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1 | |||
91 | Werner | 2 | #include <QtCore> |
3 | #include <QtSql> |
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4 | #include "global.h" |
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102 | Werner | 5 | #include "xmlhelper.h" |
90 | Werner | 6 | #include "speciesset.h" |
91 | Werner | 7 | #include "species.h" |
90 | Werner | 8 | |
9 | SpeciesSet::SpeciesSet() |
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10 | { |
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91 | Werner | 11 | mSetupQuery = 0; |
90 | Werner | 12 | } |
91 | Werner | 13 | |
14 | SpeciesSet::~SpeciesSet() |
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15 | { |
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16 | clear(); |
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17 | } |
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18 | |||
19 | void SpeciesSet::clear() |
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20 | { |
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21 | qDeleteAll(mSpecies.values()); |
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22 | mSpecies.clear(); |
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179 | werner | 23 | mActiveSpecies.clear(); |
91 | Werner | 24 | } |
25 | |||
111 | Werner | 26 | const Species *SpeciesSet::species(const int &index) |
27 | { |
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28 | foreach(Species *s, mSpecies) |
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29 | if (s->index() == index) |
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30 | return s; |
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31 | return NULL; |
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32 | } |
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91 | Werner | 33 | |
34 | /** loads active species from a database table and creates/setups the species. |
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35 | The function uses the global database-connection. |
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36 | */ |
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102 | Werner | 37 | int SpeciesSet::setup() |
91 | Werner | 38 | { |
102 | Werner | 39 | const XmlHelper &xml = GlobalSettings::instance()->settings(); |
191 | werner | 40 | QString tableName = xml.value("model.species.source", "species"); |
41 | QString readerFile = xml.value("model.species.reader", "reader.bin"); |
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102 | Werner | 42 | readerFile = GlobalSettings::instance()->path(readerFile, "lip"); |
43 | mReaderStamp.load(readerFile); |
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44 | |||
91 | Werner | 45 | QSqlQuery query(GlobalSettings::instance()->dbin()); |
46 | mSetupQuery = &query; |
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47 | QString sql = QString("select * from %1").arg(tableName); |
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48 | query.exec(sql); |
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270 | werner | 49 | if (query.lastError().isValid()){ |
50 | throw IException(QString("Error loading species set: %1 \n %2").arg(sql, query.lastError().text()) ); |
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51 | } |
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52 | |||
91 | Werner | 53 | clear(); |
54 | qDebug() << "attempting to load a species set from" << tableName; |
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55 | while (query.next()) { |
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56 | if (var("active").toInt()==0) |
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57 | continue; |
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58 | |||
59 | Species *s = new Species(this); // create |
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99 | Werner | 60 | // call setup routine (which calls SpeciesSet::var() to retrieve values |
91 | Werner | 61 | s->setup(); |
62 | |||
63 | mSpecies.insert(s->id(), s); // store |
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179 | werner | 64 | if (s->active()) |
65 | mActiveSpecies.append(s); |
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91 | Werner | 66 | } // while query.next() |
67 | qDebug() << "loaded" << mSpecies.count() << "active species:"; |
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68 | qDebug() << mSpecies.keys(); |
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69 | |||
70 | mSetupQuery = 0; |
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209 | werner | 71 | |
72 | // setup nitrogen response |
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73 | XmlHelper resp(xml.node("model.species.nitrogenResponseClasses")); |
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74 | if (!resp.isValid()) |
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75 | throw IException("model.species.nitrogenResponseClasses not present!"); |
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76 | mNitrogen_1a = resp.valueDouble("class_1_a"); |
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77 | mNitrogen_1b = resp.valueDouble("class_1_b"); |
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78 | mNitrogen_2a = resp.valueDouble("class_2_a"); |
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79 | mNitrogen_2b = resp.valueDouble("class_2_b"); |
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80 | mNitrogen_3a = resp.valueDouble("class_3_a"); |
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81 | mNitrogen_3b = resp.valueDouble("class_3_b"); |
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82 | if (mNitrogen_1a*mNitrogen_1b*mNitrogen_2a*mNitrogen_2b*mNitrogen_3a*mNitrogen_3b == 0) |
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83 | throw IException("at least one parameter of model.species.nitrogenResponseClasses is not valid (value=0)!"); |
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84 | |||
85 | // setup CO2 response |
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86 | XmlHelper co2(xml.node("model.species.CO2Response")); |
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87 | mCO2base = co2.valueDouble("baseConcentration"); |
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88 | mCO2comp = co2.valueDouble("compensationPoint"); |
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89 | mCO2beta0 = co2.valueDouble("beta0"); |
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90 | mCO2p0 = co2.valueDouble("p0"); |
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91 | if (mCO2base*mCO2comp*(mCO2base-mCO2comp)*mCO2beta0*mCO2p0==0) |
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92 | throw IException("at least one parameter of model.species.CO2Response is not valid!"); |
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93 | |||
274 | werner | 94 | // setup Light responses |
95 | XmlHelper light(xml.node("model.species.lightResponse")); |
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96 | mLightResponseTolerant.setAndParse(light.value("shadeTolerant")); |
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97 | mLightResponseIntolerant.setAndParse(light.value("shadeIntolerant")); |
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98 | if (mLightResponseTolerant.expression().isEmpty() || mLightResponseIntolerant.expression().isEmpty()) |
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99 | throw IException("at least one parameter of model.species.lightResponse is empty!"); |
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100 | |||
91 | Werner | 101 | return mSpecies.count(); |
102 | |||
103 | } |
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211 | werner | 104 | |
105 | |||
91 | Werner | 106 | /** retrieves variables from the datasource available during the setup of species. |
107 | */ |
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108 | QVariant SpeciesSet::var(const QString& varName) |
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109 | { |
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94 | Werner | 110 | Q_ASSERT(mSetupQuery!=0); |
91 | Werner | 111 | |
112 | int idx = mSetupQuery->record().indexOf(varName); |
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113 | if (idx>=0) |
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114 | return mSetupQuery->value(idx); |
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125 | Werner | 115 | throw IException(QString("SpeciesSet: variable not set: %1").arg(varName)); |
120 | Werner | 116 | //throw IException(QString("load species parameter: field %1 not found!").arg(varName)); |
91 | Werner | 117 | // lookup in defaults |
119 | Werner | 118 | //qDebug() << "variable" << varName << "not found - using default."; |
119 | //return GlobalSettings::instance()->settingDefaultValue(varName); |
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91 | Werner | 120 | } |
209 | werner | 121 | |
122 | inline double SpeciesSet::nitrogenResponse(const double &availableNitrogen, const double &NA, const double &NB) const |
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123 | { |
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124 | if (availableNitrogen<=NB) |
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125 | return 0; |
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126 | double x = 1. - exp(NA * (availableNitrogen-NB)); |
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127 | return x; |
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128 | } |
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129 | |||
130 | /// calculate nitrogen response for a given amount of available nitrogen and a respone class |
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131 | /// for fractional values, the response value is interpolated between the fixedly defined classes (1,2,3) |
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132 | double SpeciesSet::nitrogenResponse(const double availableNitrogen, const double &responseClass) const |
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133 | { |
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134 | double value1, value2, value3; |
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135 | if (responseClass>2.) { |
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136 | if (responseClass==3.) |
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137 | return nitrogenResponse(availableNitrogen, mNitrogen_3a, mNitrogen_3b); |
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138 | else { |
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139 | // interpolate between 2 and 3 |
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140 | value2 = nitrogenResponse(availableNitrogen, mNitrogen_2a, mNitrogen_2b); |
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141 | value3 = nitrogenResponse(availableNitrogen, mNitrogen_3a, mNitrogen_3b); |
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142 | return value2 + (responseClass-2)*(value3-value2); |
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143 | } |
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144 | } |
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145 | if (responseClass==2) |
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146 | return nitrogenResponse(availableNitrogen, mNitrogen_2a, mNitrogen_2b); |
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147 | if (responseClass==1) |
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148 | return nitrogenResponse(availableNitrogen, mNitrogen_1a, mNitrogen_1b); |
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149 | // last ressort: interpolate between 1 and 2 |
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150 | value1 = nitrogenResponse(availableNitrogen, mNitrogen_1a, mNitrogen_1b); |
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151 | value2 = nitrogenResponse(availableNitrogen, mNitrogen_2a, mNitrogen_2b); |
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152 | return value1 + (responseClass-1)*(value2-value1); |
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153 | } |
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154 | |||
155 | /** calculation for the CO2 response for the ambientCO2 for the water- and nitrogen responses given. |
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156 | The calculation follows Friedlingsstein 1995 (see also links to equations in code) |
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157 | */ |
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158 | double SpeciesSet::co2Response(const double ambientCO2, const double nitrogenResponse, const double soilWaterResponse) const |
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159 | { |
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210 | werner | 160 | if (nitrogenResponse==0) |
161 | return 0.; |
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162 | |||
209 | werner | 163 | double co2_water = 2. - soilWaterResponse; |
164 | double beta = mCO2beta0 * co2_water * nitrogenResponse; |
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165 | |||
166 | double r =1. + M_LN2 * beta; // NPP increase for a doubling of atmospheric CO2 (Eq. 17) |
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167 | |||
168 | // fertilization function (cf. Farquhar, 1980) based on Michaelis-Menten expressions |
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169 | double deltaC = mCO2base - mCO2comp; |
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170 | double K2 = ((2*mCO2base - mCO2comp) - r*deltaC ) / ((r-1.)*deltaC*(2*mCO2base - mCO2comp)); // Eq. 16 |
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171 | double K1 = (1. + K2*deltaC) / deltaC; |
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172 | |||
173 | double response = mCO2p0 * K1*(ambientCO2 - mCO2comp) / (1 + K2*(ambientCO2-mCO2comp)); // Eq. 16 |
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174 | return response; |
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175 | |||
176 | } |
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211 | werner | 177 | |
274 | werner | 178 | /** calculates the lightResponse based on a value for LRI and the species lightResponseClass. |
179 | LightResponse is classified from 1 (very shade inolerant) and 5 (very shade tolerant) and interpolated for values between 1 and 5. |
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298 | werner | 180 | Returns a value between 0..1 |
181 | @sa http://iland.boku.ac.at/allocation#reserve_and_allocation_to_stem_growth */ |
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274 | werner | 182 | double SpeciesSet::lightResponse(const double lightResourceIndex, const double lightResponseClass) |
183 | { |
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184 | QMutexLocker l(&mMutex); // serialize access to calculations |
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185 | double low = mLightResponseIntolerant.calculate(lightResourceIndex); |
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186 | double high = mLightResponseTolerant.calculate(lightResourceIndex); |
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187 | double result = low + 0.25*(lightResponseClass-1.)*(high-low); |
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188 | return limit(result, 0., 1.); |
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214 | werner | 189 | |
274 | werner | 190 | } |
191 | |||
192 | |||
193 |