TTWolbachiaFH Class Reference

FileHandler of the Wolbachia trait. More...

#include <ttwolbachia.h>

Inheritance diagram for TTWolbachiaFH:

Collaboration diagram for TTWolbachiaFH:

Public Member Functions
	TTWolbachiaFH (LCE_Breed_Wolbachia *TP)
virtual	~TTWolbachiaFH ()
void	record (unsigned int repl, unsigned int gen, double infection)
virtual void	FHwrite ()
virtual void	FHread (string &filename)
Public Member Functions inherited from EventFileHandler< LCE_Breed_Wolbachia >
	EventFileHandler (LCE_Breed_Wolbachia *event, const char *ext)
virtual	~EventFileHandler ()
virtual void	FHwrite ()=0
virtual void	FHread (string &filename)=0
virtual void	set (bool rpl_per, bool gen_per, int rpl_occ, int gen_occ, int rank, string path, LCE_Breed_Wolbachia *event)
Public Member Functions inherited from FileHandler
	FileHandler (const char *ext)
virtual	~FileHandler ()
virtual void	init ()
	Called by notifier during simulation setup, performs file checking. More...
virtual vector< string >	ifExist ()
	Checks if any file associated with the current file name already exists on disk. More...
virtual void	set (bool rpl_per, bool gen_per, int rpl_occ, int gen_occ, int rank, string path)
	Sets the hanlder parameters. More...
virtual void	set_multi (bool rpl_per, bool gen_per, int rpl_occ, TMatrix *Occ, string path)
virtual void	FHwrite ()=0
	Default behavior of the class, called by Handler::update(). More...
virtual void	FHread (string &filename)=0
	Default input function. More...
virtual void	update ()
	Updates the inner replicate and generation counters and calls FHwrite if needed by the the periodicity of the file. More...
Metapop *	get_pop_ptr ()
	Returns the pointer to the current metapop through the FileServices interface. More...
void	set_pop_ptr (Metapop *pop_ptr)
FileServices *	get_service ()
	Returns pointer to the FileServices. More...
void	set_service (FileServices *srv)
std::string &	get_path ()
void	set_path ()
std::string &	get_extension ()
void	set_extension (const char *ext)
std::string &	get_filename ()
	Builds and returns the current file name depending on the periodicity of the file. More...
bool	get_isInputHandler ()
void	set_isInputHandler (bool val)
bool	get_isReplicatePeriodic ()
void	set_isReplicatePeriodic (bool val)
unsigned int	get_ReplicateOccurrence ()
void	set_ReplicateOccurrence (unsigned int val)
bool	get_isGenerationPeriodic ()
void	set_isGenerationPeriodic (bool val)
unsigned int	get_GenerationOccurrence ()
void	set_GenerationOccurrence (unsigned int val)
unsigned int	get_ExecRank ()
	unused yet... More...
void	set_ExecRank (int val)
TMatrix *	get_OccMatrix ()
void	set_OccMatrix (TMatrix *occ)
bool	get_isMasterExec ()
void	set_isMasterExec (bool is)
Public Member Functions inherited from Handler
virtual void	init ()=0
	Inits state. More...
virtual void	update ()=0
	Updates the handler state. More...
virtual	~Handler ()

Private Attributes
map< unsigned int, unsigned int >	_times
vector< double >	_rate

Additional Inherited Members
Protected Attributes inherited from EventFileHandler< LCE_Breed_Wolbachia >
LCE_Breed_Wolbachia *	_FHLinkedEvent
Protected Attributes inherited from FileHandler
Metapop *	_pop
	Pointer to the current metapop, set during initialization within the init function. More...

Detailed Description

FileHandler of the Wolbachia trait.

Records the last generation of each replicate; i.e. the generation at which infection is either lost, fixed, or incomplete due to generation time limit.

Constructor & Destructor Documentation

TTWolbachiaFH()

TTWolbachiaFH::TTWolbachiaFH ( LCE_Breed_Wolbachia *  TP )

inline

  : EventFileHandler<LCE_Breed_Wolbachia> (TP, ".wolb")
  { }

~TTWolbachiaFH()

virtual TTWolbachiaFH::~TTWolbachiaFH ( )

inlinevirtual

{ }

Member Function Documentation

FHread()

virtual void TTWolbachiaFH::FHread ( string &  filename )

inlinevirtual

Implements FileHandler.

{}

FHwrite()

void TTWolbachiaFH::FHwrite ( )

virtual

Implements EventFileHandler< LCE_Breed_Wolbachia >.

{
  string filename = get_filename();
  
  ofstream FILE (filename.c_str(), ios::out); 
  
  if(!FILE) fatal("could not open wolbachia output file \"%s\"\n", filename.c_str());
  
  FILE << "replicate\t" << "generation\t" << "infection_rate\n";
  
  unsigned int i = 0;
  
  map<unsigned int, unsigned int>::iterator IT = _times.begin();
  
  while (IT != _times.end() && i < _rate.size() ) {
    FILE << IT->first <<"\t"<< IT->second << "\t" << _rate[i] << endl;
    i++;
    IT++;
  }
  
  FILE.close();
  
}

References _rate, _times, fatal(), and FileHandler::get_filename().

record()

void TTWolbachiaFH::record	(	unsigned int	repl,
		unsigned int	gen,
		double	infection
	)

{
  _times[repl] = gen;
  _rate.push_back(infection);
}

References _rate, and _times.

Referenced by LCE_Breed_Wolbachia::execute().

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Member Data Documentation

_rate

vector< double > TTWolbachiaFH::_rate

private

Referenced by FHwrite(), and record().

_times

map< unsigned int, unsigned int > TTWolbachiaFH::_times

private

Referenced by FHwrite(), and record().

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The documentation for this class was generated from the following files:

• ttwolbachia.h
• ttwolbachia.cc