AbstractCardiacCellWithModifiers.hpp

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*/

#ifndef ABSTRACTCARDIACCELLWITHMODIFIERS_HPP_
#define ABSTRACTCARDIACCELLWITHMODIFIERS_HPP_

#include <boost/shared_ptr.hpp>
#include <map>
#include <string>

#include "AbstractCvodeCell.hpp"
#include "AbstractCvodeCellWithDataClamp.hpp"
#include "AbstractCardiacCell.hpp"

#include "AbstractModifier.hpp"
#include "AbstractIvpOdeSolver.hpp"
#include "AbstractStimulusFunction.hpp"

#include "ChasteSerialization.hpp"
#include "ClassIsAbstract.hpp"
#include <boost/serialization/shared_ptr.hpp>
#include <boost/serialization/base_object.hpp>
#include <boost/serialization/split_member.hpp>

template<class CARDIAC_CELL>
class AbstractCardiacCellWithModifiers : public CARDIAC_CELL
{
private:
    friend class boost::serialization::access;
    template<class Archive>
    void save(Archive & archive, const unsigned int version) const
    {
        // This calls serialize on the base class.
        archive & boost::serialization::base_object<CARDIAC_CELL>(*this);

        // This is a bit unusual - as it contains pointers to member variables in the subclasses.
        // So we deal with it specially on reloading below.
        // The map is always set up in the same way, so should be in the same order, but we'll
        // archive the names as well for testing on load to be on the safe side.
        std::map<std::string, boost::shared_ptr<AbstractModifier>* >::const_iterator iter;
        for (iter = mModifiersMap.begin(); iter!= mModifiersMap.end(); ++iter)
        {
            const boost::shared_ptr<AbstractModifier>* p_to_smart_pointer = (*iter).second;
            const boost::shared_ptr<AbstractModifier> p_modifier = *p_to_smart_pointer;
            archive & (*iter).first; // Name of the modifier
            archive & p_modifier;    // Modifier
        }
    }
    template<class Archive>
    void load(Archive & archive, const unsigned int version)
    {
        // This calls serialize on the base class.
        archive & boost::serialization::base_object<CARDIAC_CELL>(*this);

        // We have made new smart pointers to dummy modifiers via the constructor, so instead of overwriting
        // these pointers with new pointers (leaving a memory leak), go through and make the existing pointers
        // point to the correct modifiers again!
        std::map<std::string, boost::shared_ptr<AbstractModifier>* >::iterator iter;
        for (iter = mModifiersMap.begin(); iter!= mModifiersMap.end(); ++iter)
        {
            boost::shared_ptr<AbstractModifier>* p_to_constructed_smart_pointer = (*iter).second;
            boost::shared_ptr<AbstractModifier> p_loaded;
            std::string modifier_name;
            archive & modifier_name;  // Name of the modifier
            archive & p_loaded;       // Modifier

            // Paranoia check that this is the modifier we think it is.
            if ((*iter).first != modifier_name)
            {
                NEVER_REACHED;
                // You're in trouble.
                // If this breaks, perhaps change this loop to do the right number and
                // use modifier_name as mModifiersMap key instead.
            }

            // Set the constructed smart pointer to be the same as the loaded one.
            *(p_to_constructed_smart_pointer) = p_loaded;
        }
    }
    BOOST_SERIALIZATION_SPLIT_MEMBER()

    
    std::map<std::string, boost::shared_ptr<AbstractModifier>* > mModifiersMap;

protected:
    void AddModifier(std::string modifierName, boost::shared_ptr<AbstractModifier>& pModifier);

public:
    AbstractCardiacCellWithModifiers(boost::shared_ptr<AbstractIvpOdeSolver> pOdeSolver,
                                     unsigned numberOfStateVariables,
                                     unsigned voltageIndex,
                                     boost::shared_ptr<AbstractStimulusFunction> pIntracellularStimulus);

    boost::shared_ptr<AbstractModifier> GetModifier(const std::string& rModifierName);

    bool HasModifier(const std::string& rModifierName) const;

    void SetModifier(const std::string& rModifierName, boost::shared_ptr<AbstractModifier>& pNewModifier);
};

// Special case of archiving an abstract class that's templated over Chaste classes.
// See the comments in the top of global/src/checkpointing/ClassIsAbstract.hpp
namespace boost {
namespace serialization {

    template<class C>
    struct is_abstract<AbstractCardiacCellWithModifiers<C> >
        TEMPLATED_CLASS_IS_ABSTRACT_DEFN

    template<class C>
    struct is_abstract<const AbstractCardiacCellWithModifiers<C> >
        TEMPLATED_CLASS_IS_ABSTRACT_DEFN
}}


#endif // ABSTRACTCARDIACCELLWITHMODIFIERS_HPP_