Phylip.h

#ifndef PHYLIP_H
#define PHYLIP_H

#include <vector>
#include <string>
#include "Genes.h"

/// The genes of the set of species under analysis.
///
///     @author Mario Valle - Swiss National Supercomputing Centre (CSCS)
///     @date 2012-02-15 (initial version)
///     @version 1.1
///
///
class Phylip : public Genes {
public:
  /// Constructor
  ///
  /// @param[in] aVerboseLevel The verbosity level
  ///
  explicit Phylip(unsigned int aVerboseLevel = 0) : Genes(aVerboseLevel) {}

private:
  /// Load the gene file in Phylip format.
  ///
  /// @param[in] aFilename The filename containing the genes under analysis
  /// @param[out] aSpecies The list of species read
  /// @param[out] aSequences Array of genes, one per specie
  ///
  /// @exception FastCodeMLFatal On various error conditions
  ///
  virtual void loadData(const char *aFilename,
                        std::vector<std::string> &aSpecies,
                        std::vector<std::string> &aSequences);
};

#endif