Nemo  2.4.0b
Simulate forward-in-time genetic evolution in a spatially explicit, individual-based stochastic simulator
binarydataloader.h
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1 
28 #ifndef BINARYDATALOADER_H
29 #define BINARYDATALOADER_H
30 
31 #include <string>
32 #include <map>
33 #include "binarystoragebuffer.h"
34 #include "fileparser.h"
35 #include "MPImanager.h"
36 
37 class SimBuilder;
38 class Metapop;
39 
42 
45 
48 
51 
54 
55  unsigned int _gen;
56 
57  std::string _filename;
58 
59 // std::map<unsigned int, unsigned int> _offset_table;
60 
62 
63  unsigned int _generation_in_file;
64 
66 
67 public:
68 
72  { }
73 
75 
76  off_t extractOffsetTable (int FD);
77 
78  Metapop* extractPop (string& filename, unsigned int generation, SimBuilder* sim, Metapop* popPtr);
79 
80  Metapop* getPop ( ) const {return _in_pop;}
81 
82  SimBuilder* getSim ( ) const {return _new_sim;}
83 
84  unsigned int getGeneration ( ) const {return _gen;}
85 
86  void setGeneration (unsigned int gen) {_gen = gen;}
87 
88  const BinaryStorageBuffer* getBuffer ( ) const {return &_buff;}
89 
90  void clear ( );
91 };
92 #endif
A class to load a whole population from a binary data file.
Definition: binarydataloader.h:41
SimBuilder * getSim() const
Definition: binarydataloader.h:82
Metapop * extractPop(string &filename, unsigned int generation, SimBuilder *sim, Metapop *popPtr)
Definition: binarydataloader.cc:163
unsigned int _generation_in_file
Definition: binarydataloader.h:63
BinaryStorageBuffer _buff
The data countainer into which the data will be copied.
Definition: binarydataloader.h:47
SimBuilder * _current_sim
Pointer to the current (calling) simulation object.
Definition: binarydataloader.h:44
BinaryFileParser _pExtractor
Definition: binarydataloader.h:65
std::string _filename
Definition: binarydataloader.h:57
Metapop * _in_pop
Pointer to the a newly created Metapop object used to retrieve the data.
Definition: binarydataloader.h:50
void clear()
Definition: binarydataloader.cc:53
off_t extractOffsetTable(int FD)
Definition: binarydataloader.cc:63
unsigned int _gen
Definition: binarydataloader.h:55
void setGeneration(unsigned int gen)
Definition: binarydataloader.h:86
Metapop * getPop() const
Definition: binarydataloader.h:80
off_t _offsetDataStart
Definition: binarydataloader.h:61
~BinaryDataLoader()
Definition: binarydataloader.cc:47
unsigned int getGeneration() const
Definition: binarydataloader.h:84
BinaryDataLoader()
Definition: binarydataloader.h:69
SimBuilder * _new_sim
Pointer to a new simulation builder to load the new simulation.
Definition: binarydataloader.h:53
const BinaryStorageBuffer * getBuffer() const
Definition: binarydataloader.h:88
Retrieves simulation parameters from a binary data file.
Definition: fileparser.h:51
A class to store any kind of data in a char buffer before unloading it in a binary data file.
Definition: binarystoragebuffer.h:44
Top class of the metapopulation structure, contains the patches.
Definition: metapop.h:80
Provides methods to build the user's selected set of life cycle events and traits from the parameters...
Definition: basicsimulation.h:168

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