rod_model.h

#ifndef ROD_MODEL_H
#define ROD_MODEL_H
 
#include "biolcccexception.h"
#include "chemicalbasis.h"
 
namespace BioLCCC
{
 
double partitionFunctionRodPartiallySubmergedTermSpecial(
    double segmentLength, double slitWidth, double layerWidth,
    int N, int n1);
 
double partitionFunctionRodPartiallySubmergedTermGeneral(
    double segmentLength, double slitWidth, double layerWidth,
    int N, int n1, int n2);
 
double rodAdsorptionEnergy(const std::vector<double> & rodEnergyProfile,
                           int n1, int n2);
 
double partitionFunctionRodFreeSlit(double rodLength,
                                    double slitWidth);
 
 
double partitionFunctionRodPartiallySubmergedGeneral(
    double segmentLength,
    double slitWidth,
    double layerWidth,
    const std::vector<double> & rodEnergyProfile,
    bool reversed = false);
 
 
double partitionFunctionRodPartiallySubmergedSpecial(
    double segmentLength,
    double slitWidth,
    double layerWidth,
    const std::vector<double> & rodEnergyProfile,
    bool reversed = false);
 
double partitionFunctionRodFreeVolume(double rodLength,
                                      double slitWidth);
 
double calculateKdRod(
    const std::vector<ChemicalGroup> &parsedSequence,
    const double secondSolventConcentration,
    const ChemicalBasis &chemBasis,
    const double columnPoreSize,
    const double columnRelativeStrength,
    const double temperature
    );
}
 
#endif