1 | // ----------------------------------------------------------------------- |
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2 | // plotting.cc: Plot the moment map and detection maps, showing the |
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3 | // location of the detected objects. |
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4 | // ----------------------------------------------------------------------- |
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5 | // Copyright (C) 2006, Matthew Whiting, ATNF |
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6 | // |
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7 | // This program is free software; you can redistribute it and/or modify it |
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8 | // under the terms of the GNU General Public License as published by the |
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9 | // Free Software Foundation; either version 2 of the License, or (at your |
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10 | // option) any later version. |
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11 | // |
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12 | // Duchamp is distributed in the hope that it will be useful, but WITHOUT |
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13 | // ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or |
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14 | // FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License |
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15 | // for more details. |
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16 | // |
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17 | // You should have received a copy of the GNU General Public License |
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18 | // along with Duchamp; if not, write to the Free Software Foundation, |
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19 | // Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307, USA |
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20 | // |
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21 | // Correspondence concerning Duchamp may be directed to: |
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22 | // Internet email: Matthew.Whiting [at] atnf.csiro.au |
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23 | // Postal address: Dr. Matthew Whiting |
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24 | // Australia Telescope National Facility, CSIRO |
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25 | // PO Box 76 |
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26 | // Epping NSW 1710 |
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27 | // AUSTRALIA |
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28 | // ----------------------------------------------------------------------- |
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29 | #include <iostream> |
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30 | #include <iomanip> |
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31 | #include <sstream> |
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32 | #include <math.h> |
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33 | #include <string.h> |
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34 | #include <cpgplot.h> |
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35 | #include <wcslib/cpgsbox.h> |
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36 | #include <wcslib/pgwcsl.h> |
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37 | #include <wcslib/wcs.h> |
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38 | #include <duchamp/duchamp.hh> |
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39 | #include <duchamp/param.hh> |
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40 | #include <duchamp/fitsHeader.hh> |
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41 | #include <duchamp/PixelMap/Object3D.hh> |
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42 | #include <duchamp/Cubes/cubes.hh> |
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43 | #include <duchamp/Cubes/cubeUtils.hh> |
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44 | #include <duchamp/Cubes/plots.hh> |
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45 | #include <duchamp/Utils/utils.hh> |
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46 | #include <duchamp/Utils/mycpgplot.hh> |
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47 | |
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48 | using namespace mycpgplot; |
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49 | using namespace PixelInfo; |
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50 | |
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51 | namespace duchamp |
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52 | { |
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53 | |
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54 | void Cube::plotDetectionMap(std::string pgDestination) |
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55 | { |
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56 | /// @details |
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57 | /// Creates a map of the spatial locations of the detections, which is |
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58 | /// written to the PGPlot device given by pgDestination. |
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59 | /// The map is done in greyscale, where the scale indicates the number of |
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60 | /// velocity channels that each spatial pixel is detected in. |
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61 | /// The boundaries of each detection are drawn, and each object is numbered |
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62 | /// (to match the output list and spectra). |
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63 | /// The primary grid scale is pixel coordinate, and if the WCS is valid, |
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64 | /// the correct WCS gridlines are also drawn. |
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65 | /// \param pgDestination The PGPLOT device to be opened, in the typical PGPLOT format. |
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66 | |
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67 | // These are the minimum values for the X and Y ranges of the box drawn by |
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68 | // pgplot (without the half-pixel difference). |
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69 | // The -1 is necessary because the arrays we are dealing with start at 0 |
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70 | // index, while the ranges given in the subsection start at 1... |
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71 | float boxXmin = this->par.getXOffset() - 1; |
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72 | float boxYmin = this->par.getYOffset() - 1; |
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73 | |
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74 | long xdim=this->axisDim[0]; |
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75 | long ydim=this->axisDim[1]; |
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76 | Plot::ImagePlot newplot; |
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77 | int flag = newplot.setUpPlot(pgDestination.c_str(),float(xdim),float(ydim)); |
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78 | |
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79 | if(flag<=0){ |
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80 | duchampError("Plot Detection Map", |
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81 | "Could not open PGPlot device " + pgDestination + ".\n"); |
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82 | } |
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83 | else{ |
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84 | |
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85 | // get the list of objects that should be plotted. Only applies to outlines and labels. |
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86 | std::vector<bool> objectChoice = this->par.getObjectChoices(this->objectList->size()); |
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87 | |
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88 | newplot.makeTitle(this->pars().getImageFile()); |
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89 | |
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90 | newplot.drawMapBox(boxXmin+0.5,boxXmin+xdim+0.5, |
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91 | boxYmin+0.5,boxYmin+ydim+0.5, |
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92 | "X pixel","Y pixel"); |
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93 | |
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94 | // if(this->objectList.size()>0){ |
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95 | // if there are no detections, there will be nothing to plot here |
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96 | |
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97 | // Define a float equivalent of this->detectMap that can be plotted by cpggray. |
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98 | // Also find the maximum value, so that we can get the greyscale right and plot a colour wedge. |
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99 | float *detectionMap = new float[xdim*ydim]; |
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100 | int maxNum = this->detectMap[0]; |
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101 | detectionMap[0] = float(maxNum); |
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102 | for(int pix=1;pix<xdim*ydim;pix++){ |
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103 | detectionMap[pix] = float(this->detectMap[pix]); |
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104 | if(this->detectMap[pix] > maxNum) maxNum = this->detectMap[pix]; |
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105 | } |
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106 | |
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107 | if(maxNum>0){ // if there are no detections, it will be 0. |
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108 | |
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109 | maxNum = 5 * ((maxNum-1)/5 + 1); // move to next multiple of 5 |
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110 | |
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111 | float tr[6] = {boxXmin,1.,0.,boxYmin,0.,1.}; |
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112 | cpggray(detectionMap,xdim,ydim,1,xdim,1,ydim,maxNum,0,tr); |
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113 | cpgbox("bcnst",0.,0,"bcnst",0.,0); |
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114 | cpgsch(1.5); |
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115 | cpgwedg("rg",3.2,2,maxNum,0,"Number of detected channels"); |
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116 | } |
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117 | |
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118 | delete [] detectionMap; |
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119 | |
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120 | drawBlankEdges(this->array,this->axisDim[0],this->axisDim[1],this->par); |
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121 | |
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122 | if(this->head.isWCS()) this->plotWCSaxes(); |
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123 | |
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124 | if(this->objectList->size()>0){ |
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125 | // now show and label each detection, drawing over the WCS lines. |
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126 | |
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127 | cpgsch(1.0); |
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128 | cpgslw(2); |
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129 | float xoff=0.; |
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130 | float yoff=newplot.cmToCoord(0.5); |
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131 | if(this->par.drawBorders()){ |
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132 | cpgsci(DUCHAMP_OBJECT_OUTLINE_COLOUR); |
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133 | for(size_t i=0;i<this->objectList->size();i++) |
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134 | if(objectChoice[i]) this->objectList->at(i).drawBorders(0,0); |
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135 | } |
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136 | cpgsci(DUCHAMP_ID_TEXT_COLOUR); |
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137 | std::stringstream label; |
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138 | cpgslw(1); |
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139 | for(size_t i=0;i<this->objectList->size();i++){ |
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140 | if(objectChoice[i]) { |
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141 | cpgpt1(this->par.getXOffset()+this->objectList->at(i).getXPeak(), |
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142 | this->par.getYOffset()+this->objectList->at(i).getYPeak(), |
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143 | CROSS); |
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144 | label.str(""); |
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145 | label << this->objectList->at(i).getID(); |
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146 | cpgptxt(this->par.getXOffset()+this->objectList->at(i).getXPeak()-xoff, |
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147 | this->par.getYOffset()+this->objectList->at(i).getYPeak()-yoff, |
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148 | 0, 0.5, label.str().c_str()); |
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149 | } |
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150 | } |
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151 | |
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152 | } |
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153 | |
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154 | cpgclos(); |
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155 | } |
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156 | } |
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157 | |
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158 | /*********************************************************/ |
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159 | |
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160 | void Cube::plotMomentMap(std::string pgDestination) |
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161 | { |
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162 | /// @details |
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163 | /// Uses the other function |
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164 | /// Cube::plotMomentMap(std::vector<std::string>) to plot the moment |
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165 | /// map. |
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166 | /// \param pgDestination The PGPLOT device that the map is to be written to. |
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167 | |
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168 | std::vector<std::string> devicelist; |
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169 | devicelist.push_back(pgDestination); |
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170 | this->plotMomentMap(devicelist); |
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171 | } |
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172 | |
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173 | /*********************************************************/ |
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174 | |
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175 | void Cube::plotMomentMap(std::vector<std::string> pgDestination) |
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176 | { |
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177 | /// @details |
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178 | /// Creates a 0th moment map of the detections, which is written to each |
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179 | /// of the PGPlot devices mentioned in pgDestination. |
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180 | /// The advantage of this function is that the map is only calculated once, |
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181 | /// even if multiple maps are required. |
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182 | /// The map is done in greyscale, where the scale indicates the integrated |
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183 | /// flux at each spatial pixel. |
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184 | /// The boundaries of each detection are drawn, and each object is numbered |
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185 | /// (to match the output list and spectra). |
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186 | /// The primary grid scale is pixel coordinate, and if the WCS is valid, |
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187 | /// the correct WCS gridlines are also drawn. |
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188 | /// \param pgDestination A set of PGPLOT devices that are to be |
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189 | /// opened, each in the typical PGPLOT format. |
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190 | |
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191 | float boxXmin = this->par.getXOffset() - 1; |
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192 | float boxYmin = this->par.getYOffset() - 1; |
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193 | |
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194 | long xdim=this->axisDim[0]; |
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195 | long ydim=this->axisDim[1]; |
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196 | |
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197 | int numPlots = pgDestination.size(); |
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198 | std::vector<Plot::ImagePlot> plotList(numPlots); |
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199 | std::vector<int> plotFlag(numPlots,0); |
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200 | std::vector<bool> doPlot(numPlots,false); |
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201 | bool plotNeeded = false; |
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202 | |
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203 | for(int i=0;i<numPlots;i++){ |
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204 | |
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205 | plotFlag[i] = plotList[i].setUpPlot(pgDestination[i], |
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206 | float(xdim),float(ydim)); |
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207 | |
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208 | if(plotFlag[i]<=0) duchampError("Plot Moment Map", |
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209 | "Could not open PGPlot device " |
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210 | + pgDestination[i] + ".\n"); |
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211 | else{ |
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212 | doPlot[i] = true; |
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213 | plotNeeded = true; |
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214 | } |
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215 | |
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216 | } |
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217 | |
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218 | if(plotNeeded){ |
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219 | |
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220 | if(this->objectList->size()==0){ |
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221 | // if there are no detections, we plot an empty field. |
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222 | |
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223 | for(int iplot=0; iplot<numPlots; iplot++){ |
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224 | plotList[iplot].goToPlot(); |
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225 | plotList[iplot].makeTitle(this->pars().getImageFile()); |
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226 | |
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227 | plotList[iplot].drawMapBox(boxXmin+0.5,boxXmin+xdim+0.5, |
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228 | boxYmin+0.5,boxYmin+ydim+0.5, |
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229 | "X pixel","Y pixel"); |
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230 | |
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231 | drawBlankEdges(this->array,this->axisDim[0],this->axisDim[1],this->par); |
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232 | |
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233 | if(this->head.isWCS()) this->plotWCSaxes(); |
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234 | } |
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235 | |
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236 | } |
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237 | else { |
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238 | // if there are some detections, do the calculations first before |
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239 | // plotting anything. |
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240 | |
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241 | // get the list of objects that should be plotted. Only applies to outlines and labels. |
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242 | std::vector<bool> objectChoice = this->par.getObjectChoices(this->objectList->size()); |
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243 | |
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244 | for(int iplot=0; iplot<numPlots; iplot++){ |
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245 | // Although plot the axes so that the user knows something is |
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246 | // being done (at least, they will if there is an /xs plot) |
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247 | plotList[iplot].goToPlot(); |
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248 | plotList[iplot].makeTitle(this->pars().getImageFile()); |
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249 | |
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250 | plotList[iplot].drawMapBox(boxXmin+0.5,boxXmin+xdim+0.5, |
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251 | boxYmin+0.5,boxYmin+ydim+0.5, |
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252 | "X pixel","Y pixel"); |
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253 | |
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254 | if(pgDestination[iplot]=="/xs") |
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255 | cpgptxt(boxXmin+0.5+xdim/2., boxYmin+0.5+ydim/2., 0, 0.5, |
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256 | "Calculating map..."); |
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257 | } |
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258 | |
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259 | // bool *isObj = new bool[xdim*ydim*zdim]; |
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260 | // for(int i=0;i<xdim*ydim*zdim;i++) isObj[i] = false; |
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261 | // for(size_t i=0;i<this->objectList->size();i++){ |
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262 | // if(objectChoice[i]){ |
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263 | // std::vector<Voxel> voxlist = this->objectList->at(i).getPixelSet(); |
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264 | // std::vector<Voxel>::iterator vox; |
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265 | // for(vox=voxlist.begin();vox<voxlist.end();vox++){ |
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266 | // int pixelpos = vox->getX() + xdim*vox->getY() + xdim*ydim*vox->getZ(); |
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267 | // isObj[pixelpos] = true; |
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268 | // } |
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269 | // } |
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270 | // } |
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271 | |
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272 | // float *momentMap = new float[xdim*ydim]; |
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273 | // // Initialise to zero |
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274 | // for(int i=0;i<xdim*ydim;i++) momentMap[i] = 0.; |
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275 | |
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276 | // // if we are looking for negative features, we need to invert the |
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277 | // // detected pixels for the moment map |
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278 | // float sign = 1.; |
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279 | // if(this->pars().getFlagNegative()) sign = -1.; |
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280 | |
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281 | // float deltaVel; |
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282 | // double x,y; |
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283 | |
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284 | // double *zArray = new double[zdim]; |
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285 | // for(int z=0; z<zdim; z++) zArray[z] = double(z); |
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286 | |
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287 | // for(int pix=0; pix<xdim*ydim; pix++){ |
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288 | |
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289 | // x = double(pix%xdim); |
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290 | // y = double(pix/xdim); |
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291 | |
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292 | // if(!this->isBlank(pix)){ // only do this for non-blank pixels. Judge this by the first pixel of the channel. |
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293 | |
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294 | // double * world = this->head.pixToVel(x,y,zArray,zdim); |
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295 | |
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296 | // for(int z=0; z<zdim; z++){ |
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297 | // int pos = z*xdim*ydim + pix; // the voxel in the cube |
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298 | // if(isObj[pos]){ // if it's an object pixel... |
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299 | // // delta-vel is half the distance between adjacent channels. |
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300 | // // if at end, then just use 0-1 or (zdim-1)-(zdim-2) distance |
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301 | // if(z==0){ |
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302 | // if(zdim==1) deltaVel=1.; // pathological case -- if 2D image. |
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303 | // else deltaVel = world[z+1] - world[z]; |
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304 | // } |
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305 | // else if(z==(zdim-1)) deltaVel = world[z-1] - world[z]; |
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306 | // else deltaVel = (world[z+1] - world[z-1]) / 2.; |
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307 | |
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308 | // momentMap[pix] += sign * this->array[pos] * fabs(deltaVel); |
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309 | |
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310 | // } |
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311 | // } |
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312 | // delete [] world; |
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313 | // } |
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314 | |
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315 | // } |
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316 | |
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317 | // delete [] zArray; |
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318 | |
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319 | // int count=0; |
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320 | // float z1=0.,z2=0.; |
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321 | // for(int i=0;i<xdim*ydim;i++) { |
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322 | // if(momentMap[i]>0.){ |
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323 | // float logmm = log10(momentMap[i]); |
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324 | // bool addPixel = false; |
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325 | // for(int z=0;z<zdim;z++) addPixel = addPixel || isObj[z*xdim*ydim+i]; |
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326 | // if(addPixel){ |
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327 | // if(count==0) z1 = z2 = logmm; |
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328 | // else{ |
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329 | // if(logmm < z1) z1 = logmm; |
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330 | // if(logmm > z2) z2 = logmm; |
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331 | // } |
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332 | // count++; |
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333 | // } |
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334 | // } |
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335 | // } |
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336 | |
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337 | // for(int i=0;i<xdim*ydim;i++) { |
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338 | // bool addPixel = false; |
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339 | // for(int z=0;z<zdim;z++) addPixel = addPixel || isObj[z*xdim*ydim+i]; |
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340 | // addPixel = addPixel && (momentMap[i]>0.); |
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341 | // if(!addPixel) momentMap[i] = z1-1.; |
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342 | // else momentMap[i] = log10(momentMap[i]); |
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343 | // } |
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344 | |
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345 | // delete [] isObj; |
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346 | |
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347 | |
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348 | float *momentMap = new float[xdim*ydim]; |
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349 | float z1=0.,z2=0.; |
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350 | this->getMomentMapForPlot(momentMap,z1,z2); |
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351 | |
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352 | |
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353 | // Have now done all necessary calculations for moment map. |
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354 | // Now produce the plot |
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355 | |
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356 | for(int iplot=0; iplot<numPlots; iplot++){ |
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357 | plotList[iplot].goToPlot(); |
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358 | |
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359 | float tr[6] = {boxXmin,1.,0.,boxYmin,0.,1.}; |
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360 | cpggray(momentMap,xdim,ydim,1,xdim,1,ydim,z2,z1,tr); |
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361 | cpgbox("bcnst",0.,0,"bcnst",0.,0); |
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362 | cpgsch(1.5); |
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363 | std::string wedgeLabel = "Integrated Flux "; |
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364 | if(this->par.getFlagNegative()) |
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365 | wedgeLabel = "-1. " + times + " " + wedgeLabel; |
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366 | if(this->head.isWCS()) |
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367 | wedgeLabel += "[" + this->head.getIntFluxUnits() + "]"; |
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368 | else wedgeLabel += "[" + this->head.getFluxUnits() + "]"; |
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369 | cpgwedglog("rg",3.2,2,z2,z1,wedgeLabel.c_str()); |
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370 | |
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371 | |
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372 | drawBlankEdges(this->array,this->axisDim[0],this->axisDim[1],this->par); |
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373 | |
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374 | if(this->head.isWCS()) this->plotWCSaxes(); |
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375 | |
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376 | // now show and label each detection, drawing over the WCS lines. |
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377 | cpgsch(1.0); |
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378 | cpgslw(2); |
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379 | float xoff=0.; |
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380 | float yoff=plotList[iplot].cmToCoord(0.5); |
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381 | if(this->par.drawBorders()){ |
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382 | cpgsci(DUCHAMP_OBJECT_OUTLINE_COLOUR); |
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383 | for(size_t i=0;i<this->objectList->size();i++) |
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384 | if(objectChoice[i]) this->objectList->at(i).drawBorders(0,0); |
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385 | } |
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386 | cpgsci(DUCHAMP_ID_TEXT_COLOUR); |
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387 | std::stringstream label; |
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388 | cpgslw(1); |
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389 | for(size_t i=0;i<this->objectList->size();i++){ |
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390 | if(objectChoice[i]) { |
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391 | cpgpt1(this->par.getXOffset()+this->objectList->at(i).getXPeak(), |
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392 | this->par.getYOffset()+this->objectList->at(i).getYPeak(), |
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393 | CROSS); |
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394 | label.str(""); |
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395 | label << this->objectList->at(i).getID(); |
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396 | cpgptxt(this->par.getXOffset()+this->objectList->at(i).getXPeak()-xoff, |
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397 | this->par.getYOffset()+this->objectList->at(i).getYPeak()-yoff, |
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398 | 0, 0.5, label.str().c_str()); |
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399 | } |
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400 | } |
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401 | |
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402 | } // end of iplot loop over number of devices |
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403 | |
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404 | delete [] momentMap; |
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405 | |
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406 | } // end of else (from if(numdetections==0) ) |
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407 | |
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408 | |
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409 | for(int iplot=0; iplot<numPlots; iplot++){ |
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410 | plotList[iplot].goToPlot(); |
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411 | cpgclos(); |
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412 | } |
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413 | |
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414 | } |
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415 | |
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416 | } |
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417 | |
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418 | /*********************************************************/ |
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419 | |
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420 | // void Cube::plotWCSaxes(int textColour, int axisColour) |
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421 | // { |
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422 | // duchamp::plotWCSaxes(this->head.getWCS(), this->axisDim, textColour, axisColour); |
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423 | // } |
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424 | |
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425 | |
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426 | void plotWCSaxes(struct wcsprm *wcs, long *axes, int textColour, int axisColour) |
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427 | { |
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428 | |
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429 | /// @details |
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430 | /// A front-end to the cpgsbox command, to draw the gridlines for the WCS |
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431 | /// over the current plot. |
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432 | /// Lines are drawn in dark green over the full plot area, and the axis |
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433 | /// labels are written on the top and on the right hand sides, so as not |
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434 | /// to conflict with other labels. |
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435 | /// \param textColour The colour index to use for the text labels -- |
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436 | /// defaults to duchamp::DUCHAMP_ID_TEXT_COLOUR |
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437 | /// \param axisColour The colour index to use for the axes -- |
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438 | /// defaults to duchamp::DUCHAMP_WCS_AXIS_COLOUR |
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439 | |
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440 | float boxXmin=0,boxYmin=0; |
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441 | |
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442 | char idents[3][80], opt[2], nlcprm[1]; |
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443 | |
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444 | strcpy(idents[0], wcs->lngtyp); |
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445 | strcpy(idents[1], wcs->lattyp); |
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446 | strcpy(idents[2], ""); |
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447 | if(strcmp(wcs->lngtyp,"RA")==0) opt[0] = 'G'; |
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448 | else opt[0] = 'D'; |
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449 | opt[1] = 'E'; |
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450 | |
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451 | float blc[2], trc[2]; |
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452 | // float scl; // --> unused here. |
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453 | blc[0] = boxXmin + 0.5; |
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454 | blc[1] = boxYmin + 0.5; |
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455 | trc[0] = boxXmin + axes[0]+0.5; |
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456 | trc[1] = boxYmin + axes[1]+0.5; |
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457 | |
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458 | int existingLineWidth; |
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459 | cpgqlw(&existingLineWidth); |
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460 | int existingColour; |
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461 | cpgqci(&existingColour); |
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462 | float existingSize; |
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463 | cpgqch(&existingSize); |
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464 | cpgsci(textColour); |
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465 | cpgsch(0.8); |
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466 | int c0[7], ci[7], gcode[2], ic, ierr; |
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467 | for(int i=0;i<7;i++) c0[i] = -1; |
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468 | /* define the WCS axes colour */ |
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469 | setWCSGreen(); |
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470 | |
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471 | gcode[0] = 2; // type of grid to draw: 0=none, 1=ticks only, 2=full grid |
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472 | gcode[1] = 2; |
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473 | |
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474 | double cache[257][4], grid1[9], grid2[9], nldprm[8]; |
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475 | grid1[0] = 0.0; |
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476 | grid2[0] = 0.0; |
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477 | |
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478 | // Draw the celestial grid with no intermediate tick marks. |
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479 | // Set LABCTL=2100 to write 1st coord on top, and 2nd on right |
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480 | |
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481 | //Colour indices used by cpgsbox: make it all the same colour for thin |
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482 | // line case. |
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483 | ci[0] = axisColour; // grid lines, coord 1 |
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484 | ci[1] = axisColour; // grid lines, coord 2 |
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485 | ci[2] = axisColour; // numeric labels, coord 1 |
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486 | ci[3] = axisColour; // numeric labels, coord 2 |
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487 | ci[4] = axisColour; // axis annotation, coord 1 |
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488 | ci[5] = axisColour; // axis annotation, coord 2 |
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489 | ci[6] = axisColour; // title |
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490 | |
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491 | cpgsbox(blc, trc, idents, opt, 2100, 0, ci, gcode, 0.0, 0, grid1, 0, grid2, |
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492 | 0, pgwcsl_, 1, WCSLEN, 1, nlcprm, (int *)wcs, |
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493 | nldprm, 256, &ic, cache, &ierr); |
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494 | |
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495 | cpgsci(existingColour); |
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496 | cpgsch(existingSize); |
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497 | cpgslw(existingLineWidth); |
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498 | } |
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499 | |
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500 | |
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501 | |
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502 | } |
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503 | |
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