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#include <QtCore>

#include <QtSql>

#include "global.h"

#include "xmlhelper.h"

#include "speciesset.h"

#include "species.h"

SpeciesSet::SpeciesSet()

{

    mSetupQuery = 0;

}

SpeciesSet::~SpeciesSet()

{

   clear();

}

void SpeciesSet::clear()

{

    qDeleteAll(mSpecies.values());

    mSpecies.clear();

    mActiveSpecies.clear();

}

const Species *SpeciesSet::species(const int &index)

{

    foreach(Species *s, mSpecies)

        if (s->index() == index)

            return s;

    return NULL;

}

/** loads active species from a database table and creates/setups the species.

    The function uses the global database-connection.

  */

int SpeciesSet::setup()

{

    // setup phenology

    setupPhenology();

    const XmlHelper &xml = GlobalSettings::instance()->settings();

    QString tableName = xml.value("model.species.source", "species");

    QString readerFile = xml.value("model.species.reader", "reader.bin");

    readerFile = GlobalSettings::instance()->path(readerFile, "lip");

    mReaderStamp.load(readerFile);

    QSqlQuery query(GlobalSettings::instance()->dbin());

    mSetupQuery = &query;

    QString sql = QString("select * from %1").arg(tableName);

    query.exec(sql);

    clear();

    qDebug() << "attempting to load a species set from" << tableName;

    while (query.next()) {

        if (var("active").toInt()==0)

            continue;

        Species *s = new Species(this); // create

        // call setup routine (which calls SpeciesSet::var() to retrieve values

        s->setup();

        mSpecies.insert(s->id(), s); // store

        if (s->active())

            mActiveSpecies.append(s);

    } // while query.next()

    qDebug() << "loaded" << mSpecies.count() << "active species:";

    qDebug() << mSpecies.keys();

    mSetupQuery = 0;

    // setup nitrogen response

    XmlHelper resp(xml.node("model.species.nitrogenResponseClasses"));

    if (!resp.isValid())

        throw IException("model.species.nitrogenResponseClasses not present!");

    mNitrogen_1a = resp.valueDouble("class_1_a");

    mNitrogen_1b = resp.valueDouble("class_1_b");

    mNitrogen_2a = resp.valueDouble("class_2_a");

    mNitrogen_2b = resp.valueDouble("class_2_b");

    mNitrogen_3a = resp.valueDouble("class_3_a");

    mNitrogen_3b = resp.valueDouble("class_3_b");

    if (mNitrogen_1a*mNitrogen_1b*mNitrogen_2a*mNitrogen_2b*mNitrogen_3a*mNitrogen_3b == 0)

        throw IException("at least one parameter of model.species.nitrogenResponseClasses is not valid (value=0)!");

    // setup CO2 response

    XmlHelper co2(xml.node("model.species.CO2Response"));

    mCO2base = co2.valueDouble("baseConcentration");

    mCO2comp = co2.valueDouble("compensationPoint");

    mCO2beta0 = co2.valueDouble("beta0");

    mCO2p0 = co2.valueDouble("p0");

    if (mCO2base*mCO2comp*(mCO2base-mCO2comp)*mCO2beta0*mCO2p0==0)

        throw IException("at least one parameter of model.species.CO2Response is not valid!");

    return mSpecies.count();

}

void SpeciesSet::setupPhenology()

{

    mPhenology.clear();

    mPhenology.push_back(Phenology()); // id=0

    XmlHelper xml(GlobalSettings::instance()->settings().node("model.species.phenology"));

    int i=0;

    do {

        QDomElement n = xml.node(QString("type[%1]").arg(i));

        if (n.isNull())

            break;

        i++;

        int id;

        id = n.attribute("id", "-1").toInt();

        if (id<0) throw IException(QString("Error setting up phenology: id invalid\ndump: %1").arg(xml.dump("")));

        xml.setCurrentNode(QString("type[%1]").arg(i));

        Phenology item( id,

                        xml.valueDouble(".vpdMin",0.5), // use relative access to node (".x")

                        xml.valueDouble(".vpdMax", 5),

                        xml.valueDouble(".minDayLength",10),

                        xml.valueDouble(".maxDayLength",11),

                        xml.valueDouble(".tempMin", 2),

                        xml.valueDouble(".tempMax", 9) );

        mPhenology.push_back(item);

    } while(true);

}

/** retrieves variables from the datasource available during the setup of species.

  */

QVariant SpeciesSet::var(const QString& varName)

{

    Q_ASSERT(mSetupQuery!=0);

    int idx = mSetupQuery->record().indexOf(varName);

    if (idx>=0)

        return mSetupQuery->value(idx);

    throw IException(QString("SpeciesSet: variable not set: %1").arg(varName));

    //throw IException(QString("load species parameter: field %1 not found!").arg(varName));

    // lookup in defaults

    //qDebug() << "variable" << varName << "not found - using default.";

    //return GlobalSettings::instance()->settingDefaultValue(varName);

}

inline double SpeciesSet::nitrogenResponse(const double &availableNitrogen, const double &NA, const double &NB) const

{

    if (availableNitrogen<=NB)

        return 0;

    double x = 1. - exp(NA * (availableNitrogen-NB));

    return x;

}

/// calculate nitrogen response for a given amount of available nitrogen and a respone class

/// for fractional values, the response value is interpolated between the fixedly defined classes (1,2,3)

double SpeciesSet::nitrogenResponse(const double availableNitrogen, const double &responseClass) const

{

    double value1, value2, value3;

    if (responseClass>2.) {

        if (responseClass==3.)

            return nitrogenResponse(availableNitrogen, mNitrogen_3a, mNitrogen_3b);

        else {

            // interpolate between 2 and 3

            value2 = nitrogenResponse(availableNitrogen, mNitrogen_2a, mNitrogen_2b);

            value3 = nitrogenResponse(availableNitrogen, mNitrogen_3a, mNitrogen_3b);

            return value2 + (responseClass-2)*(value3-value2);

        }

    }

    if (responseClass==2)

        return nitrogenResponse(availableNitrogen, mNitrogen_2a, mNitrogen_2b);

    if (responseClass==1)

        return nitrogenResponse(availableNitrogen, mNitrogen_1a, mNitrogen_1b);

    // last ressort: interpolate between 1 and 2

    value1 = nitrogenResponse(availableNitrogen, mNitrogen_1a, mNitrogen_1b);

    value2 = nitrogenResponse(availableNitrogen, mNitrogen_2a, mNitrogen_2b);

    return value1 + (responseClass-1)*(value2-value1);

}

/** calculation for the CO2 response for the ambientCO2 for the water- and nitrogen responses given.

    The calculation follows Friedlingsstein 1995 (see also links to equations in code)

*/

double SpeciesSet::co2Response(const double ambientCO2, const double nitrogenResponse, const double soilWaterResponse) const

{

    if (nitrogenResponse==0)

        return 0.;

    double co2_water = 2. - soilWaterResponse;

    double beta = mCO2beta0 * co2_water * nitrogenResponse;

    double r =1. +  M_LN2 * beta; // NPP increase for a doubling of atmospheric CO2 (Eq. 17)

    // fertilization function (cf. Farquhar, 1980) based on Michaelis-Menten expressions

    double deltaC = mCO2base - mCO2comp;

    double K2 = ((2*mCO2base - mCO2comp) - r*deltaC ) / ((r-1.)*deltaC*(2*mCO2base - mCO2comp)); // Eq. 16

    double K1 = (1. + K2*deltaC) / deltaC;

    double response = mCO2p0 * K1*(ambientCO2 - mCO2comp) / (1 + K2*(ambientCO2-mCO2comp)); // Eq. 16

    return response;

}

/** return the phenology of the group... */

const Phenology &SpeciesSet::phenology(const int phenologyGroup)

{

    const Phenology &p = mPhenology.at(phenologyGroup);

    if (p.id() == phenologyGroup)

        return p;

    // search...

    for (int i=0;i<mPhenology.count();i++)

        if (mPhenology[i].id()==phenologyGroup)

            return mPhenology[i];

    throw IException(QString("Error at SpeciesSEt::phenology(): invalid group: %1").arg(phenologyGroup));

}