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#define MK_STR(s) # s |
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#define STR_DEFINE(t, s) t = MK_STR(s) |
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7 |
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#include <stdio.h> |
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#include <stdlib.h> |
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#include <math.h> |
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#include <string> |
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#include <map> |
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#include "primitives/Atom.hpp" |
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#include "brains/SimInfo.hpp" |
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#include "primitives/StuntDouble.hpp" |
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#include "types/ShapeAtomType.hpp" |
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#include "io/basic_ifstrstream.hpp" |
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#ifdef IS_MPI |
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#include "UseTheForce/mpiForceField.h" |
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#endif |
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using namespace std; |
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using namespace oopse; |
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|
26 |
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class bond_pair{ |
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public: |
28 |
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bond_pair(){} |
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class ForceFields{ |
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|
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public: |
64 |
< |
ForceFields(){ frcFile = NULL; entry_plug = NULL; has_variant=0;} |
65 |
< |
ForceFields(char * theVariant ){ frcFile = NULL; entry_plug = NULL; has_variant=1; strcpy(variant, theVariant); } |
64 |
> |
ForceFields(){ |
65 |
> |
frcFile = NULL; |
66 |
> |
entry_plug = NULL; |
67 |
> |
has_variant=0; |
68 |
> |
ffPath = getenv("FORCE_PARAM_PATH"); |
69 |
> |
if( ffPath.empty() ) { |
70 |
> |
STR_DEFINE(ffPath, FRC_PATH ); |
71 |
> |
} |
72 |
> |
} |
73 |
> |
ForceFields(string theVariant){ |
74 |
> |
frcFile = NULL; |
75 |
> |
entry_plug = NULL; |
76 |
> |
has_variant=1; |
77 |
> |
variant = theVariant; |
78 |
> |
ffPath = getenv("FORCE_PARAM_PATH"); |
79 |
> |
if( ffPath.empty() ) { |
80 |
> |
STR_DEFINE(ffPath, FRC_PATH ); |
81 |
> |
} |
82 |
> |
} |
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virtual ~ForceFields(){} |
84 |
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|
85 |
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void setSimInfo( SimInfo* the_entry_plug ) { entry_plug = the_entry_plug; } |
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virtual void setRcut( double LJrcut ); |
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virtual void doForces( int calcPot, int calcStress ); |
106 |
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|
84 |
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virtual double getAtomTypeMass(char* atomType) = 0; |
85 |
– |
|
86 |
– |
|
107 |
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protected: |
108 |
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|
109 |
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void initFortran( int useReactionField ); |
110 |
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|
91 |
– |
|
111 |
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FILE *frcFile; |
112 |
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SimInfo* entry_plug; |
113 |
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|
114 |
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int lineNum; |
115 |
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char readLine[500]; |
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char* eof_test; |
98 |
– |
char variant[100]; |
117 |
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short int has_variant; |
118 |
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double bigSigma; |
119 |
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|
120 |
+ |
string ffPath; |
121 |
+ |
ifstrstream forceFile; |
122 |
+ |
bool hasVariant; |
123 |
+ |
string variant; |
124 |
+ |
map<string, AtomType*> atomTypeMap; |
125 |
+ |
// map<pair<string,string>, BondType*> bondTypeMap; |
126 |
+ |
// map<tuple3<string,string,string>, BendType*> bendTypeMap; |
127 |
+ |
// map<tuple4<string,string,string,string>, TorsionType*> torsionTypeMap; |
128 |
+ |
|
129 |
|
}; |
130 |
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|
131 |
|
|
147 |
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torsion_set* the_torsions ); |
148 |
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|
149 |
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void initForceField(); |
123 |
– |
double getAtomTypeMass(char* atomType); |
150 |
|
|
151 |
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private: |
152 |
|
|
172 |
|
torsion_set* the_torsions ); |
173 |
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|
174 |
|
void initForceField( ); |
149 |
– |
double getAtomTypeMass(char* atomType); |
175 |
|
|
176 |
+ |
|
177 |
|
private: |
178 |
|
|
179 |
|
void fastForward( char* stopText, char* searchOwner ); |
183 |
|
class EAM_FF : public ForceFields{ |
184 |
|
|
185 |
|
public: |
186 |
+ |
|
187 |
|
EAM_FF(); |
188 |
< |
EAM_FF(char* the_variant); |
188 |
> |
EAM_FF(string theVariant); |
189 |
> |
|
190 |
|
virtual ~EAM_FF(); |
191 |
|
|
164 |
– |
|
192 |
|
void readParams(); |
193 |
|
void cleanMe( void ); |
194 |
|
|
203 |
|
void initForceField(); |
204 |
|
|
205 |
|
void calcRcut( void ); |
206 |
< |
double getAtomTypeMass(char* atomType); |
206 |
> |
|
207 |
|
private: |
208 |
|
|
209 |
|
void fastForward( char* stopText, char* searchOwner ); |
227 |
|
void initializeTorsions( int nTorsions, Torsion** torsionArray, |
228 |
|
torsion_set* the_torsions ); |
229 |
|
void initForceField(); |
203 |
– |
double getAtomTypeMass(char* atomType); |
230 |
|
|
231 |
+ |
|
232 |
|
private: |
233 |
|
|
234 |
|
void fastForward( char* stopText, char* searchOwner ); |
239 |
|
class Shapes_FF : public ForceFields{ |
240 |
|
|
241 |
|
public: |
242 |
< |
Shapes_FF(); |
243 |
< |
Shapes_FF(char* the_variant); |
242 |
> |
Shapes_FF() : ForceFields() {}; |
243 |
> |
Shapes_FF(char* the_variant) : ForceFields(the_variant) {}; |
244 |
|
virtual ~Shapes_FF(); |
245 |
|
|
246 |
< |
void readForceFile(); |
246 |
> |
void readParams(); |
247 |
|
void cleanMe( void ); |
248 |
|
|
249 |
|
void initializeAtoms( int nAtoms, Atom** atomArray ); |
256 |
|
|
257 |
|
void initForceField(); |
258 |
|
|
259 |
+ |
void parseShapeFile(string shapeFileName, ShapeAtomType* st); |
260 |
+ |
|
261 |
|
void calcRcut( void ); |
233 |
– |
double getAtomTypeMass(char* atomType); |
262 |
|
|
263 |
|
private: |
264 |
< |
char* ffPath_env; |
264 |
> |
|
265 |
> |
double findLargestContactDistance(ShapeAtomType* st); |
266 |
|
double shapesRcut; |
267 |
|
|
268 |
|
}; |