1 | #include <iostream> |
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2 | #include <iomanip> |
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3 | #include <duchamp.hh> |
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4 | #include <param.hh> |
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5 | #include <ATrous/atrous.hh> |
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6 | #include <Cubes/cubes.hh> |
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7 | |
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8 | void Cube::removeBaseline() |
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9 | { |
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10 | /** |
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11 | * Cube::removeBaseline() |
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12 | * A front-end to the getBaseline routine, specialised for the |
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13 | * Cube data structure. Calls getBaseline on each spectrum individually. |
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14 | * Upon exit, the original array minus its spectral baseline is stored |
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15 | * in this->array and the baseline is in this->baseline. |
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16 | * If the reconstructed array exists, the baseline is subtracted from |
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17 | * it as well. |
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18 | */ |
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19 | |
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20 | float *spec = new float[this->axisDim[2]]; |
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21 | float *thisBaseline = new float[this->axisDim[2]]; |
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22 | int numSpec = this->axisDim[0]*this->axisDim[1]; |
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23 | |
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24 | initialiseMeter(); |
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25 | for(int pix=0; pix<numSpec; pix++){ // for each spatial pixel... |
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26 | |
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27 | if(this->par.isVerbose() && ((100*(pix+1)/numSpec)%5 == 0) ) |
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28 | updateMeter((100*(pix+1)/numSpec)/5); |
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29 | |
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30 | for(int z=0; z<this->axisDim[2]; z++) |
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31 | spec[z] = this->array[z*numSpec + pix]; |
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32 | |
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33 | getBaseline(this->axisDim[2], spec, thisBaseline, this->par); |
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34 | |
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35 | for(int z=0; z<this->axisDim[2]; z++) { |
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36 | this->baseline[z*numSpec+pix] = thisBaseline[z]; |
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37 | if(!par.isBlank(this->array[z*numSpec+pix])){ |
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38 | this->array[z*numSpec+pix] -= thisBaseline[z]; |
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39 | if(this->reconExists) this->recon[z*numSpec+pix] -= thisBaseline[z]; |
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40 | } |
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41 | } |
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42 | |
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43 | } |
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44 | |
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45 | delete [] spec; |
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46 | delete [] thisBaseline; |
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47 | |
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48 | if(this->par.isVerbose()) printBackSpace(22); |
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49 | } |
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50 | |
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51 | |
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52 | |
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53 | void Cube::replaceBaseline() |
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54 | { |
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55 | /** |
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56 | * Cube::replaceBaseline() |
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57 | * A routine to replace the baseline flux on the reconstructed array |
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58 | * (if it exists) and the fluxes of each of the detected objects (if any). |
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59 | */ |
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60 | |
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61 | if(this->par.getFlagBaseline()){ |
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62 | |
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63 | for(int i=0;i<this->numPixels;i++){ |
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64 | if(!(this->par.isBlank(this->array[i]))) |
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65 | this->array[i] += this->baseline[i]; |
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66 | } |
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67 | |
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68 | if(this->reconExists){ |
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69 | // if we made a reconstruction, we need to add the baseline back in |
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70 | // for plotting purposes |
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71 | for(int i=0;i<this->numPixels;i++){ |
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72 | if(!(this->par.isBlank(this->array[i]))) |
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73 | this->recon[i] += this->baseline[i]; |
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74 | } |
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75 | } |
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76 | |
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77 | int pos; |
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78 | float flux; |
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79 | // Now add the baseline to the flux for all the objects. |
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80 | for(int obj=0;obj<this->objectList.size();obj++){ // for each detection |
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81 | for(int vox=0;vox<this->objectList[obj].getSize();vox++){ |
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82 | // for each of its voxels |
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83 | |
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84 | pos = this->objectList[obj].getX(vox) + |
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85 | this->axisDim[0]*this->objectList[obj].getY(vox) + |
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86 | this->axisDim[0]*this->axisDim[1]*this->objectList[obj].getZ(vox); |
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87 | |
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88 | flux = this->objectList[obj].getF(vox) + this->baseline[pos]; |
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89 | |
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90 | this->objectList[obj].setF(vox, flux); |
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91 | |
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92 | } |
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93 | this->objectList[obj].calcParams(); // correct the flux calculations. |
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94 | |
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95 | } |
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96 | |
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97 | } |
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98 | |
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99 | } |
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