Mercurial > dive4elements > river

annotate artifacts/src/main/java/org/dive4elements/river/artifacts/model/minfo/BedQualityCalculation.java @ 8587:07c9ac22f611

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(issue1755) Generalise BedQuality result handling The bedquality calculation now produces a result for each time period which has BedQualityResultValues for each specific result type. Formally this was split up in density, porosity and diameter classes with some bedload diameter classes mixed in for extra fun. The intent of this commit is to allow more shared code and generic access patterns to the BedQuality results.
author Andre Heinecke <andre.heinecke@intevation.de>
date Wed, 18 Mar 2015 18:42:08 +0100
parents 59b4f6cf1cf4
children 36faef4f8acb
rev   line source
5863
4897a58c8746 River artifacts: Added new copyright headers.
Sascha L. Teichmann <teichmann@intevation.de>
parents: 5838
diff changeset
1 /* Copyright (C) 2011, 2012, 2013 by Bundesanstalt für Gewässerkunde
4897a58c8746 River artifacts: Added new copyright headers.
Sascha L. Teichmann <teichmann@intevation.de>
parents: 5838
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2 * Software engineering by Intevation GmbH
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3 *
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4 * This file is Free Software under the GNU AGPL (>=v3)
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5 * and comes with ABSOLUTELY NO WARRANTY! Check out the
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6 * documentation coming with Dive4Elements River for details.
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7 */
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8
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9 package org.dive4elements.river.artifacts.model.minfo;
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10
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11 import gnu.trove.TDoubleArrayList;
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12
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13 import java.util.LinkedList;
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14 import java.util.List;
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15 import java.util.Map;
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16
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17 import org.apache.log4j.Logger;
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18
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19 import org.dive4elements.river.artifacts.access.BedQualityAccess;
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20 import org.dive4elements.river.artifacts.model.Calculation;
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21 import org.dive4elements.river.artifacts.model.CalculationResult;
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22 import org.dive4elements.river.artifacts.model.DateRange;
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23 import org.dive4elements.river.backend.SedDBSessionHolder;
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24
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25
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26 public class BedQualityCalculation extends Calculation {
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27
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28 private static final Logger log = Logger
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29 .getLogger(BedQualityCalculation.class);
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30
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31 protected String river;
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32 protected double from;
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33 protected double to;
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34 protected List<String> bedDiameter;
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35 protected List<String> bedloadDiameter;
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36 protected List<DateRange> ranges;
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37
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38 public BedQualityCalculation() {
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39 }
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40
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41 public CalculationResult calculate(BedQualityAccess access) {
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42 log.info("BedQualityCalculation.calculate");
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43
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44 String river = access.getRiverName();
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45 Double from = access.getFrom();
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46 Double to = access.getTo();
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47 List<String> bedDiameter = access.getBedDiameter();
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48 List<String> bedloadDiameter = access.getBedloadDiameter();
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49 List<DateRange> ranges = access.getDateRanges();
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50
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51 if (river == null) {
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52 // TODO: i18n
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53 addProblem("minfo.missing.river");
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54 }
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55
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56 if (from == null) {
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57 // TODO: i18n
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58 addProblem("minfo.missing.from");
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59 }
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60
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61 if (to == null) {
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62 // TODO: i18n
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63 addProblem("minfo.missing.to");
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64 }
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65
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66 if (ranges == null) {
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67 // TODO: i18n
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68 addProblem("minfo.missing.periods");
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69 }
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70
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71 if (!hasProblems()) {
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72 this.river = river;
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73 this.from = from;
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74 this.to = to;
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75 this.ranges = ranges;
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76 this.bedDiameter = bedDiameter;
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77 this.bedloadDiameter = bedloadDiameter;
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78
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79 SedDBSessionHolder.acquire();
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80 try {
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81 return internalCalculate();
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82 }
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83 finally {
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84 SedDBSessionHolder.release();
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85 }
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86 }
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87
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88 return new CalculationResult();
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89 }
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90
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91 protected CalculationResult internalCalculate() {
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92
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93 List<BedQualityResult> results = new LinkedList<BedQualityResult>();
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94 // Calculate for all time periods.
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95 for (DateRange dr : ranges) {
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96 QualityMeasurements loadMeasurements =
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97 QualityMeasurementFactory.getBedloadMeasurements(
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98 river,
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99 from,
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100 to,
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101 dr.getFrom(),
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102 dr.getTo());
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103 QualityMeasurements bedMeasurements =
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104 QualityMeasurementFactory.getBedMeasurements(
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105 river,
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106 from,
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107 to,
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108 dr.getFrom(),
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109 dr.getTo());
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110 BedQualityResult result = new BedQualityResult();
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111 result.setDateRange(dr);
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112 if (bedDiameter != null) {
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113 result.add(calculateBedParameter(bedMeasurements));
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114 for (String bd : bedDiameter) {
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115 result.add (calculateBed(bedMeasurements, bd));
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116 }
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117 }
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118 if (bedloadDiameter != null) {
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119 for (String bld : bedloadDiameter) {
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120 result.add(calculateBedload(loadMeasurements, bld));
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121 }
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122 }
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123 results.add(result);
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124 }
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125
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126 return new CalculationResult(
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127 results.toArray(new BedQualityResult[results.size()]), this);
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128 }
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129
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130 private BedQualityResultValue[] calculateBedParameter(
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131 QualityMeasurements qm
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132 ) {
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133 List<Double> kms = qm.getKms();
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134 TDoubleArrayList location = new TDoubleArrayList();
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135 QualityMeasurements capFiltered = filterCapMeasurements(qm);
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136 QualityMeasurements subFiltered = filterSubMeasurements(qm);
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137 TDoubleArrayList porosityCap = new TDoubleArrayList();
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138 TDoubleArrayList porositySub = new TDoubleArrayList();
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139 TDoubleArrayList densityCap = new TDoubleArrayList();
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140 TDoubleArrayList densitySub = new TDoubleArrayList();
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141
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142 for(double km : kms) {
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143 double[] pCap = calculatePorosity(capFiltered, km);
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144 double[] pSub = calculatePorosity(subFiltered, km);
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145 double[] dCap = calculateDensity(capFiltered, pCap);
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146 double[] dSub = calculateDensity(subFiltered, pSub);
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147
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148 double pCapRes = 0d;
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149 double pSubRes = 0d;
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150 double dCapRes = 0d;
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151 double dSubRes = 0d;
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152 for (int i = 0; i < pCap.length; i++) {
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153 pCapRes += pCap[i];
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154 dCapRes += dCap[i];
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155 }
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156 for (int i = 0; i < pSub.length; i++) {
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157 pSubRes += pSub[i];
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158 dSubRes += dSub[i];
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159 }
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160 location.add(km);
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161 porosityCap.add((pCapRes / pCap.length) * 100 );
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162 porositySub.add((pSubRes / pSub.length) * 100);
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163 densityCap.add((dCapRes / dCap.length) / 1000);
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164 densitySub.add((dSubRes / dSub.length) / 1000);
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165
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166 }
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167 return new BedQualityResultValue[] {
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168 new BedQualityResultValue("porosity",
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169 new double[][] {location.toNativeArray(), porositySub.toNativeArray()},
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170 "sublayer"),
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171 new BedQualityResultValue("porosity",
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172 new double[][] {location.toNativeArray(), porosityCap.toNativeArray()},
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173 "toplayer"),
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174 new BedQualityResultValue("density",
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175 new double[][] {location.toNativeArray(), densitySub.toNativeArray()},
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176 "sublayer"),
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177 new BedQualityResultValue("density",
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178 new double[][] {location.toNativeArray(), densityCap.toNativeArray()},
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179 "toplayer")};
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180 }
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181
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182 protected BedQualityResultValue[] calculateBed(
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183 QualityMeasurements qm,
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184 String diameter
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185 ) {
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186 List<Double> kms = qm.getKms();
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187 TDoubleArrayList location = new TDoubleArrayList();
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188 TDoubleArrayList avDiameterCap = new TDoubleArrayList();
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189 TDoubleArrayList avDiameterSub = new TDoubleArrayList();
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190 QualityMeasurements capFiltered = filterCapMeasurements(qm);
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191 QualityMeasurements subFiltered = filterSubMeasurements(qm);
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192
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193 for (double km : kms) {
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194 //Filter cap and sub measurements.
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195 List<QualityMeasurement> cm = capFiltered.getMeasurements(km);
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196 List<QualityMeasurement> sm = subFiltered.getMeasurements(km);
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197
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198 double avCap = calculateAverage(cm, diameter);
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199 double avSub = calculateAverage(sm, diameter);
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200 location.add(km);
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201 avDiameterCap.add(avCap * 1000);// bring to mm.
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202 avDiameterSub.add(avSub * 1000);
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203 }
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204 return new BedQualityResultValue[] {
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205 new BedQualityResultValue(diameter,
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206 new double[][] {location.toNativeArray(), avDiameterSub.toNativeArray()},
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207 "sublayer"),
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208 new BedQualityResultValue(diameter,
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209 new double[][] {location.toNativeArray(), avDiameterCap.toNativeArray()},
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210 "toplayer")};
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211 }
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212
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213 private double[] calculateDensity(
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214 QualityMeasurements capFiltered,
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215 double[] porosity
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216 ) {
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217 double[] density = new double[porosity.length];
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218 for (int i = 0; i < porosity.length; i++) {
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219 density[i] = (1 - porosity[i]) * 2650;
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220 }
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221 return density;
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222 }
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223
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224 private double[] calculatePorosity(
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225 QualityMeasurements capFiltered,
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226 double km
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227 ) {
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228 List<QualityMeasurement> list = capFiltered.getMeasurements(km);
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229 double[] results = new double[list.size()];
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230 int i = 0;
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231 for (QualityMeasurement qm : list) {
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232 double deviation = calculateDeviation(qm);
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233 double p = calculateP(qm);
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234 double porosity = 0.362 - 0.088 * deviation + 0.219 * p;
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235 results[i] = porosity;
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236 i++;
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237 }
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238
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239 return results;
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240 }
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241
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242 protected BedQualityResultValue calculateBedload(
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243 QualityMeasurements qm,
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244 String diameter
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245 ) {
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246 List<Double> kms = qm.getKms();
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247 TDoubleArrayList location = new TDoubleArrayList();
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248 TDoubleArrayList avDiameter = new TDoubleArrayList();
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249 for (double km : kms) {
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250 List<QualityMeasurement> measurements = qm.getMeasurements(km);
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251 double mid = calculateAverage(measurements, diameter);
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252 location.add(km);
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253 avDiameter.add(mid * 1000);
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254 }
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255 return new BedQualityResultValue(diameter,
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Andre Heinecke <andre.heinecke@intevation.de>
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diff changeset
256 new double[][] {location.toNativeArray(), avDiameter.toNativeArray()},
07c9ac22f611 (issue1755) Generalise BedQuality result handling
Andre Heinecke <andre.heinecke@intevation.de>
parents: 8563
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257 "bedload");
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Raimund Renkert <raimund.renkert@intevation.de>
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258 }
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259
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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260 protected double calculateAverage(
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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261 List<QualityMeasurement> list,
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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262 String diameter
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263 ) {
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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264 double av = 0;
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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265 for (QualityMeasurement qm : list) {
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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266 av += qm.getDiameter(diameter);
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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267 }
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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268 return av/list.size();
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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269 }
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parents: 3760
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270
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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271 protected QualityMeasurements filterCapMeasurements(
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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272 QualityMeasurements qms
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parents: 3760
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273 ) {
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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274 List<QualityMeasurement> result = new LinkedList<QualityMeasurement>();
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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275 for (QualityMeasurement qm : qms.getMeasurements()) {
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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276 if (qm.getDepth1() == 0d && qm.getDepth2() <= 0.3) {
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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277 result.add(qm);
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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278 }
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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279 }
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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280 return new QualityMeasurements(result);
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parents: 3760
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281 }
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282
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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283 protected QualityMeasurements filterSubMeasurements(
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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284 QualityMeasurements qms
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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285 ) {
728ecd2afa20 Implemented bed quality calculation in minfo module.
Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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286 List<QualityMeasurement> result = new LinkedList<QualityMeasurement>();
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
diff changeset
287 for (QualityMeasurement qm : qms.getMeasurements()) {
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
diff changeset
288 if (qm.getDepth1() > 0d && qm.getDepth2() <= 0.5) {
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
diff changeset
289 result.add(qm);
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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290 }
728ecd2afa20 Implemented bed quality calculation in minfo module.
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parents: 3760
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291 }
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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292 return new QualityMeasurements(result);
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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293 }
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294
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Raimund Renkert <raimund.renkert@intevation.de>
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295 public double calculateDeviation(QualityMeasurement qm) {
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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296 Map<String, Double> dm = qm.getAllDiameter();
6151
63d1e2a9b311 Bed quality calculation: Replaced another iteration over the key set + directly fetching the values withan iteration over the entry set.
Sascha L. Teichmann <teichmann@intevation.de>
parents: 6150
diff changeset
297 int size = dm.size();
63d1e2a9b311 Bed quality calculation: Replaced another iteration over the key set + directly fetching the values withan iteration over the entry set.
Sascha L. Teichmann <teichmann@intevation.de>
parents: 6150
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298
63d1e2a9b311 Bed quality calculation: Replaced another iteration over the key set + directly fetching the values withan iteration over the entry set.
Sascha L. Teichmann <teichmann@intevation.de>
parents: 6150
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299 double phiM = 0;
63d1e2a9b311 Bed quality calculation: Replaced another iteration over the key set + directly fetching the values withan iteration over the entry set.
Sascha L. Teichmann <teichmann@intevation.de>
parents: 6150
diff changeset
300 double [] phis = new double[size];
63d1e2a9b311 Bed quality calculation: Replaced another iteration over the key set + directly fetching the values withan iteration over the entry set.
Sascha L. Teichmann <teichmann@intevation.de>
parents: 6150
diff changeset
301 double [] ps = new double[size];
63d1e2a9b311 Bed quality calculation: Replaced another iteration over the key set + directly fetching the values withan iteration over the entry set.
Sascha L. Teichmann <teichmann@intevation.de>
parents: 6150
diff changeset
302 double scale = -1d/Math.log(2d);
63d1e2a9b311 Bed quality calculation: Replaced another iteration over the key set + directly fetching the values withan iteration over the entry set.
Sascha L. Teichmann <teichmann@intevation.de>
parents: 6150
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303
3769
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
diff changeset
304 int i = 0;
6151
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Sascha L. Teichmann <teichmann@intevation.de>
parents: 6150
diff changeset
305 for (Map.Entry<String, Double> entry: dm.entrySet()) {
63d1e2a9b311 Bed quality calculation: Replaced another iteration over the key set + directly fetching the values withan iteration over the entry set.
Sascha L. Teichmann <teichmann@intevation.de>
parents: 6150
diff changeset
306 double phi = scale*Math.log(entry.getValue());
63d1e2a9b311 Bed quality calculation: Replaced another iteration over the key set + directly fetching the values withan iteration over the entry set.
Sascha L. Teichmann <teichmann@intevation.de>
parents: 6150
diff changeset
307 double p = calculateWeight(qm, entry.getKey());
63d1e2a9b311 Bed quality calculation: Replaced another iteration over the key set + directly fetching the values withan iteration over the entry set.
Sascha L. Teichmann <teichmann@intevation.de>
parents: 6150
diff changeset
308 phiM += phi * p;
63d1e2a9b311 Bed quality calculation: Replaced another iteration over the key set + directly fetching the values withan iteration over the entry set.
Sascha L. Teichmann <teichmann@intevation.de>
parents: 6150
diff changeset
309 ps[i] = p;
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Raimund Renkert <raimund.renkert@intevation.de>
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diff changeset
310 phis[i] = phi;
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Raimund Renkert <raimund.renkert@intevation.de>
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311 i++;
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Raimund Renkert <raimund.renkert@intevation.de>
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312 }
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313
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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314 double sig = 0d;
6151
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Sascha L. Teichmann <teichmann@intevation.de>
parents: 6150
diff changeset
315 for (i = 0; i < size; i++) {
7707
cead6df5b7b3 Variance is defined as the sum of squared differences.
Tom Gottfried <tom.gottfried@intevation.de>
parents: 7670
diff changeset
316 sig += ps[i] * Math.pow((phis[i] - phiM), 2);
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Raimund Renkert <raimund.renkert@intevation.de>
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317 }
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
diff changeset
318 double deviation = Math.sqrt(sig);
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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319 return deviation;
728ecd2afa20 Implemented bed quality calculation in minfo module.
Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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320 }
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321
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
diff changeset
322 protected double calculateP(QualityMeasurement qm) {
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
diff changeset
323 return calculateWeight(qm, "dmin");
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
diff changeset
324 }
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Raimund Renkert <raimund.renkert@intevation.de>
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diff changeset
325
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Raimund Renkert <raimund.renkert@intevation.de>
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diff changeset
326 public double calculateWeight(QualityMeasurement qm, String diameter) {
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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327 Map<String, Double> dm = qm.getAllDiameter();
728ecd2afa20 Implemented bed quality calculation in minfo module.
Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
diff changeset
328 double value = qm.getDiameter(diameter);
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Raimund Renkert <raimund.renkert@intevation.de>
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329
728ecd2afa20 Implemented bed quality calculation in minfo module.
Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
diff changeset
330 double sum = 0d;
728ecd2afa20 Implemented bed quality calculation in minfo module.
Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
diff changeset
331 for (Double d : dm.values()) {
6150
1f057463765b Bed quality calculation: Fixed a calculation typo: s/sum =+ d/sum += d/
Sascha L. Teichmann <teichmann@intevation.de>
parents: 5994
diff changeset
332 sum += d.doubleValue();
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Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
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333 }
728ecd2afa20 Implemented bed quality calculation in minfo module.
Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
diff changeset
334 double weight = sum/100*value;
728ecd2afa20 Implemented bed quality calculation in minfo module.
Raimund Renkert <raimund.renkert@intevation.de>
parents: 3760
diff changeset
335 return weight;
3760
312870fded7e Added result objects for minfo bed quality calculation.
Raimund Renkert <raimund.renkert@intevation.de>
parents:
diff changeset
336 }
312870fded7e Added result objects for minfo bed quality calculation.
Raimund Renkert <raimund.renkert@intevation.de>
parents:
diff changeset
337 }
4806
750d72a16f4e BedQualityCalculation: Added vim-line.
Felix Wolfsteller <felix.wolfsteller@intevation.de>
parents: 4642
diff changeset
338 // vim:set ts=4 sw=4 si et sta sts=4 fenc=utf8 :
http://dive4elements.wald.intevation.org