static const String STRUCTURE_BASED; 00098 static const String FF_BASED; 00099 }; 00100 00101 00103 00104 00108 00109 BALL_CREATE(HybridisationProcessor); 00110 00112 HybridisationProcessor(); 00113 00115 HybridisationProcessor(const HybridisationProcessor& hp); 00116 00119 HybridisationProcessor(const String& smarts_file_name, const String& ff_file_name) throw(Exception::FileNotFound); 00120 00122 virtual ~HybridisationProcessor(); 00124 00128 00130 virtual bool start(); 00131 00133 virtual Processor::Result operator () (AtomContainer& ac); 00135 00139 00140 Size getNumberOfHybridisationStatesSet(); 00141 00143 void setAtomTypeSmarts(const String& file_name) throw(Exception::FileNotFound); 00144 00146 vector< std::pair<String, Size> > getHybridisationMap() { return atom_type_smarts_;}; 00148 00152 00153 HybridisationProcessor& operator = (const HybridisationProcessor& hp); 00155 00159 00160 Options options; 00161 00164 void setDefaultOptions(); 00166 00167 protected: 00168 00171 struct Elements_ 00172 { 00174 String type; 00176 unsigned char hyb; 00177 }; 00178 00181 struct AtomNames_ 00182 { 00184 String a1; 00186 String a2; 00188 String a3; 00189 }; 00190 00192 bool readAtomTypeSmartsFromFile_(const String& file_name = "") throw(Exception::FileNotFound); 00193 00195 Size num_hybridisation_states_; 00196 00198 vector< std::pair<String, Size> > atom_type_smarts_; 00199 00203 StringHashMap<StringHashMap<StringHashMap<std::multimap<float, AtomNames_> > > > bond_angles_; 00204 00205 bool readAndInitBondAnglesFromFile_(const String& file_name = "") throw(Exception::FileNotFound); 00206 00209 StringHashMap<Elements_> elements_; 00210 00211 00213 bool valid_; 00214 00215 00217 double AverageBondAngle_(Atom* a); 00218 00219 }; 00220 00221 } // namespace BALL 00222 00223 00224 #endif // BALL_STRUCTURE_HYBRIDISATIONPROCESSOR_H
