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// File: IoDiscreteDistribution.h
// Created by: Laurent Guéguen
// Created on: lundi 3 septembre 2012, à 14h 35
//
/*
Copyright or © or Copr. Bio++ Development Team, (November 16, 2004)
This software is a computer program whose purpose is to provide classes
for phylogenetic data analysis.
This software is governed by the CeCILL license under French law and
abiding by the rules of distribution of free software. You can use,
modify and/ or redistribute the software under the terms of the CeCILL
license as circulated by CEA, CNRS and INRIA at the following URL
"http://www.cecill.info".
As a counterpart to the access to the source code and rights to copy,
modify and redistribute granted by the license, users are provided only
with a limited warranty and the software's author, the holder of the
economic rights, and the successive licensors have only limited
liability.
In this respect, the user's attention is drawn to the risks associated
with loading, using, modifying and/or developing or reproducing the
software by the user in light of its specific status of free software,
that may mean that it is complicated to manipulate, and that also
therefore means that it is reserved for developers and experienced
professionals having in-depth computer knowledge. Users are therefore
encouraged to load and test the software's suitability as regards their
requirements in conditions enabling the security of their systems and/or
data to be ensured and, more generally, to use and operate it in the
same conditions as regards security.
The fact that you are presently reading this means that you have had
knowledge of the CeCILL license and that you accept its terms.
*/
#ifndef _IODISCRETEDISTRIBUTION_H_
#define _IODISCRETEDISTRIBUTION_H_
#include "../Numeric/Prob/DiscreteDistribution.h"
#include "../Exceptions.h"
#include "IoFormat.h"
#include "OutputStream.h"
namespace bpp
{
/**
* @brief General interface for model I/O.
*/
class IoDiscreteDistribution:
public virtual IOFormat
{
public:
IoDiscreteDistribution() {}
virtual ~IoDiscreteDistribution() {}
public:
virtual const std::string getDataType() const { return "Discrete Distribution"; }
};
/**
* @brief General interface for distance matrix readers.
*/
class IDiscreteDistribution:
public virtual IoDiscreteDistribution
{
public:
IDiscreteDistribution() {}
virtual ~IDiscreteDistribution() {}
public:
/**
* @brief Read a discrete distribution from a string.
*
* @param distrDescription A string describing the distribution in the format.
* @param parseArguments Attempt to parse function arguments. If not, only store them and use default values instead.
* @return A new DiscreteDistribution object according to options specified.
* @throw Exception if an error occured.
*/
virtual DiscreteDistribution* read(
const std::string& distrDescription,
bool parseArguments = true) = 0;
/**
* @return The arguments and their unparsed values from the last call of the read function, if there are any.
*/
virtual const std::map<std::string, std::string>& getUnparsedArguments() const = 0;
};
/**
* @brief General interface writers.
*/
class ODiscreteDistribution:
public virtual IoDiscreteDistribution
{
public:
ODiscreteDistribution() {}
virtual ~ODiscreteDistribution() {}
public:
/**
* @brief Write a discrete distribution to a stream.
*
* @param dist A discrete distribution object;
* @param out The output stream;
* @param globalAliases parameters linked to global alias.
* @param writtenNames is the vector of the written
* parameters so far [in, out];
* @throw Exception if an error occured.
*/
virtual void write(const DiscreteDistribution& dist,
OutputStream& out,
std::map<std::string, std::string>& globalAliases,
std::vector<std::string>& writtenNames) const = 0;
};
} //end of namespace bpp.
#endif //_IODISCRETEDISTRIBUTION_H_
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