1 | // |
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2 | // C++ Implementation: STMath |
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3 | // |
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4 | // Description: |
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5 | // |
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6 | // |
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7 | // Author: Malte Marquarding <asap@atnf.csiro.au>, (C) 2006 |
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8 | // |
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9 | // Copyright: See COPYING file that comes with this distribution |
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10 | // |
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11 | // |
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12 | |
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13 | #include <sstream> |
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14 | |
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15 | #include <casa/iomanip.h> |
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16 | #include <casa/Arrays/MaskArrLogi.h> |
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17 | #include <casa/Arrays/MaskArrMath.h> |
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18 | #include <casa/Arrays/ArrayLogical.h> |
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19 | #include <casa/Arrays/ArrayMath.h> |
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20 | #include <casa/Arrays/Slice.h> |
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21 | #include <casa/Arrays/Slicer.h> |
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22 | #include <casa/BasicSL/String.h> |
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23 | #include <casa/Containers/Block.h> |
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24 | #include <casa/Containers/RecordField.h> |
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25 | #include <casa/Exceptions/Error.h> |
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26 | #include <casa/Logging/LogIO.h> |
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27 | #include <casa/Quanta/Quantum.h> |
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28 | |
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29 | #include <coordinates/Coordinates/CoordinateSystem.h> |
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30 | #include <coordinates/Coordinates/CoordinateUtil.h> |
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31 | #include <coordinates/Coordinates/FrequencyAligner.h> |
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32 | #include <coordinates/Coordinates/SpectralCoordinate.h> |
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33 | |
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34 | #include <lattices/Lattices/LatticeUtilities.h> |
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35 | |
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36 | #include <scimath/Functionals/Polynomial.h> |
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37 | #include <scimath/Mathematics/Convolver.h> |
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38 | #include <scimath/Mathematics/VectorKernel.h> |
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39 | |
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40 | #include <tables/Tables/ExprNode.h> |
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41 | #include <tables/Tables/ReadAsciiTable.h> |
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42 | #include <tables/Tables/TableCopy.h> |
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43 | #include <tables/Tables/TableIter.h> |
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44 | #include <tables/Tables/TableParse.h> |
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45 | #include <tables/Tables/TableRecord.h> |
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46 | #include <tables/Tables/TableRow.h> |
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47 | #include <tables/Tables/TableVector.h> |
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48 | #include <tables/Tables/TabVecMath.h> |
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49 | |
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50 | #include <atnf/PKSIO/SrcType.h> |
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51 | |
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52 | #include "RowAccumulator.h" |
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53 | #include "STAttr.h" |
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54 | #include "STMath.h" |
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55 | #include "STSelector.h" |
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56 | #include "Accelerator.h" |
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57 | #include "STIdxIter.h" |
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58 | |
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59 | #include "CalibrationHelper.h" |
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60 | |
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61 | using namespace casa; |
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62 | using namespace asap; |
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63 | |
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64 | // 2012/02/17 TN |
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65 | // Since STGrid is implemented, average doesn't consider direction |
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66 | // when accumulating |
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67 | // tolerance for direction comparison (rad) |
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68 | // #define TOL_OTF 1.0e-15 |
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69 | // #define TOL_POINT 2.9088821e-4 // 1 arcmin |
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70 | |
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71 | STMath::STMath(bool insitu) : |
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72 | insitu_(insitu) |
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73 | { |
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74 | } |
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75 | |
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76 | |
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77 | STMath::~STMath() |
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78 | { |
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79 | } |
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80 | |
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81 | CountedPtr<Scantable> |
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82 | STMath::average( const std::vector<CountedPtr<Scantable> >& in, |
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83 | const std::vector<bool>& mask, |
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84 | const std::string& weight, |
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85 | const std::string& avmode) |
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86 | { |
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87 | // double t0, t1 ; |
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88 | // t0 = mathutil::gettimeofday_sec() ; |
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89 | |
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90 | LogIO os( LogOrigin( "STMath", "average()", WHERE ) ) ; |
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91 | if ( avmode == "SCAN" && in.size() != 1 ) |
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92 | throw(AipsError("Can't perform 'SCAN' averaging on multiple tables.\n" |
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93 | "Use merge first.")); |
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94 | WeightType wtype = stringToWeight(weight); |
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95 | |
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96 | // 2012/02/17 TN |
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97 | // Since STGrid is implemented, average doesn't consider direction |
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98 | // when accumulating |
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99 | // check if OTF observation |
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100 | // String obstype = in[0]->getHeader().obstype ; |
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101 | // Double tol = 0.0 ; |
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102 | // if ( (obstype.find( "OTF" ) != String::npos) || (obstype.find( "OBSERVE_TARGET" ) != String::npos) ) { |
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103 | // tol = TOL_OTF ; |
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104 | // } |
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105 | // else { |
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106 | // tol = TOL_POINT ; |
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107 | // } |
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108 | |
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109 | // output |
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110 | // clone as this is non insitu |
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111 | bool insitu = insitu_; |
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112 | setInsitu(false); |
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113 | CountedPtr< Scantable > out = getScantable(in[0], true); |
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114 | setInsitu(insitu); |
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115 | std::vector<CountedPtr<Scantable> >::const_iterator stit = in.begin(); |
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116 | ++stit; |
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117 | while ( stit != in.end() ) { |
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118 | out->appendToHistoryTable((*stit)->history()); |
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119 | ++stit; |
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120 | } |
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121 | |
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122 | Table& tout = out->table(); |
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123 | |
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124 | /// @todo check if all scantables are conformant |
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125 | |
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126 | ArrayColumn<Float> specColOut(tout,"SPECTRA"); |
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127 | ArrayColumn<uChar> flagColOut(tout,"FLAGTRA"); |
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128 | ArrayColumn<Float> tsysColOut(tout,"TSYS"); |
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129 | ScalarColumn<Double> mjdColOut(tout,"TIME"); |
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130 | ScalarColumn<Double> intColOut(tout,"INTERVAL"); |
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131 | ScalarColumn<uInt> cycColOut(tout,"CYCLENO"); |
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132 | ScalarColumn<uInt> scanColOut(tout,"SCANNO"); |
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133 | ScalarColumn<uInt> flagRowColOut(tout,"FLAGROW"); |
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134 | |
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135 | // set up the output table rows. These are based on the structure of the |
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136 | // FIRST scantable in the vector |
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137 | const Table& baset = in[0]->table(); |
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138 | |
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139 | RowAccumulator acc(wtype); |
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140 | Vector<Bool> cmask(mask); |
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141 | acc.setUserMask(cmask); |
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142 | // ROTableRow row(tout); |
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143 | ROArrayColumn<Float> specCol, tsysCol; |
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144 | ROArrayColumn<uChar> flagCol; |
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145 | ROScalarColumn<Double> mjdCol, intCol; |
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146 | ROScalarColumn<Int> scanIDCol; |
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147 | ROScalarColumn<uInt> flagRowCol; |
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148 | |
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149 | //Vector<uInt> rowstodelete; |
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150 | Block<uInt> rowstodelB( in[0]->nrow() ) ; |
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151 | uInt nrowdel = 0 ; |
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152 | |
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153 | // Block<String> cols(3); |
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154 | vector<string> cols(3) ; |
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155 | cols[0] = String("BEAMNO"); |
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156 | cols[1] = String("IFNO"); |
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157 | cols[2] = String("POLNO"); |
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158 | if ( avmode == "SOURCE" ) { |
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159 | cols.resize(4); |
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160 | cols[3] = String("SRCNAME"); |
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161 | } |
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162 | if ( avmode == "SCAN" && in.size() == 1) { |
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163 | //cols.resize(4); |
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164 | //cols[3] = String("SCANNO"); |
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165 | cols.resize(5); |
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166 | cols[3] = String("SRCNAME"); |
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167 | cols[4] = String("SCANNO"); |
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168 | } |
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169 | uInt outrowCount = 0; |
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170 | // use STIdxIter2 instead of TableIterator |
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171 | STIdxIter2 iter( in[0], cols ) ; |
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172 | // double t2 = 0 ; |
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173 | // double t3 = 0 ; |
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174 | // double t4 = 0 ; |
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175 | // double t5 = 0 ; |
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176 | // TableIterator iter(baset, cols); |
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177 | // int count = 0 ; |
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178 | while (!iter.pastEnd()) { |
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179 | Vector<uInt> rows = iter.getRows( SHARE ) ; |
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180 | if ( rows.nelements() == 0 ) { |
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181 | iter.next() ; |
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182 | continue ; |
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183 | } |
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184 | Record current = iter.currentValue() ; |
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185 | //Table subt = iter.table(); |
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186 | // copy the first row of this selection into the new table |
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187 | tout.addRow(); |
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188 | // t4 = mathutil::gettimeofday_sec() ; |
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189 | // skip to copy SPECTRA, FLAGTRA, and TSYS since those heavy columns are |
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190 | // overwritten in the following process |
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191 | copyRows( tout, baset, outrowCount, rows[0], 1, False, False, False ) ; |
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192 | // t5 += mathutil::gettimeofday_sec() - t4 ; |
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193 | // re-index to 0 |
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194 | if ( avmode != "SCAN" && avmode != "SOURCE" ) { |
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195 | scanColOut.put(outrowCount, uInt(0)); |
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196 | } |
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197 | |
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198 | // 2012/02/17 TN |
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199 | // Since STGrid is implemented, average doesn't consider direction |
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200 | // when accumulating |
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201 | // MDirection::ScalarColumn dircol ; |
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202 | // dircol.attach( subt, "DIRECTION" ) ; |
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203 | // Int length = subt.nrow() ; |
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204 | // vector< Vector<Double> > dirs ; |
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205 | // vector<int> indexes ; |
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206 | // for ( Int i = 0 ; i < length ; i++ ) { |
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207 | // Vector<Double> t = dircol(i).getAngle(Unit(String("rad"))).getValue() ; |
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208 | // //os << << count++ << ": " ; |
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209 | // //os << "[" << t[0] << "," << t[1] << "]" << LogIO::POST ; |
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210 | // bool adddir = true ; |
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211 | // for ( uInt j = 0 ; j < dirs.size() ; j++ ) { |
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212 | // //if ( allTrue( t == dirs[j] ) ) { |
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213 | // Double dx = t[0] - dirs[j][0] ; |
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214 | // Double dy = t[1] - dirs[j][1] ; |
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215 | // Double dd = sqrt( dx * dx + dy * dy ) ; |
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216 | // //if ( allNearAbs( t, dirs[j], tol ) ) { |
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217 | // if ( dd <= tol ) { |
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218 | // adddir = false ; |
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219 | // break ; |
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220 | // } |
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221 | // } |
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222 | // if ( adddir ) { |
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223 | // dirs.push_back( t ) ; |
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224 | // indexes.push_back( i ) ; |
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225 | // } |
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226 | // } |
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227 | // uInt rowNum = dirs.size() ; |
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228 | // tout.addRow( rowNum ) ; |
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229 | // for ( uInt i = 0 ; i < rowNum ; i++ ) { |
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230 | // TableCopy::copyRows( tout, subt, outrowCount+i, indexes[i], 1 ) ; |
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231 | // // re-index to 0 |
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232 | // if ( avmode != "SCAN" && avmode != "SOURCE" ) { |
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233 | // scanColOut.put(outrowCount+i, uInt(0)); |
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234 | // } |
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235 | // } |
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236 | // outrowCount += rowNum ; |
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237 | |
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238 | // merge loop |
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239 | uInt i = outrowCount ; |
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240 | // in[0] is already selected by iterator |
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241 | specCol.attach(baset,"SPECTRA"); |
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242 | flagCol.attach(baset,"FLAGTRA"); |
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243 | tsysCol.attach(baset,"TSYS"); |
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244 | intCol.attach(baset,"INTERVAL"); |
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245 | mjdCol.attach(baset,"TIME"); |
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246 | flagRowCol.attach(baset,"FLAGROW"); |
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247 | Vector<Float> spec,tsys; |
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248 | Vector<uChar> flag; |
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249 | Double inter,time; |
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250 | uInt flagRow; |
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251 | |
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252 | for (uInt l = 0; l < rows.nelements(); ++l ) { |
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253 | uInt k = rows[l] ; |
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254 | flagCol.get(k, flag); |
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255 | Vector<Bool> bflag(flag.shape()); |
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256 | flagRowCol.get(k, flagRow); |
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257 | if (flagRow > 0) |
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258 | bflag = true; |
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259 | else |
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260 | convertArray(bflag, flag); |
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261 | /* |
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262 | if ( allEQ(bflag, True) ) { |
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263 | continue;//don't accumulate |
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264 | } |
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265 | */ |
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266 | specCol.get(k, spec); |
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267 | tsysCol.get(k, tsys); |
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268 | intCol.get(k, inter); |
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269 | mjdCol.get(k, time); |
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270 | // spectrum has to be added last to enable weighting by the other values |
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271 | // t2 = mathutil::gettimeofday_sec() ; |
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272 | acc.add(spec, !bflag, tsys, inter, time); |
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273 | // t3 += mathutil::gettimeofday_sec() - t2 ; |
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274 | |
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275 | } |
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276 | |
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277 | |
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278 | // in[0] is already selected by TableIterator so that index is |
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279 | // started from 1 |
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280 | for ( int j=1; j < int(in.size()); ++j ) { |
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281 | const Table& tin = in[j]->table(); |
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282 | //const TableRecord& rec = row.get(i); |
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283 | ROScalarColumn<Double> tmp(tin, "TIME"); |
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284 | Double td;tmp.get(0,td); |
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285 | |
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286 | #if 1 |
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287 | static char const*const colNames1[] = { "IFNO", "BEAMNO", "POLNO" }; |
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288 | //uInt const values1[] = { rec.asuInt("IFNO"), rec.asuInt("BEAMNO"), rec.asuInt("POLNO") }; |
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289 | uInt const values1[] = { current.asuInt("IFNO"), current.asuInt("BEAMNO"), current.asuInt("POLNO") }; |
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290 | SingleTypeEqPredicate<uInt, 3> myPred(tin, colNames1, values1); |
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291 | CustomTableExprNodeRep myNodeRep(tin, myPred); |
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292 | myNodeRep.link(); // to avoid automatic delete when myExpr is destructed. |
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293 | CustomTableExprNode myExpr(myNodeRep); |
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294 | Table basesubt = tin(myExpr); |
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295 | #else |
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296 | // Table basesubt = tin( tin.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
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297 | // && tin.col("IFNO") == Int(rec.asuInt("IFNO")) |
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298 | // && tin.col("POLNO") == Int(rec.asuInt("POLNO")) ); |
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299 | Table basesubt = tin( tin.col("BEAMNO") == current.asuInt("BEAMNO") |
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300 | && tin.col("IFNO") == current.asuInt("IFNO") |
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301 | && tin.col("POLNO") == current.asuInt("POLNO") ); |
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302 | #endif |
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303 | Table subt; |
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304 | if ( avmode == "SOURCE") { |
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305 | // subt = basesubt( basesubt.col("SRCNAME") == rec.asString("SRCNAME")); |
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306 | subt = basesubt( basesubt.col("SRCNAME") == current.asString("SRCNAME") ); |
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307 | |
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308 | } else if (avmode == "SCAN") { |
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309 | // subt = basesubt( basesubt.col("SRCNAME") == rec.asString("SRCNAME") |
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310 | // && basesubt.col("SCANNO") == Int(rec.asuInt("SCANNO")) ); |
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311 | subt = basesubt( basesubt.col("SRCNAME") == current.asString("SRCNAME") |
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312 | && basesubt.col("SCANNO") == current.asuInt("SCANNO") ); |
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313 | } else { |
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314 | subt = basesubt; |
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315 | } |
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316 | |
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317 | // 2012/02/17 TN |
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318 | // Since STGrid is implemented, average doesn't consider direction |
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319 | // when accumulating |
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320 | // vector<uInt> removeRows ; |
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321 | // uInt nrsubt = subt.nrow() ; |
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322 | // for ( uInt irow = 0 ; irow < nrsubt ; irow++ ) { |
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323 | // //if ( !allTrue((subt.col("DIRECTION").getArrayDouble(TableExprId(irow)))==rec.asArrayDouble("DIRECTION")) ) { |
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324 | // Vector<Double> x0 = (subt.col("DIRECTION").getArrayDouble(TableExprId(irow))) ; |
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325 | // Vector<Double> x1 = rec.asArrayDouble("DIRECTION") ; |
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326 | // double dx = x0[0] - x1[0]; |
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327 | // double dy = x0[1] - x1[1]; |
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328 | // Double dd = sqrt( dx * dx + dy * dy ) ; |
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329 | // //if ( !allNearAbs((subt.col("DIRECTION").getArrayDouble(TableExprId(irow))), rec.asArrayDouble("DIRECTION"), tol ) ) { |
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330 | // if ( dd > tol ) { |
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331 | // removeRows.push_back( irow ) ; |
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332 | // } |
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333 | // } |
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334 | // if ( removeRows.size() != 0 ) { |
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335 | // subt.removeRow( removeRows ) ; |
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336 | // } |
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337 | |
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338 | // if ( nrsubt == removeRows.size() ) |
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339 | // throw(AipsError("Averaging data is empty.")) ; |
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340 | |
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341 | specCol.attach(subt,"SPECTRA"); |
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342 | flagCol.attach(subt,"FLAGTRA"); |
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343 | tsysCol.attach(subt,"TSYS"); |
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344 | intCol.attach(subt,"INTERVAL"); |
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345 | mjdCol.attach(subt,"TIME"); |
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346 | flagRowCol.attach(subt,"FLAGROW"); |
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347 | for (uInt k = 0; k < subt.nrow(); ++k ) { |
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348 | flagCol.get(k, flag); |
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349 | Vector<Bool> bflag(flag.shape()); |
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350 | flagRowCol.get(k, flagRow); |
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351 | if (flagRow > 0) |
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352 | bflag = true; |
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353 | else |
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354 | convertArray(bflag, flag); |
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355 | /* |
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356 | if ( allEQ(bflag, True) ) { |
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357 | continue;//don't accumulate |
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358 | } |
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359 | */ |
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360 | specCol.get(k, spec); |
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361 | //tsysCol.get(k, tsys); |
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362 | tsys.assign( tsysCol(k) ); |
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363 | intCol.get(k, inter); |
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364 | mjdCol.get(k, time); |
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365 | // spectrum has to be added last to enable weighting by the other values |
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366 | // t2 = mathutil::gettimeofday_sec() ; |
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367 | acc.add(spec, !bflag, tsys, inter, time); |
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368 | // t3 += mathutil::gettimeofday_sec() - t2 ; |
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369 | } |
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370 | |
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371 | } |
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372 | const Vector<Bool>& msk = acc.getMask(); |
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373 | if ( allEQ(msk, False) ) { |
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374 | rowstodelB[nrowdel] = i ; |
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375 | nrowdel++ ; |
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376 | iter.next(); |
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377 | continue; |
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378 | } |
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379 | //write out |
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380 | if (acc.state()) { |
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381 | // If there exists a channel at which all the input spectra are masked, |
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382 | // spec has 'nan' values for that channel and it may affect the following |
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383 | // processes. To avoid this, replacing 'nan' values in spec with |
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384 | // weighted-mean of all spectra in the following line. |
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385 | // (done for CAS-2776, 2011/04/07 by Wataru Kawasaki) |
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386 | acc.replaceNaN(); |
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387 | |
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388 | Vector<uChar> flg(msk.shape()); |
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389 | convertArray(flg, !msk); |
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390 | for (uInt k = 0; k < flg.nelements(); ++k) { |
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391 | uChar userFlag = 1 << 7; |
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392 | if (msk[k]==True) userFlag = 0 << 7; |
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393 | flg(k) = userFlag; |
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394 | } |
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395 | |
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396 | flagColOut.put(i, flg); |
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397 | specColOut.put(i, acc.getSpectrum()); |
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398 | tsysColOut.put(i, acc.getTsys()); |
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399 | intColOut.put(i, acc.getInterval()); |
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400 | mjdColOut.put(i, acc.getTime()); |
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401 | // we should only have one cycle now -> reset it to be 0 |
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402 | // frequency switched data has different CYCLENO for different IFNO |
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403 | // which requires resetting this value |
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404 | cycColOut.put(i, uInt(0)); |
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405 | // completely flagged rows are removed anyway |
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406 | flagRowColOut.put(i, uInt(0)); |
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407 | } else { |
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408 | os << "For output row="<<i<<", all input rows of data are flagged. no averaging" << LogIO::POST; |
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409 | } |
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410 | acc.reset(); |
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411 | |
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412 | // merge with while loop for preparing out table |
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413 | ++outrowCount; |
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414 | // ++iter ; |
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415 | iter.next() ; |
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416 | } |
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417 | |
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418 | if ( nrowdel > 0 ) { |
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419 | Vector<uInt> rowstodelete( IPosition(1,nrowdel), rowstodelB.storage(), SHARE ) ; |
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420 | os << rowstodelete << LogIO::POST ; |
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421 | tout.removeRow(rowstodelete); |
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422 | if (tout.nrow() == 0) { |
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423 | throw(AipsError("Can't average fully flagged data.")); |
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424 | } |
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425 | } |
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426 | |
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427 | // t1 = mathutil::gettimeofday_sec() ; |
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428 | // cout << "elapsed time for average(): " << t1-t0 << " sec" << endl ; |
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429 | // cout << " elapsed time for acc.add(): " << t3 << " sec" << endl ; |
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430 | // cout << " elapsed time for copyRows(): " << t5 << " sec" << endl ; |
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431 | |
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432 | return out; |
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433 | } |
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434 | |
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435 | CountedPtr< Scantable > |
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436 | STMath::averageChannel( const CountedPtr < Scantable > & in, |
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437 | const std::string & mode, |
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438 | const std::string& avmode ) |
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439 | { |
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440 | (void) mode; // currently unused |
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441 | // 2012/02/17 TN |
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442 | // Since STGrid is implemented, average doesn't consider direction |
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443 | // when accumulating |
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444 | // check if OTF observation |
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445 | // String obstype = in->getHeader().obstype ; |
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446 | // Double tol = 0.0 ; |
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447 | // if ( obstype.find( "OTF" ) != String::npos ) { |
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448 | // tol = TOL_OTF ; |
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449 | // } |
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450 | // else { |
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451 | // tol = TOL_POINT ; |
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452 | // } |
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453 | |
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454 | // clone as this is non insitu |
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455 | bool insitu = insitu_; |
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456 | setInsitu(false); |
---|
457 | CountedPtr< Scantable > out = getScantable(in, true); |
---|
458 | setInsitu(insitu); |
---|
459 | Table& tout = out->table(); |
---|
460 | ArrayColumn<Float> specColOut(tout,"SPECTRA"); |
---|
461 | ArrayColumn<uChar> flagColOut(tout,"FLAGTRA"); |
---|
462 | ArrayColumn<Float> tsysColOut(tout,"TSYS"); |
---|
463 | ScalarColumn<uInt> scanColOut(tout,"SCANNO"); |
---|
464 | ScalarColumn<Double> intColOut(tout, "INTERVAL"); |
---|
465 | Table tmp = in->table().sort("BEAMNO"); |
---|
466 | Block<String> cols(3); |
---|
467 | cols[0] = String("BEAMNO"); |
---|
468 | cols[1] = String("IFNO"); |
---|
469 | cols[2] = String("POLNO"); |
---|
470 | if ( avmode == "SCAN") { |
---|
471 | cols.resize(4); |
---|
472 | cols[3] = String("SCANNO"); |
---|
473 | } |
---|
474 | uInt outrowCount = 0; |
---|
475 | uChar userflag = 1 << 7; |
---|
476 | TableIterator iter(tmp, cols); |
---|
477 | while (!iter.pastEnd()) { |
---|
478 | Table subt = iter.table(); |
---|
479 | ROArrayColumn<Float> specCol, tsysCol; |
---|
480 | ROArrayColumn<uChar> flagCol; |
---|
481 | ROScalarColumn<Double> intCol(subt, "INTERVAL"); |
---|
482 | specCol.attach(subt,"SPECTRA"); |
---|
483 | flagCol.attach(subt,"FLAGTRA"); |
---|
484 | tsysCol.attach(subt,"TSYS"); |
---|
485 | |
---|
486 | tout.addRow(); |
---|
487 | TableCopy::copyRows(tout, subt, outrowCount, 0, 1); |
---|
488 | if ( avmode != "SCAN") { |
---|
489 | scanColOut.put(outrowCount, uInt(0)); |
---|
490 | } |
---|
491 | Vector<Float> tmp; |
---|
492 | specCol.get(0, tmp); |
---|
493 | uInt nchan = tmp.nelements(); |
---|
494 | // have to do channel by channel here as MaskedArrMath |
---|
495 | // doesn't have partialMedians |
---|
496 | Vector<uChar> flags = flagCol.getColumn(Slicer(Slice(0))); |
---|
497 | Vector<Float> outspec(nchan); |
---|
498 | Vector<uChar> outflag(nchan,0); |
---|
499 | Vector<Float> outtsys(1);/// @fixme when tsys is channel based |
---|
500 | for (uInt i=0; i<nchan; ++i) { |
---|
501 | Vector<Float> specs = specCol.getColumn(Slicer(Slice(i))); |
---|
502 | MaskedArray<Float> ma = maskedArray(specs,flags); |
---|
503 | outspec[i] = median(ma); |
---|
504 | if ( allEQ(ma.getMask(), False) ) |
---|
505 | outflag[i] = userflag;// flag data |
---|
506 | } |
---|
507 | outtsys[0] = median(tsysCol.getColumn()); |
---|
508 | specColOut.put(outrowCount, outspec); |
---|
509 | flagColOut.put(outrowCount, outflag); |
---|
510 | tsysColOut.put(outrowCount, outtsys); |
---|
511 | Double intsum = sum(intCol.getColumn()); |
---|
512 | intColOut.put(outrowCount, intsum); |
---|
513 | ++outrowCount; |
---|
514 | ++iter; |
---|
515 | |
---|
516 | // 2012/02/17 TN |
---|
517 | // Since STGrid is implemented, average doesn't consider direction |
---|
518 | // when accumulating |
---|
519 | // MDirection::ScalarColumn dircol ; |
---|
520 | // dircol.attach( subt, "DIRECTION" ) ; |
---|
521 | // Int length = subt.nrow() ; |
---|
522 | // vector< Vector<Double> > dirs ; |
---|
523 | // vector<int> indexes ; |
---|
524 | // // Handle MX mode averaging |
---|
525 | // if (in->nbeam() > 1 ) { |
---|
526 | // length = 1; |
---|
527 | // } |
---|
528 | // for ( Int i = 0 ; i < length ; i++ ) { |
---|
529 | // Vector<Double> t = dircol(i).getAngle(Unit(String("rad"))).getValue() ; |
---|
530 | // bool adddir = true ; |
---|
531 | // for ( uInt j = 0 ; j < dirs.size() ; j++ ) { |
---|
532 | // //if ( allTrue( t == dirs[j] ) ) { |
---|
533 | // Double dx = t[0] - dirs[j][0] ; |
---|
534 | // Double dy = t[1] - dirs[j][1] ; |
---|
535 | // Double dd = sqrt( dx * dx + dy * dy ) ; |
---|
536 | // //if ( allNearAbs( t, dirs[j], tol ) ) { |
---|
537 | // if ( dd <= tol ) { |
---|
538 | // adddir = false ; |
---|
539 | // break ; |
---|
540 | // } |
---|
541 | // } |
---|
542 | // if ( adddir ) { |
---|
543 | // dirs.push_back( t ) ; |
---|
544 | // indexes.push_back( i ) ; |
---|
545 | // } |
---|
546 | // } |
---|
547 | // uInt rowNum = dirs.size() ; |
---|
548 | // tout.addRow( rowNum ); |
---|
549 | // for ( uInt i = 0 ; i < rowNum ; i++ ) { |
---|
550 | // TableCopy::copyRows(tout, subt, outrowCount+i, indexes[i], 1) ; |
---|
551 | // // Handle MX mode averaging |
---|
552 | // if ( avmode != "SCAN") { |
---|
553 | // scanColOut.put(outrowCount+i, uInt(0)); |
---|
554 | // } |
---|
555 | // } |
---|
556 | // MDirection::ScalarColumn dircolOut ; |
---|
557 | // dircolOut.attach( tout, "DIRECTION" ) ; |
---|
558 | // for ( uInt irow = 0 ; irow < rowNum ; irow++ ) { |
---|
559 | // Vector<Double> t = \ |
---|
560 | // dircolOut(outrowCount+irow).getAngle(Unit(String("rad"))).getValue() ; |
---|
561 | // Vector<Float> tmp; |
---|
562 | // specCol.get(0, tmp); |
---|
563 | // uInt nchan = tmp.nelements(); |
---|
564 | // // have to do channel by channel here as MaskedArrMath |
---|
565 | // // doesn't have partialMedians |
---|
566 | // Vector<uChar> flags = flagCol.getColumn(Slicer(Slice(0))); |
---|
567 | // // mask spectra for different DIRECTION |
---|
568 | // for ( uInt jrow = 0 ; jrow < subt.nrow() ; jrow++ ) { |
---|
569 | // Vector<Double> direction = \ |
---|
570 | // dircol(jrow).getAngle(Unit(String("rad"))).getValue() ; |
---|
571 | // //if ( t[0] != direction[0] || t[1] != direction[1] ) { |
---|
572 | // Double dx = t[0] - direction[0]; |
---|
573 | // Double dy = t[1] - direction[1]; |
---|
574 | // Double dd = sqrt(dx*dx + dy*dy); |
---|
575 | // //if ( !allNearAbs( t, direction, tol ) ) { |
---|
576 | // if ( dd > tol && in->nbeam() < 2 ) { |
---|
577 | // flags[jrow] = userflag ; |
---|
578 | // } |
---|
579 | // } |
---|
580 | // Vector<Float> outspec(nchan); |
---|
581 | // Vector<uChar> outflag(nchan,0); |
---|
582 | // Vector<Float> outtsys(1);/// @fixme when tsys is channel based |
---|
583 | // for (uInt i=0; i<nchan; ++i) { |
---|
584 | // Vector<Float> specs = specCol.getColumn(Slicer(Slice(i))); |
---|
585 | // MaskedArray<Float> ma = maskedArray(specs,flags); |
---|
586 | // outspec[i] = median(ma); |
---|
587 | // if ( allEQ(ma.getMask(), False) ) |
---|
588 | // outflag[i] = userflag;// flag data |
---|
589 | // } |
---|
590 | // outtsys[0] = median(tsysCol.getColumn()); |
---|
591 | // specColOut.put(outrowCount+irow, outspec); |
---|
592 | // flagColOut.put(outrowCount+irow, outflag); |
---|
593 | // tsysColOut.put(outrowCount+irow, outtsys); |
---|
594 | // Vector<Double> integ = intCol.getColumn() ; |
---|
595 | // MaskedArray<Double> mi = maskedArray( integ, flags ) ; |
---|
596 | // Double intsum = sum(mi); |
---|
597 | // intColOut.put(outrowCount+irow, intsum); |
---|
598 | // } |
---|
599 | // outrowCount += rowNum ; |
---|
600 | // ++iter; |
---|
601 | } |
---|
602 | return out; |
---|
603 | } |
---|
604 | |
---|
605 | CountedPtr< Scantable > STMath::getScantable(const CountedPtr< Scantable >& in, |
---|
606 | bool droprows) |
---|
607 | { |
---|
608 | if (insitu_) { |
---|
609 | return in; |
---|
610 | } |
---|
611 | else { |
---|
612 | // clone |
---|
613 | return CountedPtr<Scantable>(new Scantable(*in, Bool(droprows))); |
---|
614 | } |
---|
615 | } |
---|
616 | |
---|
617 | CountedPtr< Scantable > STMath::unaryOperate( const CountedPtr< Scantable >& in, |
---|
618 | float val, |
---|
619 | const std::string& mode, |
---|
620 | bool tsys ) |
---|
621 | { |
---|
622 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
623 | Table& tab = out->table(); |
---|
624 | ArrayColumn<Float> specCol(tab,"SPECTRA"); |
---|
625 | ArrayColumn<Float> tsysCol(tab,"TSYS"); |
---|
626 | if (mode=="DIV") val = 1.0/val ; |
---|
627 | else if (mode=="SUB") val *= -1.0 ; |
---|
628 | for (uInt i=0; i<tab.nrow(); ++i) { |
---|
629 | Vector<Float> spec; |
---|
630 | Vector<Float> ts; |
---|
631 | specCol.get(i, spec); |
---|
632 | tsysCol.get(i, ts); |
---|
633 | if (mode == "MUL" || mode == "DIV") { |
---|
634 | //if (mode == "DIV") val = 1.0/val; |
---|
635 | spec *= val; |
---|
636 | specCol.put(i, spec); |
---|
637 | if ( tsys ) { |
---|
638 | ts *= val; |
---|
639 | tsysCol.put(i, ts); |
---|
640 | } |
---|
641 | } else if ( mode == "ADD" || mode == "SUB") { |
---|
642 | //if (mode == "SUB") val *= -1.0; |
---|
643 | spec += val; |
---|
644 | specCol.put(i, spec); |
---|
645 | if ( tsys ) { |
---|
646 | ts += val; |
---|
647 | tsysCol.put(i, ts); |
---|
648 | } |
---|
649 | } |
---|
650 | } |
---|
651 | return out; |
---|
652 | } |
---|
653 | |
---|
654 | CountedPtr< Scantable > STMath::arrayOperate( const CountedPtr< Scantable >& in, |
---|
655 | const std::vector<float> val, |
---|
656 | const std::string& mode, |
---|
657 | const std::string& opmode, |
---|
658 | bool tsys ) |
---|
659 | { |
---|
660 | CountedPtr< Scantable > out ; |
---|
661 | if ( opmode == "channel" ) { |
---|
662 | out = arrayOperateChannel( in, val, mode, tsys ) ; |
---|
663 | } |
---|
664 | else if ( opmode == "row" ) { |
---|
665 | out = arrayOperateRow( in, val, mode, tsys ) ; |
---|
666 | } |
---|
667 | else { |
---|
668 | throw( AipsError( "Unknown array operation mode." ) ) ; |
---|
669 | } |
---|
670 | return out ; |
---|
671 | } |
---|
672 | |
---|
673 | CountedPtr< Scantable > STMath::arrayOperateChannel( const CountedPtr< Scantable >& in, |
---|
674 | const std::vector<float> val, |
---|
675 | const std::string& mode, |
---|
676 | bool tsys ) |
---|
677 | { |
---|
678 | if ( val.size() == 1 ){ |
---|
679 | return unaryOperate( in, val[0], mode, tsys ) ; |
---|
680 | } |
---|
681 | |
---|
682 | // conformity of SPECTRA and TSYS |
---|
683 | if ( tsys ) { |
---|
684 | TableIterator titer(in->table(), "IFNO"); |
---|
685 | while ( !titer.pastEnd() ) { |
---|
686 | ArrayColumn<Float> specCol( in->table(), "SPECTRA" ) ; |
---|
687 | ArrayColumn<Float> tsysCol( in->table(), "TSYS" ) ; |
---|
688 | Array<Float> spec = specCol.getColumn() ; |
---|
689 | Array<Float> ts = tsysCol.getColumn() ; |
---|
690 | if ( !spec.conform( ts ) ) { |
---|
691 | throw( AipsError( "SPECTRA and TSYS must conform in shape if you want to apply operation on Tsys." ) ) ; |
---|
692 | } |
---|
693 | titer.next() ; |
---|
694 | } |
---|
695 | } |
---|
696 | |
---|
697 | // check if all spectra in the scantable have the same number of channel |
---|
698 | vector<uInt> nchans; |
---|
699 | vector<uInt> ifnos = in->getIFNos() ; |
---|
700 | for ( uInt i = 0 ; i < ifnos.size() ; i++ ) { |
---|
701 | nchans.push_back( in->nchan( ifnos[i] ) ) ; |
---|
702 | } |
---|
703 | Vector<uInt> mchans( nchans ) ; |
---|
704 | if ( anyNE( mchans, mchans[0] ) ) { |
---|
705 | throw( AipsError("All spectra in the input scantable must have the same number of channel for vector operation." ) ) ; |
---|
706 | } |
---|
707 | |
---|
708 | // check if vector size is equal to nchan |
---|
709 | Vector<Float> fact( val ) ; |
---|
710 | if ( fact.nelements() != mchans[0] ) { |
---|
711 | throw( AipsError("Vector size must be 1 or be same as number of channel.") ) ; |
---|
712 | } |
---|
713 | |
---|
714 | // check divided by zero |
---|
715 | if ( ( mode == "DIV" ) && anyEQ( fact, (float)0.0 ) ) { |
---|
716 | throw( AipsError("Divided by zero is not recommended." ) ) ; |
---|
717 | } |
---|
718 | |
---|
719 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
720 | Table& tab = out->table(); |
---|
721 | ArrayColumn<Float> specCol(tab,"SPECTRA"); |
---|
722 | ArrayColumn<Float> tsysCol(tab,"TSYS"); |
---|
723 | if (mode == "DIV") fact = (float)1.0 / fact; |
---|
724 | else if (mode == "SUB") fact *= (float)-1.0 ; |
---|
725 | for (uInt i=0; i<tab.nrow(); ++i) { |
---|
726 | Vector<Float> spec; |
---|
727 | Vector<Float> ts; |
---|
728 | specCol.get(i, spec); |
---|
729 | tsysCol.get(i, ts); |
---|
730 | if (mode == "MUL" || mode == "DIV") { |
---|
731 | //if (mode == "DIV") fact = (float)1.0 / fact; |
---|
732 | spec *= fact; |
---|
733 | specCol.put(i, spec); |
---|
734 | if ( tsys ) { |
---|
735 | ts *= fact; |
---|
736 | tsysCol.put(i, ts); |
---|
737 | } |
---|
738 | } else if ( mode == "ADD" || mode == "SUB") { |
---|
739 | //if (mode == "SUB") fact *= (float)-1.0 ; |
---|
740 | spec += fact; |
---|
741 | specCol.put(i, spec); |
---|
742 | if ( tsys ) { |
---|
743 | ts += fact; |
---|
744 | tsysCol.put(i, ts); |
---|
745 | } |
---|
746 | } |
---|
747 | } |
---|
748 | return out; |
---|
749 | } |
---|
750 | |
---|
751 | CountedPtr< Scantable > STMath::arrayOperateRow( const CountedPtr< Scantable >& in, |
---|
752 | const std::vector<float> val, |
---|
753 | const std::string& mode, |
---|
754 | bool tsys ) |
---|
755 | { |
---|
756 | if ( val.size() == 1 ) { |
---|
757 | return unaryOperate( in, val[0], mode, tsys ) ; |
---|
758 | } |
---|
759 | |
---|
760 | // conformity of SPECTRA and TSYS |
---|
761 | if ( tsys ) { |
---|
762 | TableIterator titer(in->table(), "IFNO"); |
---|
763 | while ( !titer.pastEnd() ) { |
---|
764 | ArrayColumn<Float> specCol( in->table(), "SPECTRA" ) ; |
---|
765 | ArrayColumn<Float> tsysCol( in->table(), "TSYS" ) ; |
---|
766 | Array<Float> spec = specCol.getColumn() ; |
---|
767 | Array<Float> ts = tsysCol.getColumn() ; |
---|
768 | if ( !spec.conform( ts ) ) { |
---|
769 | throw( AipsError( "SPECTRA and TSYS must conform in shape if you want to apply operation on Tsys." ) ) ; |
---|
770 | } |
---|
771 | titer.next() ; |
---|
772 | } |
---|
773 | } |
---|
774 | |
---|
775 | // check if vector size is equal to nrow |
---|
776 | Vector<Float> fact( val ) ; |
---|
777 | if (fact.nelements() != uInt(in->nrow())) { |
---|
778 | throw( AipsError("Vector size must be 1 or be same as number of row.") ) ; |
---|
779 | } |
---|
780 | |
---|
781 | // check divided by zero |
---|
782 | if ( ( mode == "DIV" ) && anyEQ( fact, (float)0.0 ) ) { |
---|
783 | throw( AipsError("Divided by zero is not recommended." ) ) ; |
---|
784 | } |
---|
785 | |
---|
786 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
787 | Table& tab = out->table(); |
---|
788 | ArrayColumn<Float> specCol(tab,"SPECTRA"); |
---|
789 | ArrayColumn<Float> tsysCol(tab,"TSYS"); |
---|
790 | if (mode == "DIV") fact = (float)1.0 / fact; |
---|
791 | if (mode == "SUB") fact *= (float)-1.0 ; |
---|
792 | for (uInt i=0; i<tab.nrow(); ++i) { |
---|
793 | Vector<Float> spec; |
---|
794 | Vector<Float> ts; |
---|
795 | specCol.get(i, spec); |
---|
796 | tsysCol.get(i, ts); |
---|
797 | if (mode == "MUL" || mode == "DIV") { |
---|
798 | spec *= fact[i]; |
---|
799 | specCol.put(i, spec); |
---|
800 | if ( tsys ) { |
---|
801 | ts *= fact[i]; |
---|
802 | tsysCol.put(i, ts); |
---|
803 | } |
---|
804 | } else if ( mode == "ADD" || mode == "SUB") { |
---|
805 | spec += fact[i]; |
---|
806 | specCol.put(i, spec); |
---|
807 | if ( tsys ) { |
---|
808 | ts += fact[i]; |
---|
809 | tsysCol.put(i, ts); |
---|
810 | } |
---|
811 | } |
---|
812 | } |
---|
813 | return out; |
---|
814 | } |
---|
815 | |
---|
816 | CountedPtr< Scantable > STMath::array2dOperate( const CountedPtr< Scantable >& in, |
---|
817 | const std::vector< std::vector<float> > val, |
---|
818 | const std::string& mode, |
---|
819 | bool tsys ) |
---|
820 | { |
---|
821 | // conformity of SPECTRA and TSYS |
---|
822 | if ( tsys ) { |
---|
823 | TableIterator titer(in->table(), "IFNO"); |
---|
824 | while ( !titer.pastEnd() ) { |
---|
825 | ArrayColumn<Float> specCol( in->table(), "SPECTRA" ) ; |
---|
826 | ArrayColumn<Float> tsysCol( in->table(), "TSYS" ) ; |
---|
827 | Array<Float> spec = specCol.getColumn() ; |
---|
828 | Array<Float> ts = tsysCol.getColumn() ; |
---|
829 | if ( !spec.conform( ts ) ) { |
---|
830 | throw( AipsError( "SPECTRA and TSYS must conform in shape if you want to apply operation on Tsys." ) ) ; |
---|
831 | } |
---|
832 | titer.next() ; |
---|
833 | } |
---|
834 | } |
---|
835 | |
---|
836 | // some checks |
---|
837 | vector<uInt> nchans; |
---|
838 | for (Int i = 0 ; i < in->nrow() ; i++) { |
---|
839 | nchans.push_back((in->getSpectrum(i)).size()); |
---|
840 | } |
---|
841 | //Vector<uInt> mchans( nchans ) ; |
---|
842 | vector< Vector<Float> > facts ; |
---|
843 | for ( uInt i = 0 ; i < nchans.size() ; i++ ) { |
---|
844 | Vector<Float> tmp( val[i] ) ; |
---|
845 | // check divided by zero |
---|
846 | if ( ( mode == "DIV" ) && anyEQ( tmp, (float)0.0 ) ) { |
---|
847 | throw( AipsError("Divided by zero is not recommended." ) ) ; |
---|
848 | } |
---|
849 | // conformity check |
---|
850 | if ( tmp.nelements() != nchans[i] ) { |
---|
851 | stringstream ss ; |
---|
852 | ss << "Row " << i << ": Vector size must be same as number of channel." ; |
---|
853 | throw( AipsError( ss.str() ) ) ; |
---|
854 | } |
---|
855 | facts.push_back( tmp ) ; |
---|
856 | } |
---|
857 | |
---|
858 | |
---|
859 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
860 | Table& tab = out->table(); |
---|
861 | ArrayColumn<Float> specCol(tab,"SPECTRA"); |
---|
862 | ArrayColumn<Float> tsysCol(tab,"TSYS"); |
---|
863 | for (uInt i=0; i<tab.nrow(); ++i) { |
---|
864 | Vector<Float> fact = facts[i] ; |
---|
865 | Vector<Float> spec; |
---|
866 | Vector<Float> ts; |
---|
867 | specCol.get(i, spec); |
---|
868 | tsysCol.get(i, ts); |
---|
869 | if (mode == "MUL" || mode == "DIV") { |
---|
870 | if (mode == "DIV") fact = (float)1.0 / fact; |
---|
871 | spec *= fact; |
---|
872 | specCol.put(i, spec); |
---|
873 | if ( tsys ) { |
---|
874 | ts *= fact; |
---|
875 | tsysCol.put(i, ts); |
---|
876 | } |
---|
877 | } else if ( mode == "ADD" || mode == "SUB") { |
---|
878 | if (mode == "SUB") fact *= (float)-1.0 ; |
---|
879 | spec += fact; |
---|
880 | specCol.put(i, spec); |
---|
881 | if ( tsys ) { |
---|
882 | ts += fact; |
---|
883 | tsysCol.put(i, ts); |
---|
884 | } |
---|
885 | } |
---|
886 | } |
---|
887 | return out; |
---|
888 | } |
---|
889 | |
---|
890 | CountedPtr<Scantable> STMath::binaryOperate(const CountedPtr<Scantable>& left, |
---|
891 | const CountedPtr<Scantable>& right, |
---|
892 | const std::string& mode) |
---|
893 | { |
---|
894 | bool insitu = insitu_; |
---|
895 | if ( ! left->conformant(*right) ) { |
---|
896 | throw(AipsError("'left' and 'right' scantables are not conformant.")); |
---|
897 | } |
---|
898 | setInsitu(false); |
---|
899 | CountedPtr< Scantable > out = getScantable(left, false); |
---|
900 | setInsitu(insitu); |
---|
901 | Table& tout = out->table(); |
---|
902 | Block<String> coln(5); |
---|
903 | coln[0] = "SCANNO"; coln[1] = "CYCLENO"; coln[2] = "BEAMNO"; |
---|
904 | coln[3] = "IFNO"; coln[4] = "POLNO"; |
---|
905 | Table tmpl = tout.sort(coln); |
---|
906 | Table tmpr = right->table().sort(coln); |
---|
907 | ArrayColumn<Float> lspecCol(tmpl,"SPECTRA"); |
---|
908 | ROArrayColumn<Float> rspecCol(tmpr,"SPECTRA"); |
---|
909 | ArrayColumn<uChar> lflagCol(tmpl,"FLAGTRA"); |
---|
910 | ROArrayColumn<uChar> rflagCol(tmpr,"FLAGTRA"); |
---|
911 | |
---|
912 | for (uInt i=0; i<tout.nrow(); ++i) { |
---|
913 | Vector<Float> lspecvec, rspecvec; |
---|
914 | Vector<uChar> lflagvec, rflagvec; |
---|
915 | lspecvec = lspecCol(i); rspecvec = rspecCol(i); |
---|
916 | lflagvec = lflagCol(i); rflagvec = rflagCol(i); |
---|
917 | MaskedArray<Float> mleft = maskedArray(lspecvec, lflagvec); |
---|
918 | MaskedArray<Float> mright = maskedArray(rspecvec, rflagvec); |
---|
919 | if (mode == "ADD") { |
---|
920 | mleft += mright; |
---|
921 | } else if ( mode == "SUB") { |
---|
922 | mleft -= mright; |
---|
923 | } else if ( mode == "MUL") { |
---|
924 | mleft *= mright; |
---|
925 | } else if ( mode == "DIV") { |
---|
926 | mleft /= mright; |
---|
927 | } else { |
---|
928 | throw(AipsError("Illegal binary operator")); |
---|
929 | } |
---|
930 | lspecCol.put(i, mleft.getArray()); |
---|
931 | } |
---|
932 | return out; |
---|
933 | } |
---|
934 | |
---|
935 | |
---|
936 | |
---|
937 | MaskedArray<Float> STMath::maskedArray( const Vector<Float>& s, |
---|
938 | const Vector<uChar>& f) |
---|
939 | { |
---|
940 | Vector<Bool> mask; |
---|
941 | mask.resize(f.shape()); |
---|
942 | convertArray(mask, f); |
---|
943 | return MaskedArray<Float>(s,!mask); |
---|
944 | } |
---|
945 | |
---|
946 | MaskedArray<Double> STMath::maskedArray( const Vector<Double>& s, |
---|
947 | const Vector<uChar>& f) |
---|
948 | { |
---|
949 | Vector<Bool> mask; |
---|
950 | mask.resize(f.shape()); |
---|
951 | convertArray(mask, f); |
---|
952 | return MaskedArray<Double>(s,!mask); |
---|
953 | } |
---|
954 | |
---|
955 | Vector<uChar> STMath::flagsFromMA(const MaskedArray<Float>& ma) |
---|
956 | { |
---|
957 | const Vector<Bool>& m = ma.getMask(); |
---|
958 | Vector<uChar> flags(m.shape()); |
---|
959 | convertArray(flags, !m); |
---|
960 | return flags; |
---|
961 | } |
---|
962 | |
---|
963 | CountedPtr< Scantable > STMath::autoQuotient( const CountedPtr< Scantable >& in, |
---|
964 | const std::string & mode, |
---|
965 | bool preserve ) |
---|
966 | { |
---|
967 | /// @todo make other modes available |
---|
968 | /// modes should be "nearest", "pair" |
---|
969 | // make this operation non insitu |
---|
970 | (void) mode; //currently unused |
---|
971 | const Table& tin = in->table(); |
---|
972 | Table ons = tin(tin.col("SRCTYPE") == Int(SrcType::PSON)); |
---|
973 | Table offs = tin(tin.col("SRCTYPE") == Int(SrcType::PSOFF)); |
---|
974 | if ( offs.nrow() == 0 ) |
---|
975 | throw(AipsError("No 'off' scans present.")); |
---|
976 | // put all "on" scans into output table |
---|
977 | |
---|
978 | bool insitu = insitu_; |
---|
979 | setInsitu(false); |
---|
980 | CountedPtr< Scantable > out = getScantable(in, true); |
---|
981 | setInsitu(insitu); |
---|
982 | Table& tout = out->table(); |
---|
983 | |
---|
984 | TableCopy::copyRows(tout, ons); |
---|
985 | TableRow row(tout); |
---|
986 | ROScalarColumn<Double> offtimeCol(offs, "TIME"); |
---|
987 | ArrayColumn<Float> outspecCol(tout, "SPECTRA"); |
---|
988 | ROArrayColumn<Float> outtsysCol(tout, "TSYS"); |
---|
989 | ArrayColumn<uChar> outflagCol(tout, "FLAGTRA"); |
---|
990 | for (uInt i=0; i < tout.nrow(); ++i) { |
---|
991 | const TableRecord& rec = row.get(i); |
---|
992 | Double ontime = rec.asDouble("TIME"); |
---|
993 | Table presel = offs(offs.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
994 | && offs.col("IFNO") == Int(rec.asuInt("IFNO")) |
---|
995 | && offs.col("POLNO") == Int(rec.asuInt("POLNO")) ); |
---|
996 | ROScalarColumn<Double> offtimeCol(presel, "TIME"); |
---|
997 | |
---|
998 | Double mindeltat = min(abs(offtimeCol.getColumn() - ontime)); |
---|
999 | // Timestamp may vary within a cycle ???!!! |
---|
1000 | // increase this by 0.01 sec in case of rounding errors... |
---|
1001 | // There might be a better way to do this. |
---|
1002 | // fix to this fix. TIME is MJD, so 1.0d not 1.0s |
---|
1003 | mindeltat += 0.01/24./60./60.; |
---|
1004 | Table sel = presel( abs(presel.col("TIME")-ontime) <= mindeltat); |
---|
1005 | |
---|
1006 | if ( sel.nrow() < 1 ) { |
---|
1007 | throw(AipsError("No closest in time found... This could be a rounding " |
---|
1008 | "issue. Try quotient instead.")); |
---|
1009 | } |
---|
1010 | TableRow offrow(sel); |
---|
1011 | const TableRecord& offrec = offrow.get(0);//should only be one row |
---|
1012 | RORecordFieldPtr< Array<Float> > specoff(offrec, "SPECTRA"); |
---|
1013 | RORecordFieldPtr< Array<Float> > tsysoff(offrec, "TSYS"); |
---|
1014 | RORecordFieldPtr< Array<uChar> > flagoff(offrec, "FLAGTRA"); |
---|
1015 | /// @fixme this assumes tsys is a scalar not vector |
---|
1016 | Float tsysoffscalar = (*tsysoff)(IPosition(1,0)); |
---|
1017 | Vector<Float> specon, tsyson; |
---|
1018 | outtsysCol.get(i, tsyson); |
---|
1019 | outspecCol.get(i, specon); |
---|
1020 | Vector<uChar> flagon; |
---|
1021 | outflagCol.get(i, flagon); |
---|
1022 | MaskedArray<Float> mon = maskedArray(specon, flagon); |
---|
1023 | MaskedArray<Float> moff = maskedArray(*specoff, *flagoff); |
---|
1024 | MaskedArray<Float> quot = (tsysoffscalar * mon / moff); |
---|
1025 | if (preserve) { |
---|
1026 | quot -= tsysoffscalar; |
---|
1027 | } else { |
---|
1028 | quot -= tsyson[0]; |
---|
1029 | } |
---|
1030 | outspecCol.put(i, quot.getArray()); |
---|
1031 | outflagCol.put(i, flagsFromMA(quot)); |
---|
1032 | } |
---|
1033 | // renumber scanno |
---|
1034 | TableIterator it(tout, "SCANNO"); |
---|
1035 | uInt i = 0; |
---|
1036 | while ( !it.pastEnd() ) { |
---|
1037 | Table t = it.table(); |
---|
1038 | TableVector<uInt> vec(t, "SCANNO"); |
---|
1039 | vec = i; |
---|
1040 | ++i; |
---|
1041 | ++it; |
---|
1042 | } |
---|
1043 | return out; |
---|
1044 | } |
---|
1045 | |
---|
1046 | |
---|
1047 | CountedPtr< Scantable > STMath::quotient( const CountedPtr< Scantable > & on, |
---|
1048 | const CountedPtr< Scantable > & off, |
---|
1049 | bool preserve ) |
---|
1050 | { |
---|
1051 | bool insitu = insitu_; |
---|
1052 | if ( ! on->conformant(*off) ) { |
---|
1053 | throw(AipsError("'on' and 'off' scantables are not conformant.")); |
---|
1054 | } |
---|
1055 | setInsitu(false); |
---|
1056 | CountedPtr< Scantable > out = getScantable(on, false); |
---|
1057 | setInsitu(insitu); |
---|
1058 | Table& tout = out->table(); |
---|
1059 | const Table& toff = off->table(); |
---|
1060 | TableIterator sit(tout, "SCANNO"); |
---|
1061 | TableIterator s2it(toff, "SCANNO"); |
---|
1062 | while ( !sit.pastEnd() ) { |
---|
1063 | Table ton = sit.table(); |
---|
1064 | TableRow row(ton); |
---|
1065 | Table t = s2it.table(); |
---|
1066 | ArrayColumn<Float> outspecCol(ton, "SPECTRA"); |
---|
1067 | ROArrayColumn<Float> outtsysCol(ton, "TSYS"); |
---|
1068 | ArrayColumn<uChar> outflagCol(ton, "FLAGTRA"); |
---|
1069 | for (uInt i=0; i < ton.nrow(); ++i) { |
---|
1070 | const TableRecord& rec = row.get(i); |
---|
1071 | Table offsel = t( t.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
1072 | && t.col("IFNO") == Int(rec.asuInt("IFNO")) |
---|
1073 | && t.col("POLNO") == Int(rec.asuInt("POLNO")) ); |
---|
1074 | if ( offsel.nrow() == 0 ) |
---|
1075 | throw AipsError("STMath::quotient: no matching off"); |
---|
1076 | TableRow offrow(offsel); |
---|
1077 | const TableRecord& offrec = offrow.get(0);//should be ncycles - take first |
---|
1078 | RORecordFieldPtr< Array<Float> > specoff(offrec, "SPECTRA"); |
---|
1079 | RORecordFieldPtr< Array<Float> > tsysoff(offrec, "TSYS"); |
---|
1080 | RORecordFieldPtr< Array<uChar> > flagoff(offrec, "FLAGTRA"); |
---|
1081 | Float tsysoffscalar = (*tsysoff)(IPosition(1,0)); |
---|
1082 | Vector<Float> specon, tsyson; |
---|
1083 | outtsysCol.get(i, tsyson); |
---|
1084 | outspecCol.get(i, specon); |
---|
1085 | Vector<uChar> flagon; |
---|
1086 | outflagCol.get(i, flagon); |
---|
1087 | MaskedArray<Float> mon = maskedArray(specon, flagon); |
---|
1088 | MaskedArray<Float> moff = maskedArray(*specoff, *flagoff); |
---|
1089 | MaskedArray<Float> quot = (tsysoffscalar * mon / moff); |
---|
1090 | if (preserve) { |
---|
1091 | quot -= tsysoffscalar; |
---|
1092 | } else { |
---|
1093 | quot -= tsyson[0]; |
---|
1094 | } |
---|
1095 | outspecCol.put(i, quot.getArray()); |
---|
1096 | outflagCol.put(i, flagsFromMA(quot)); |
---|
1097 | } |
---|
1098 | ++sit; |
---|
1099 | ++s2it; |
---|
1100 | // take the first off for each on scan which doesn't have a |
---|
1101 | // matching off scan |
---|
1102 | // non <= noff: matching pairs, non > noff matching pairs then first off |
---|
1103 | if ( s2it.pastEnd() ) s2it.reset(); |
---|
1104 | } |
---|
1105 | return out; |
---|
1106 | } |
---|
1107 | |
---|
1108 | // dototalpower (migration of GBTIDL procedure dototalpower.pro) |
---|
1109 | // calibrate the CAL on-off pair. It calculate Tsys and average CAL on-off subintegrations |
---|
1110 | // do it for each cycles in a specific scan. |
---|
1111 | CountedPtr< Scantable > STMath::dototalpower( const CountedPtr< Scantable >& calon, |
---|
1112 | const CountedPtr< Scantable >& caloff, Float tcal ) |
---|
1113 | { |
---|
1114 | if ( ! calon->conformant(*caloff) ) { |
---|
1115 | throw(AipsError("'CAL on' and 'CAL off' scantables are not conformant.")); |
---|
1116 | } |
---|
1117 | setInsitu(false); |
---|
1118 | CountedPtr< Scantable > out = getScantable(caloff, false); |
---|
1119 | Table& tout = out->table(); |
---|
1120 | const Table& tcon = calon->table(); |
---|
1121 | Vector<Float> tcalout; |
---|
1122 | |
---|
1123 | std::map<uInt,uInt> tcalIdToRecNoMap; |
---|
1124 | const Table& calOffTcalTable = caloff->tcal().table(); |
---|
1125 | { |
---|
1126 | ROScalarColumn<uInt> calOffTcalTable_IDcol(calOffTcalTable, "ID"); |
---|
1127 | const Vector<uInt> tcalIds(calOffTcalTable_IDcol.getColumn()); |
---|
1128 | size_t tcalIdsEnd = tcalIds.nelements(); |
---|
1129 | for (uInt i = 0; i < tcalIdsEnd; i++) { |
---|
1130 | tcalIdToRecNoMap[tcalIds[i]] = i; |
---|
1131 | } |
---|
1132 | } |
---|
1133 | ROArrayColumn<Float> calOffTcalTable_TCALcol(calOffTcalTable, "TCAL"); |
---|
1134 | |
---|
1135 | if ( tout.nrow() != tcon.nrow() ) { |
---|
1136 | throw(AipsError("Mismatch in number of rows to form cal on - off pair.")); |
---|
1137 | } |
---|
1138 | // iteration by scanno or cycle no. |
---|
1139 | TableIterator sit(tout, "SCANNO"); |
---|
1140 | TableIterator s2it(tcon, "SCANNO"); |
---|
1141 | while ( !sit.pastEnd() ) { |
---|
1142 | Table toff = sit.table(); |
---|
1143 | TableRow row(toff); |
---|
1144 | Table t = s2it.table(); |
---|
1145 | ScalarColumn<Double> outintCol(toff, "INTERVAL"); |
---|
1146 | ArrayColumn<Float> outspecCol(toff, "SPECTRA"); |
---|
1147 | ArrayColumn<Float> outtsysCol(toff, "TSYS"); |
---|
1148 | ArrayColumn<uChar> outflagCol(toff, "FLAGTRA"); |
---|
1149 | ROScalarColumn<uInt> outtcalIdCol(toff, "TCAL_ID"); |
---|
1150 | ROScalarColumn<uInt> outpolCol(toff, "POLNO"); |
---|
1151 | ROScalarColumn<Double> onintCol(t, "INTERVAL"); |
---|
1152 | ROArrayColumn<Float> onspecCol(t, "SPECTRA"); |
---|
1153 | ROArrayColumn<Float> ontsysCol(t, "TSYS"); |
---|
1154 | ROArrayColumn<uChar> onflagCol(t, "FLAGTRA"); |
---|
1155 | //ROScalarColumn<uInt> ontcalIdCol(t, "TCAL_ID"); |
---|
1156 | |
---|
1157 | for (uInt i=0; i < toff.nrow(); ++i) { |
---|
1158 | //skip these checks -> assumes the data order are the same between the cal on off pairs |
---|
1159 | // |
---|
1160 | Vector<Float> specCalon, specCaloff; |
---|
1161 | // to store scalar (mean) tsys |
---|
1162 | Vector<Float> tsysout(1); |
---|
1163 | uInt tcalId, polno; |
---|
1164 | Double offint, onint; |
---|
1165 | outpolCol.get(i, polno); |
---|
1166 | outspecCol.get(i, specCaloff); |
---|
1167 | onspecCol.get(i, specCalon); |
---|
1168 | Vector<uChar> flagCaloff, flagCalon; |
---|
1169 | outflagCol.get(i, flagCaloff); |
---|
1170 | onflagCol.get(i, flagCalon); |
---|
1171 | outtcalIdCol.get(i, tcalId); |
---|
1172 | outintCol.get(i, offint); |
---|
1173 | onintCol.get(i, onint); |
---|
1174 | // caluculate mean Tsys |
---|
1175 | uInt nchan = specCaloff.nelements(); |
---|
1176 | // percentage of edge cut off |
---|
1177 | uInt pc = 10; |
---|
1178 | uInt bchan = nchan/pc; |
---|
1179 | uInt echan = nchan-bchan; |
---|
1180 | |
---|
1181 | Slicer chansl(IPosition(1,bchan-1), IPosition(1,echan-1), IPosition(1,1),Slicer::endIsLast); |
---|
1182 | Vector<Float> testsubsp = specCaloff(chansl); |
---|
1183 | MaskedArray<Float> spoff = maskedArray( specCaloff(chansl),flagCaloff(chansl) ); |
---|
1184 | MaskedArray<Float> spon = maskedArray( specCalon(chansl),flagCalon(chansl) ); |
---|
1185 | MaskedArray<Float> spdiff = spon-spoff; |
---|
1186 | uInt noff = spoff.nelementsValid(); |
---|
1187 | //uInt non = spon.nelementsValid(); |
---|
1188 | uInt ndiff = spdiff.nelementsValid(); |
---|
1189 | Float meantsys; |
---|
1190 | |
---|
1191 | /** |
---|
1192 | Double subspec, subdiff; |
---|
1193 | uInt usednchan; |
---|
1194 | subspec = 0; |
---|
1195 | subdiff = 0; |
---|
1196 | usednchan = 0; |
---|
1197 | for(uInt k=(bchan-1); k<echan; k++) { |
---|
1198 | subspec += specCaloff[k]; |
---|
1199 | subdiff += static_cast<Double>(specCalon[k]-specCaloff[k]); |
---|
1200 | ++usednchan; |
---|
1201 | } |
---|
1202 | **/ |
---|
1203 | // get tcal if input tcal <= 0 |
---|
1204 | Float tcalUsed; |
---|
1205 | tcalUsed = tcal; |
---|
1206 | if ( tcal <= 0.0 ) { |
---|
1207 | uInt tcalRecNo = tcalIdToRecNoMap[tcalId]; |
---|
1208 | calOffTcalTable_TCALcol.get(tcalRecNo, tcalout); |
---|
1209 | // if (polno<=3) { |
---|
1210 | // tcalUsed = tcalout[polno]; |
---|
1211 | // } |
---|
1212 | // else { |
---|
1213 | // tcalUsed = tcalout[0]; |
---|
1214 | // } |
---|
1215 | if ( tcalout.size() == 1 ) |
---|
1216 | tcalUsed = tcalout[0] ; |
---|
1217 | else if ( tcalout.size() == nchan ) |
---|
1218 | tcalUsed = mean(tcalout) ; |
---|
1219 | else { |
---|
1220 | uInt ipol = polno ; |
---|
1221 | if ( ipol > 3 ) ipol = 0 ; |
---|
1222 | tcalUsed = tcalout[ipol] ; |
---|
1223 | } |
---|
1224 | } |
---|
1225 | |
---|
1226 | Float meanoff; |
---|
1227 | Float meandiff; |
---|
1228 | if (noff && ndiff) { |
---|
1229 | //Debug |
---|
1230 | //if(noff!=ndiff) cerr<<"noff and ndiff is not equal"<<endl; |
---|
1231 | //LogIO os( LogOrigin( "STMath", "dototalpower()", WHERE ) ) ; |
---|
1232 | //if(noff!=ndiff) os<<"noff and ndiff is not equal"<<LogIO::POST; |
---|
1233 | meanoff = sum(spoff)/noff; |
---|
1234 | meandiff = sum(spdiff)/ndiff; |
---|
1235 | meantsys= (meanoff/meandiff )*tcalUsed + tcalUsed/2; |
---|
1236 | } |
---|
1237 | else { |
---|
1238 | meantsys=1; |
---|
1239 | } |
---|
1240 | |
---|
1241 | tsysout[0] = Float(meantsys); |
---|
1242 | MaskedArray<Float> mcaloff = maskedArray(specCaloff, flagCaloff); |
---|
1243 | MaskedArray<Float> mcalon = maskedArray(specCalon, flagCalon); |
---|
1244 | MaskedArray<Float> sig = Float(0.5) * (mcaloff + mcalon); |
---|
1245 | //uInt ncaloff = mcaloff.nelementsValid(); |
---|
1246 | //uInt ncalon = mcalon.nelementsValid(); |
---|
1247 | |
---|
1248 | outintCol.put(i, offint+onint); |
---|
1249 | outspecCol.put(i, sig.getArray()); |
---|
1250 | outflagCol.put(i, flagsFromMA(sig)); |
---|
1251 | outtsysCol.put(i, tsysout); |
---|
1252 | } |
---|
1253 | ++sit; |
---|
1254 | ++s2it; |
---|
1255 | } |
---|
1256 | return out; |
---|
1257 | } |
---|
1258 | |
---|
1259 | //dosigref - migrated from GBT IDL's dosigref.pro, do calibration of position switch |
---|
1260 | // observatiions. |
---|
1261 | // input: sig and ref scantables, and an optional boxcar smoothing width(default width=0, |
---|
1262 | // no smoothing). |
---|
1263 | // output: resultant scantable [= (sig-ref/ref)*tsys] |
---|
1264 | CountedPtr< Scantable > STMath::dosigref( const CountedPtr < Scantable >& sig, |
---|
1265 | const CountedPtr < Scantable >& ref, |
---|
1266 | int smoothref, |
---|
1267 | casa::Float tsysv, |
---|
1268 | casa::Float tau ) |
---|
1269 | { |
---|
1270 | LogIO os( casa::LogOrigin( "STMath", "dosigref()")); |
---|
1271 | if ( ! ref->conformant(*sig) ) { |
---|
1272 | throw(AipsError("'sig' and 'ref' scantables are not conformant.")); |
---|
1273 | } |
---|
1274 | setInsitu(false); |
---|
1275 | CountedPtr< Scantable > out = getScantable(sig, false); |
---|
1276 | CountedPtr< Scantable > smref; |
---|
1277 | if ( smoothref > 1 ) { |
---|
1278 | float fsmoothref = static_cast<float>(smoothref); |
---|
1279 | std::string inkernel = "boxcar"; |
---|
1280 | smref = smooth(ref, inkernel, fsmoothref ); |
---|
1281 | ostringstream oss; |
---|
1282 | os <<"Applied smoothing of "<<fsmoothref<<" on the reference." |
---|
1283 | << LogIO::POST; |
---|
1284 | } |
---|
1285 | else { |
---|
1286 | smref = ref; |
---|
1287 | } |
---|
1288 | Table& tout = out->table(); |
---|
1289 | const Table& tref = smref->table(); |
---|
1290 | if ( tout.nrow() != tref.nrow() ) { |
---|
1291 | throw(AipsError("Mismatch in number of rows to form on-source and reference pair.")); |
---|
1292 | } |
---|
1293 | // iteration by scanno? or cycle no. |
---|
1294 | TableIterator sit(tout, "SCANNO"); |
---|
1295 | TableIterator s2it(tref, "SCANNO"); |
---|
1296 | while ( !sit.pastEnd() ) { |
---|
1297 | Table ton = sit.table(); |
---|
1298 | Table t = s2it.table(); |
---|
1299 | ScalarColumn<Double> outintCol(ton, "INTERVAL"); |
---|
1300 | ArrayColumn<Float> outspecCol(ton, "SPECTRA"); |
---|
1301 | ArrayColumn<Float> outtsysCol(ton, "TSYS"); |
---|
1302 | ArrayColumn<uChar> outflagCol(ton, "FLAGTRA"); |
---|
1303 | ArrayColumn<Float> refspecCol(t, "SPECTRA"); |
---|
1304 | ROScalarColumn<Double> refintCol(t, "INTERVAL"); |
---|
1305 | ROArrayColumn<Float> reftsysCol(t, "TSYS"); |
---|
1306 | ArrayColumn<uChar> refflagCol(t, "FLAGTRA"); |
---|
1307 | ROScalarColumn<Float> refelevCol(t, "ELEVATION"); |
---|
1308 | for (uInt i=0; i < ton.nrow(); ++i) { |
---|
1309 | |
---|
1310 | Double onint, refint; |
---|
1311 | Vector<Float> specon, specref; |
---|
1312 | // to store scalar (mean) tsys |
---|
1313 | Vector<Float> tsysref; |
---|
1314 | outintCol.get(i, onint); |
---|
1315 | refintCol.get(i, refint); |
---|
1316 | outspecCol.get(i, specon); |
---|
1317 | refspecCol.get(i, specref); |
---|
1318 | Vector<uChar> flagref, flagon; |
---|
1319 | outflagCol.get(i, flagon); |
---|
1320 | refflagCol.get(i, flagref); |
---|
1321 | reftsysCol.get(i, tsysref); |
---|
1322 | |
---|
1323 | Float tsysrefscalar; |
---|
1324 | if ( tsysv > 0.0 ) { |
---|
1325 | ostringstream oss; |
---|
1326 | Float elev; |
---|
1327 | refelevCol.get(i, elev); |
---|
1328 | os << "user specified Tsys = " << tsysv; |
---|
1329 | // do recalc elevation if EL = 0 |
---|
1330 | if ( elev == 0 ) { |
---|
1331 | throw(AipsError("EL=0, elevation data is missing.")); |
---|
1332 | } else { |
---|
1333 | if ( tau <= 0.0 ) { |
---|
1334 | throw(AipsError("Valid tau is not supplied.")); |
---|
1335 | } else { |
---|
1336 | tsysrefscalar = tsysv * exp(tau/elev); |
---|
1337 | } |
---|
1338 | } |
---|
1339 | os << ", corrected (for El) tsys= "<<tsysrefscalar; |
---|
1340 | } |
---|
1341 | else { |
---|
1342 | tsysrefscalar = tsysref[0]; |
---|
1343 | } |
---|
1344 | //get quotient spectrum |
---|
1345 | MaskedArray<Float> mref = maskedArray(specref, flagref); |
---|
1346 | MaskedArray<Float> mon = maskedArray(specon, flagon); |
---|
1347 | MaskedArray<Float> specres = tsysrefscalar*((mon - mref)/mref); |
---|
1348 | Double resint = onint*refint*smoothref/(onint+refint*smoothref); |
---|
1349 | |
---|
1350 | //Debug |
---|
1351 | //cerr<<"Tsys used="<<tsysrefscalar<<endl; |
---|
1352 | //LogIO os( LogOrigin( "STMath", "dosigref", WHERE ) ) ; |
---|
1353 | //os<<"Tsys used="<<tsysrefscalar<<LogIO::POST; |
---|
1354 | // fill the result, replay signal tsys by reference tsys |
---|
1355 | outintCol.put(i, resint); |
---|
1356 | outspecCol.put(i, specres.getArray()); |
---|
1357 | outflagCol.put(i, flagsFromMA(specres)); |
---|
1358 | outtsysCol.put(i, tsysref); |
---|
1359 | } |
---|
1360 | ++sit; |
---|
1361 | ++s2it; |
---|
1362 | } |
---|
1363 | |
---|
1364 | out->setFluxUnit("K"); |
---|
1365 | |
---|
1366 | return out; |
---|
1367 | } |
---|
1368 | |
---|
1369 | CountedPtr< Scantable > STMath::donod(const casa::CountedPtr<Scantable>& s, |
---|
1370 | const std::vector<int>& scans, |
---|
1371 | int smoothref, |
---|
1372 | casa::Float tsysv, |
---|
1373 | casa::Float tau, |
---|
1374 | casa::Float tcal ) |
---|
1375 | |
---|
1376 | { |
---|
1377 | setInsitu(false); |
---|
1378 | LogIO os( casa::LogOrigin( "STMath", "donod()")); |
---|
1379 | STSelector sel; |
---|
1380 | std::vector<int> scan1, scan2, beams, types; |
---|
1381 | std::vector< vector<int> > scanpair; |
---|
1382 | //std::vector<string> calstate; |
---|
1383 | std::vector<int> calstate; |
---|
1384 | String msg; |
---|
1385 | |
---|
1386 | CountedPtr< Scantable > s1b1on, s1b1off, s1b2on, s1b2off; |
---|
1387 | CountedPtr< Scantable > s2b1on, s2b1off, s2b2on, s2b2off; |
---|
1388 | |
---|
1389 | std::vector< CountedPtr< Scantable > > sctables; |
---|
1390 | sctables.push_back(s1b1on); |
---|
1391 | sctables.push_back(s1b1off); |
---|
1392 | sctables.push_back(s1b2on); |
---|
1393 | sctables.push_back(s1b2off); |
---|
1394 | sctables.push_back(s2b1on); |
---|
1395 | sctables.push_back(s2b1off); |
---|
1396 | sctables.push_back(s2b2on); |
---|
1397 | sctables.push_back(s2b2off); |
---|
1398 | |
---|
1399 | //check scanlist |
---|
1400 | int n=s->checkScanInfo(scans); |
---|
1401 | if (n==1) { |
---|
1402 | throw(AipsError("Incorrect scan pairs. ")); |
---|
1403 | } |
---|
1404 | |
---|
1405 | // Assume scans contain only a pair of consecutive scan numbers. |
---|
1406 | // It is assumed that first beam, b1, is on target. |
---|
1407 | // There is no check if the first beam is on or not. |
---|
1408 | if ( scans.size()==1 ) { |
---|
1409 | scan1.push_back(scans[0]); |
---|
1410 | scan2.push_back(scans[0]+1); |
---|
1411 | } else if ( scans.size()==2 ) { |
---|
1412 | scan1.push_back(scans[0]); |
---|
1413 | scan2.push_back(scans[1]); |
---|
1414 | } else { |
---|
1415 | if ( scans.size()%2 == 0 ) { |
---|
1416 | for (uInt i=0; i<scans.size(); i++) { |
---|
1417 | if (i%2 == 0) { |
---|
1418 | scan1.push_back(scans[i]); |
---|
1419 | } |
---|
1420 | else { |
---|
1421 | scan2.push_back(scans[i]); |
---|
1422 | } |
---|
1423 | } |
---|
1424 | } else { |
---|
1425 | throw(AipsError("Odd numbers of scans, cannot form pairs.")); |
---|
1426 | } |
---|
1427 | } |
---|
1428 | scanpair.push_back(scan1); |
---|
1429 | scanpair.push_back(scan2); |
---|
1430 | //calstate.push_back("*calon"); |
---|
1431 | //calstate.push_back("*[^calon]"); |
---|
1432 | calstate.push_back(SrcType::NODCAL); |
---|
1433 | calstate.push_back(SrcType::NOD); |
---|
1434 | CountedPtr< Scantable > ws = getScantable(s, false); |
---|
1435 | uInt l=0; |
---|
1436 | while ( l < sctables.size() ) { |
---|
1437 | for (uInt i=0; i < 2; i++) { |
---|
1438 | for (uInt j=0; j < 2; j++) { |
---|
1439 | for (uInt k=0; k < 2; k++) { |
---|
1440 | sel.reset(); |
---|
1441 | sel.setScans(scanpair[i]); |
---|
1442 | //sel.setName(calstate[k]); |
---|
1443 | types.clear(); |
---|
1444 | types.push_back(calstate[k]); |
---|
1445 | sel.setTypes(types); |
---|
1446 | beams.clear(); |
---|
1447 | beams.push_back(j); |
---|
1448 | sel.setBeams(beams); |
---|
1449 | ws->setSelection(sel); |
---|
1450 | sctables[l]= getScantable(ws, false); |
---|
1451 | l++; |
---|
1452 | } |
---|
1453 | } |
---|
1454 | } |
---|
1455 | } |
---|
1456 | |
---|
1457 | // replace here by splitData or getData functionality |
---|
1458 | CountedPtr< Scantable > sig1; |
---|
1459 | CountedPtr< Scantable > ref1; |
---|
1460 | CountedPtr< Scantable > sig2; |
---|
1461 | CountedPtr< Scantable > ref2; |
---|
1462 | CountedPtr< Scantable > calb1; |
---|
1463 | CountedPtr< Scantable > calb2; |
---|
1464 | |
---|
1465 | msg=String("Processing dototalpower for subset of the data"); |
---|
1466 | os << msg << LogIO::POST; |
---|
1467 | // Debug for IRC CS data |
---|
1468 | //float tcal1=7.0; |
---|
1469 | //float tcal2=4.0; |
---|
1470 | sig1 = dototalpower(sctables[0], sctables[1], tcal=tcal); |
---|
1471 | ref1 = dototalpower(sctables[2], sctables[3], tcal=tcal); |
---|
1472 | ref2 = dototalpower(sctables[4], sctables[5], tcal=tcal); |
---|
1473 | sig2 = dototalpower(sctables[6], sctables[7], tcal=tcal); |
---|
1474 | |
---|
1475 | // correction of user-specified tsys for elevation here |
---|
1476 | |
---|
1477 | // dosigref calibration |
---|
1478 | msg=String("Processing dosigref for subset of the data"); |
---|
1479 | os << msg << endl; |
---|
1480 | calb1=dosigref(sig1,ref2,smoothref,tsysv,tau); |
---|
1481 | calb2=dosigref(sig2,ref1,smoothref,tsysv,tau); |
---|
1482 | |
---|
1483 | // iteration by scanno or cycle no. |
---|
1484 | Table& tcalb1 = calb1->table(); |
---|
1485 | Table& tcalb2 = calb2->table(); |
---|
1486 | TableIterator sit(tcalb1, "SCANNO"); |
---|
1487 | TableIterator s2it(tcalb2, "SCANNO"); |
---|
1488 | while ( !sit.pastEnd() ) { |
---|
1489 | Table t1 = sit.table(); |
---|
1490 | Table t2= s2it.table(); |
---|
1491 | ArrayColumn<Float> outspecCol(t1, "SPECTRA"); |
---|
1492 | ArrayColumn<Float> outtsysCol(t1, "TSYS"); |
---|
1493 | ArrayColumn<uChar> outflagCol(t1, "FLAGTRA"); |
---|
1494 | ScalarColumn<Double> outintCol(t1, "INTERVAL"); |
---|
1495 | ArrayColumn<Float> t2specCol(t2, "SPECTRA"); |
---|
1496 | ROArrayColumn<Float> t2tsysCol(t2, "TSYS"); |
---|
1497 | ArrayColumn<uChar> t2flagCol(t2, "FLAGTRA"); |
---|
1498 | ROScalarColumn<Double> t2intCol(t2, "INTERVAL"); |
---|
1499 | for (uInt i=0; i < t1.nrow(); ++i) { |
---|
1500 | Vector<Float> spec1, spec2; |
---|
1501 | // to store scalar (mean) tsys |
---|
1502 | Vector<Float> tsys1, tsys2; |
---|
1503 | Vector<uChar> flag1, flag2; |
---|
1504 | Double tint1, tint2; |
---|
1505 | outspecCol.get(i, spec1); |
---|
1506 | t2specCol.get(i, spec2); |
---|
1507 | outflagCol.get(i, flag1); |
---|
1508 | t2flagCol.get(i, flag2); |
---|
1509 | outtsysCol.get(i, tsys1); |
---|
1510 | t2tsysCol.get(i, tsys2); |
---|
1511 | outintCol.get(i, tint1); |
---|
1512 | t2intCol.get(i, tint2); |
---|
1513 | // average |
---|
1514 | // assume scalar tsys for weights |
---|
1515 | Float wt1, wt2, tsyssq1, tsyssq2; |
---|
1516 | tsyssq1 = tsys1[0]*tsys1[0]; |
---|
1517 | tsyssq2 = tsys2[0]*tsys2[0]; |
---|
1518 | wt1 = Float(tint1)/tsyssq1; |
---|
1519 | wt2 = Float(tint2)/tsyssq2; |
---|
1520 | Float invsumwt=1/(wt1+wt2); |
---|
1521 | MaskedArray<Float> mspec1 = maskedArray(spec1, flag1); |
---|
1522 | MaskedArray<Float> mspec2 = maskedArray(spec2, flag2); |
---|
1523 | MaskedArray<Float> avspec = invsumwt * (wt1*mspec1 + wt2*mspec2); |
---|
1524 | //Array<Float> avtsys = Float(0.5) * (tsys1 + tsys2); |
---|
1525 | // cerr<< "Tsys1="<<tsys1<<" Tsys2="<<tsys2<<endl; |
---|
1526 | // LogIO os( LogOrigin( "STMath", "donod", WHERE ) ) ; |
---|
1527 | // os<< "Tsys1="<<tsys1<<" Tsys2="<<tsys2<<LogIO::POST; |
---|
1528 | tsys1[0] = sqrt(tsyssq1 + tsyssq2); |
---|
1529 | Array<Float> avtsys = tsys1; |
---|
1530 | |
---|
1531 | outspecCol.put(i, avspec.getArray()); |
---|
1532 | outflagCol.put(i, flagsFromMA(avspec)); |
---|
1533 | outtsysCol.put(i, avtsys); |
---|
1534 | } |
---|
1535 | ++sit; |
---|
1536 | ++s2it; |
---|
1537 | } |
---|
1538 | |
---|
1539 | calb1->setFluxUnit("K"); |
---|
1540 | |
---|
1541 | return calb1; |
---|
1542 | } |
---|
1543 | |
---|
1544 | //GBTIDL version of frequency switched data calibration |
---|
1545 | CountedPtr< Scantable > STMath::dofs( const CountedPtr< Scantable >& s, |
---|
1546 | const std::vector<int>& scans, |
---|
1547 | int smoothref, |
---|
1548 | casa::Float tsysv, |
---|
1549 | casa::Float tau, |
---|
1550 | casa::Float tcal ) |
---|
1551 | { |
---|
1552 | |
---|
1553 | |
---|
1554 | (void) scans; //currently unused |
---|
1555 | STSelector sel; |
---|
1556 | CountedPtr< Scantable > ws = getScantable(s, false); |
---|
1557 | CountedPtr< Scantable > sig, sigwcal, ref, refwcal; |
---|
1558 | CountedPtr< Scantable > calsig, calref, out, out1, out2; |
---|
1559 | Bool nofold=False; |
---|
1560 | vector<int> types ; |
---|
1561 | |
---|
1562 | //split the data |
---|
1563 | //sel.setName("*_fs"); |
---|
1564 | types.push_back( SrcType::FSON ) ; |
---|
1565 | sel.setTypes( types ) ; |
---|
1566 | ws->setSelection(sel); |
---|
1567 | sig = getScantable(ws,false); |
---|
1568 | sel.reset(); |
---|
1569 | types.clear() ; |
---|
1570 | //sel.setName("*_fs_calon"); |
---|
1571 | types.push_back( SrcType::FONCAL ) ; |
---|
1572 | sel.setTypes( types ) ; |
---|
1573 | ws->setSelection(sel); |
---|
1574 | sigwcal = getScantable(ws,false); |
---|
1575 | sel.reset(); |
---|
1576 | types.clear() ; |
---|
1577 | //sel.setName("*_fsr"); |
---|
1578 | types.push_back( SrcType::FSOFF ) ; |
---|
1579 | sel.setTypes( types ) ; |
---|
1580 | ws->setSelection(sel); |
---|
1581 | ref = getScantable(ws,false); |
---|
1582 | sel.reset(); |
---|
1583 | types.clear() ; |
---|
1584 | //sel.setName("*_fsr_calon"); |
---|
1585 | types.push_back( SrcType::FOFFCAL ) ; |
---|
1586 | sel.setTypes( types ) ; |
---|
1587 | ws->setSelection(sel); |
---|
1588 | refwcal = getScantable(ws,false); |
---|
1589 | sel.reset() ; |
---|
1590 | types.clear() ; |
---|
1591 | |
---|
1592 | calsig = dototalpower(sigwcal, sig, tcal=tcal); |
---|
1593 | calref = dototalpower(refwcal, ref, tcal=tcal); |
---|
1594 | |
---|
1595 | out1=dosigref(calsig,calref,smoothref,tsysv,tau); |
---|
1596 | out2=dosigref(calref,calsig,smoothref,tsysv,tau); |
---|
1597 | |
---|
1598 | Table& tabout1=out1->table(); |
---|
1599 | Table& tabout2=out2->table(); |
---|
1600 | ROScalarColumn<uInt> freqidCol1(tabout1, "FREQ_ID"); |
---|
1601 | ScalarColumn<uInt> freqidCol2(tabout2, "FREQ_ID"); |
---|
1602 | ROArrayColumn<Float> specCol(tabout2, "SPECTRA"); |
---|
1603 | Vector<Float> spec; specCol.get(0, spec); |
---|
1604 | uInt nchan = spec.nelements(); |
---|
1605 | uInt freqid1; freqidCol1.get(0,freqid1); |
---|
1606 | uInt freqid2; freqidCol2.get(0,freqid2); |
---|
1607 | Double rp1, rp2, rv1, rv2, inc1, inc2; |
---|
1608 | out1->frequencies().getEntry(rp1, rv1, inc1, freqid1); |
---|
1609 | out2->frequencies().getEntry(rp2, rv2, inc2, freqid2); |
---|
1610 | //cerr << out1->frequencies().table().nrow() << " " << out2->frequencies().table().nrow() << endl ; |
---|
1611 | //LogIO os( LogOrigin( "STMath", "dofs()", WHERE ) ) ; |
---|
1612 | //os << out1->frequencies().table().nrow() << " " << out2->frequencies().table().nrow() << LogIO::POST ; |
---|
1613 | if (rp1==rp2) { |
---|
1614 | Double foffset = rv1 - rv2; |
---|
1615 | uInt choffset = static_cast<uInt>(foffset/abs(inc2)); |
---|
1616 | if (choffset >= nchan) { |
---|
1617 | //cerr<<"out-band frequency switching, no folding"<<endl; |
---|
1618 | LogIO os( LogOrigin( "STMath", "dofs()", WHERE ) ) ; |
---|
1619 | os<<"out-band frequency switching, no folding"<<LogIO::POST; |
---|
1620 | nofold = True; |
---|
1621 | } |
---|
1622 | } |
---|
1623 | |
---|
1624 | if (nofold) { |
---|
1625 | std::vector< CountedPtr< Scantable > > tabs; |
---|
1626 | tabs.push_back(out1); |
---|
1627 | tabs.push_back(out2); |
---|
1628 | out = merge(tabs); |
---|
1629 | } |
---|
1630 | else { |
---|
1631 | //out = out1; |
---|
1632 | Double choffset = ( rv1 - rv2 ) / inc2 ; |
---|
1633 | out = dofold( out1, out2, choffset ) ; |
---|
1634 | } |
---|
1635 | |
---|
1636 | out->setFluxUnit("K"); |
---|
1637 | |
---|
1638 | return out; |
---|
1639 | } |
---|
1640 | |
---|
1641 | CountedPtr<Scantable> STMath::dofold( const CountedPtr<Scantable> &sig, |
---|
1642 | const CountedPtr<Scantable> &ref, |
---|
1643 | Double choffset, |
---|
1644 | Double choffset2 ) |
---|
1645 | { |
---|
1646 | LogIO os( LogOrigin( "STMath", "dofold", WHERE ) ) ; |
---|
1647 | os << "choffset=" << choffset << " choffset2=" << choffset2 << LogIO::POST ; |
---|
1648 | |
---|
1649 | // output scantable |
---|
1650 | CountedPtr<Scantable> out = getScantable( sig, false ) ; |
---|
1651 | |
---|
1652 | // separate choffset to integer part and decimal part |
---|
1653 | Int ioffset = (Int)choffset ; |
---|
1654 | Double doffset = choffset - ioffset ; |
---|
1655 | Int ioffset2 = (Int)choffset2 ; |
---|
1656 | Double doffset2 = choffset2 - ioffset2 ; |
---|
1657 | os << "ioffset=" << ioffset << " doffset=" << doffset << LogIO::POST ; |
---|
1658 | os << "ioffset2=" << ioffset2 << " doffset2=" << doffset2 << LogIO::POST ; |
---|
1659 | |
---|
1660 | // get column |
---|
1661 | ROArrayColumn<Float> specCol1( sig->table(), "SPECTRA" ) ; |
---|
1662 | ROArrayColumn<Float> specCol2( ref->table(), "SPECTRA" ) ; |
---|
1663 | ROArrayColumn<Float> tsysCol1( sig->table(), "TSYS" ) ; |
---|
1664 | ROArrayColumn<Float> tsysCol2( ref->table(), "TSYS" ) ; |
---|
1665 | ROArrayColumn<uChar> flagCol1( sig->table(), "FLAGTRA" ) ; |
---|
1666 | ROArrayColumn<uChar> flagCol2( ref->table(), "FLAGTRA" ) ; |
---|
1667 | ROScalarColumn<Double> mjdCol1( sig->table(), "TIME" ) ; |
---|
1668 | ROScalarColumn<Double> mjdCol2( ref->table(), "TIME" ) ; |
---|
1669 | ROScalarColumn<Double> intervalCol1( sig->table(), "INTERVAL" ) ; |
---|
1670 | ROScalarColumn<Double> intervalCol2( ref->table(), "INTERVAL" ) ; |
---|
1671 | |
---|
1672 | // check |
---|
1673 | if ( ioffset == 0 ) { |
---|
1674 | LogIO os( LogOrigin( "STMath", "dofold()", WHERE ) ) ; |
---|
1675 | os << "channel offset is zero, no folding" << LogIO::POST ; |
---|
1676 | return out ; |
---|
1677 | } |
---|
1678 | int nchan = ref->nchan() ; |
---|
1679 | if ( abs(ioffset) >= nchan ) { |
---|
1680 | LogIO os( LogOrigin( "STMath", "dofold()", WHERE ) ) ; |
---|
1681 | os << "out-band frequency switching, no folding" << LogIO::POST ; |
---|
1682 | return out ; |
---|
1683 | } |
---|
1684 | |
---|
1685 | // attach column for output scantable |
---|
1686 | ArrayColumn<Float> specColOut( out->table(), "SPECTRA" ) ; |
---|
1687 | ArrayColumn<uChar> flagColOut( out->table(), "FLAGTRA" ) ; |
---|
1688 | ArrayColumn<Float> tsysColOut( out->table(), "TSYS" ) ; |
---|
1689 | ScalarColumn<Double> mjdColOut( out->table(), "TIME" ) ; |
---|
1690 | ScalarColumn<Double> intervalColOut( out->table(), "INTERVAL" ) ; |
---|
1691 | ScalarColumn<uInt> fidColOut( out->table(), "FREQ_ID" ) ; |
---|
1692 | |
---|
1693 | // for each row |
---|
1694 | // assume that the data order are same between sig and ref |
---|
1695 | RowAccumulator acc( asap::W_TINTSYS ) ; |
---|
1696 | for ( int i = 0 ; i < sig->nrow() ; i++ ) { |
---|
1697 | // get values |
---|
1698 | Vector<Float> spsig ; |
---|
1699 | specCol1.get( i, spsig ) ; |
---|
1700 | Vector<Float> spref ; |
---|
1701 | specCol2.get( i, spref ) ; |
---|
1702 | Vector<Float> tsyssig ; |
---|
1703 | tsysCol1.get( i, tsyssig ) ; |
---|
1704 | Vector<Float> tsysref ; |
---|
1705 | tsysCol2.get( i, tsysref ) ; |
---|
1706 | Vector<uChar> flagsig ; |
---|
1707 | flagCol1.get( i, flagsig ) ; |
---|
1708 | Vector<uChar> flagref ; |
---|
1709 | flagCol2.get( i, flagref ) ; |
---|
1710 | Double timesig ; |
---|
1711 | mjdCol1.get( i, timesig ) ; |
---|
1712 | Double timeref ; |
---|
1713 | mjdCol2.get( i, timeref ) ; |
---|
1714 | Double intsig ; |
---|
1715 | intervalCol1.get( i, intsig ) ; |
---|
1716 | Double intref ; |
---|
1717 | intervalCol2.get( i, intref ) ; |
---|
1718 | |
---|
1719 | // shift reference spectra |
---|
1720 | int refchan = spref.nelements() ; |
---|
1721 | Vector<Float> sspref( spref.nelements() ) ; |
---|
1722 | Vector<Float> stsysref( tsysref.nelements() ) ; |
---|
1723 | Vector<uChar> sflagref( flagref.nelements() ) ; |
---|
1724 | if ( ioffset > 0 ) { |
---|
1725 | // SPECTRA and FLAGTRA |
---|
1726 | for ( int j = 0 ; j < refchan-ioffset ; j++ ) { |
---|
1727 | sspref[j] = spref[j+ioffset] ; |
---|
1728 | sflagref[j] = flagref[j+ioffset] ; |
---|
1729 | } |
---|
1730 | for ( int j = refchan-ioffset ; j < refchan ; j++ ) { |
---|
1731 | sspref[j] = spref[j-refchan+ioffset] ; |
---|
1732 | sflagref[j] = flagref[j-refchan+ioffset] ; |
---|
1733 | } |
---|
1734 | spref = sspref.copy() ; |
---|
1735 | flagref = sflagref.copy() ; |
---|
1736 | for ( int j = 0 ; j < refchan - 1 ; j++ ) { |
---|
1737 | sspref[j] = doffset * spref[j+1] + ( 1.0 - doffset ) * spref[j] ; |
---|
1738 | sflagref[j] = flagref[j+1] + flagref[j] ; |
---|
1739 | } |
---|
1740 | sspref[refchan-1] = doffset * spref[0] + ( 1.0 - doffset ) * spref[refchan-1] ; |
---|
1741 | sflagref[refchan-1] = flagref[0] + flagref[refchan-1] ; |
---|
1742 | |
---|
1743 | // TSYS |
---|
1744 | if ( spref.nelements() == tsysref.nelements() ) { |
---|
1745 | for ( int j = 0 ; j < refchan-ioffset ; j++ ) { |
---|
1746 | stsysref[j] = tsysref[j+ioffset] ; |
---|
1747 | } |
---|
1748 | for ( int j = refchan-ioffset ; j < refchan ; j++ ) { |
---|
1749 | stsysref[j] = tsysref[j-refchan+ioffset] ; |
---|
1750 | } |
---|
1751 | tsysref = stsysref.copy() ; |
---|
1752 | for ( int j = 0 ; j < refchan - 1 ; j++ ) { |
---|
1753 | stsysref[j] = doffset * tsysref[j+1] + ( 1.0 - doffset ) * tsysref[j] ; |
---|
1754 | } |
---|
1755 | stsysref[refchan-1] = doffset * tsysref[0] + ( 1.0 - doffset ) * tsysref[refchan-1] ; |
---|
1756 | } |
---|
1757 | } |
---|
1758 | else { |
---|
1759 | // SPECTRA and FLAGTRA |
---|
1760 | for ( int j = 0 ; j < abs(ioffset) ; j++ ) { |
---|
1761 | sspref[j] = spref[refchan+ioffset+j] ; |
---|
1762 | sflagref[j] = flagref[refchan+ioffset+j] ; |
---|
1763 | } |
---|
1764 | for ( int j = abs(ioffset) ; j < refchan ; j++ ) { |
---|
1765 | sspref[j] = spref[j+ioffset] ; |
---|
1766 | sflagref[j] = flagref[j+ioffset] ; |
---|
1767 | } |
---|
1768 | spref = sspref.copy() ; |
---|
1769 | flagref = sflagref.copy() ; |
---|
1770 | sspref[0] = doffset * spref[refchan-1] + ( 1.0 - doffset ) * spref[0] ; |
---|
1771 | sflagref[0] = flagref[0] + flagref[refchan-1] ; |
---|
1772 | for ( int j = 1 ; j < refchan ; j++ ) { |
---|
1773 | sspref[j] = doffset * spref[j-1] + ( 1.0 - doffset ) * spref[j] ; |
---|
1774 | sflagref[j] = flagref[j-1] + flagref[j] ; |
---|
1775 | } |
---|
1776 | // TSYS |
---|
1777 | if ( spref.nelements() == tsysref.nelements() ) { |
---|
1778 | for ( int j = 0 ; j < abs(ioffset) ; j++ ) { |
---|
1779 | stsysref[j] = tsysref[refchan+ioffset+j] ; |
---|
1780 | } |
---|
1781 | for ( int j = abs(ioffset) ; j < refchan ; j++ ) { |
---|
1782 | stsysref[j] = tsysref[j+ioffset] ; |
---|
1783 | } |
---|
1784 | tsysref = stsysref.copy() ; |
---|
1785 | stsysref[0] = doffset * tsysref[refchan-1] + ( 1.0 - doffset ) * tsysref[0] ; |
---|
1786 | for ( int j = 1 ; j < refchan ; j++ ) { |
---|
1787 | stsysref[j] = doffset * tsysref[j-1] + ( 1.0 - doffset ) * tsysref[j] ; |
---|
1788 | } |
---|
1789 | } |
---|
1790 | } |
---|
1791 | |
---|
1792 | // shift signal spectra if necessary (only for APEX?) |
---|
1793 | if ( choffset2 != 0.0 ) { |
---|
1794 | int sigchan = spsig.nelements() ; |
---|
1795 | Vector<Float> sspsig( spsig.nelements() ) ; |
---|
1796 | Vector<Float> stsyssig( tsyssig.nelements() ) ; |
---|
1797 | Vector<uChar> sflagsig( flagsig.nelements() ) ; |
---|
1798 | if ( ioffset2 > 0 ) { |
---|
1799 | // SPECTRA and FLAGTRA |
---|
1800 | for ( int j = 0 ; j < sigchan-ioffset2 ; j++ ) { |
---|
1801 | sspsig[j] = spsig[j+ioffset2] ; |
---|
1802 | sflagsig[j] = flagsig[j+ioffset2] ; |
---|
1803 | } |
---|
1804 | for ( int j = sigchan-ioffset2 ; j < sigchan ; j++ ) { |
---|
1805 | sspsig[j] = spsig[j-sigchan+ioffset2] ; |
---|
1806 | sflagsig[j] = flagsig[j-sigchan+ioffset2] ; |
---|
1807 | } |
---|
1808 | spsig = sspsig.copy() ; |
---|
1809 | flagsig = sflagsig.copy() ; |
---|
1810 | for ( int j = 0 ; j < sigchan - 1 ; j++ ) { |
---|
1811 | sspsig[j] = doffset2 * spsig[j+1] + ( 1.0 - doffset2 ) * spsig[j] ; |
---|
1812 | sflagsig[j] = flagsig[j+1] || flagsig[j] ; |
---|
1813 | } |
---|
1814 | sspsig[sigchan-1] = doffset2 * spsig[0] + ( 1.0 - doffset2 ) * spsig[sigchan-1] ; |
---|
1815 | sflagsig[sigchan-1] = flagsig[0] || flagsig[sigchan-1] ; |
---|
1816 | // TSTS |
---|
1817 | if ( spsig.nelements() == tsyssig.nelements() ) { |
---|
1818 | for ( int j = 0 ; j < sigchan-ioffset2 ; j++ ) { |
---|
1819 | stsyssig[j] = tsyssig[j+ioffset2] ; |
---|
1820 | } |
---|
1821 | for ( int j = sigchan-ioffset2 ; j < sigchan ; j++ ) { |
---|
1822 | stsyssig[j] = tsyssig[j-sigchan+ioffset2] ; |
---|
1823 | } |
---|
1824 | tsyssig = stsyssig.copy() ; |
---|
1825 | for ( int j = 0 ; j < sigchan - 1 ; j++ ) { |
---|
1826 | stsyssig[j] = doffset2 * tsyssig[j+1] + ( 1.0 - doffset2 ) * tsyssig[j] ; |
---|
1827 | } |
---|
1828 | stsyssig[sigchan-1] = doffset2 * tsyssig[0] + ( 1.0 - doffset2 ) * tsyssig[sigchan-1] ; |
---|
1829 | } |
---|
1830 | } |
---|
1831 | else { |
---|
1832 | // SPECTRA and FLAGTRA |
---|
1833 | for ( int j = 0 ; j < abs(ioffset2) ; j++ ) { |
---|
1834 | sspsig[j] = spsig[sigchan+ioffset2+j] ; |
---|
1835 | sflagsig[j] = flagsig[sigchan+ioffset2+j] ; |
---|
1836 | } |
---|
1837 | for ( int j = abs(ioffset2) ; j < sigchan ; j++ ) { |
---|
1838 | sspsig[j] = spsig[j+ioffset2] ; |
---|
1839 | sflagsig[j] = flagsig[j+ioffset2] ; |
---|
1840 | } |
---|
1841 | spsig = sspsig.copy() ; |
---|
1842 | flagsig = sflagsig.copy() ; |
---|
1843 | sspsig[0] = doffset2 * spsig[sigchan-1] + ( 1.0 - doffset2 ) * spsig[0] ; |
---|
1844 | sflagsig[0] = flagsig[0] + flagsig[sigchan-1] ; |
---|
1845 | for ( int j = 1 ; j < sigchan ; j++ ) { |
---|
1846 | sspsig[j] = doffset2 * spsig[j-1] + ( 1.0 - doffset2 ) * spsig[j] ; |
---|
1847 | sflagsig[j] = flagsig[j-1] + flagsig[j] ; |
---|
1848 | } |
---|
1849 | // TSYS |
---|
1850 | if ( spsig.nelements() == tsyssig.nelements() ) { |
---|
1851 | for ( int j = 0 ; j < abs(ioffset2) ; j++ ) { |
---|
1852 | stsyssig[j] = tsyssig[sigchan+ioffset2+j] ; |
---|
1853 | } |
---|
1854 | for ( int j = abs(ioffset2) ; j < sigchan ; j++ ) { |
---|
1855 | stsyssig[j] = tsyssig[j+ioffset2] ; |
---|
1856 | } |
---|
1857 | tsyssig = stsyssig.copy() ; |
---|
1858 | stsyssig[0] = doffset2 * tsyssig[sigchan-1] + ( 1.0 - doffset2 ) * tsyssig[0] ; |
---|
1859 | for ( int j = 1 ; j < sigchan ; j++ ) { |
---|
1860 | stsyssig[j] = doffset2 * tsyssig[j-1] + ( 1.0 - doffset2 ) * tsyssig[j] ; |
---|
1861 | } |
---|
1862 | } |
---|
1863 | } |
---|
1864 | } |
---|
1865 | |
---|
1866 | // folding |
---|
1867 | acc.add( spsig, !flagsig, tsyssig, intsig, timesig ) ; |
---|
1868 | acc.add( sspref, !sflagref, stsysref, intref, timeref ) ; |
---|
1869 | |
---|
1870 | // put result |
---|
1871 | specColOut.put( i, acc.getSpectrum() ) ; |
---|
1872 | const Vector<Bool> &msk = acc.getMask() ; |
---|
1873 | Vector<uChar> flg( msk.shape() ) ; |
---|
1874 | convertArray( flg, !msk ) ; |
---|
1875 | flagColOut.put( i, flg ) ; |
---|
1876 | tsysColOut.put( i, acc.getTsys() ) ; |
---|
1877 | intervalColOut.put( i, acc.getInterval() ) ; |
---|
1878 | mjdColOut.put( i, acc.getTime() ) ; |
---|
1879 | // change FREQ_ID to unshifted IF setting (only for APEX?) |
---|
1880 | if ( choffset2 != 0.0 ) { |
---|
1881 | uInt freqid = fidColOut( 0 ) ; // assume single-IF data |
---|
1882 | double refpix, refval, increment ; |
---|
1883 | out->frequencies().getEntry( refpix, refval, increment, freqid ) ; |
---|
1884 | refval -= choffset * increment ; |
---|
1885 | uInt newfreqid = out->frequencies().addEntry( refpix, refval, increment ) ; |
---|
1886 | Vector<uInt> freqids = fidColOut.getColumn() ; |
---|
1887 | for ( uInt j = 0 ; j < freqids.nelements() ; j++ ) { |
---|
1888 | if ( freqids[j] == freqid ) |
---|
1889 | freqids[j] = newfreqid ; |
---|
1890 | } |
---|
1891 | fidColOut.putColumn( freqids ) ; |
---|
1892 | } |
---|
1893 | |
---|
1894 | acc.reset() ; |
---|
1895 | } |
---|
1896 | |
---|
1897 | return out ; |
---|
1898 | } |
---|
1899 | |
---|
1900 | |
---|
1901 | CountedPtr< Scantable > STMath::freqSwitch( const CountedPtr< Scantable >& in ) |
---|
1902 | { |
---|
1903 | // make copy or reference |
---|
1904 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
1905 | Table& tout = out->table(); |
---|
1906 | Block<String> cols(4); |
---|
1907 | cols[0] = String("SCANNO"); |
---|
1908 | cols[1] = String("CYCLENO"); |
---|
1909 | cols[2] = String("BEAMNO"); |
---|
1910 | cols[3] = String("POLNO"); |
---|
1911 | TableIterator iter(tout, cols); |
---|
1912 | while (!iter.pastEnd()) { |
---|
1913 | Table subt = iter.table(); |
---|
1914 | // this should leave us with two rows for the two IFs....if not ignore |
---|
1915 | if (subt.nrow() != 2 ) { |
---|
1916 | continue; |
---|
1917 | } |
---|
1918 | ArrayColumn<Float> specCol(subt, "SPECTRA"); |
---|
1919 | ArrayColumn<Float> tsysCol(subt, "TSYS"); |
---|
1920 | ArrayColumn<uChar> flagCol(subt, "FLAGTRA"); |
---|
1921 | Vector<Float> onspec,offspec, ontsys, offtsys; |
---|
1922 | Vector<uChar> onflag, offflag; |
---|
1923 | tsysCol.get(0, ontsys); tsysCol.get(1, offtsys); |
---|
1924 | specCol.get(0, onspec); specCol.get(1, offspec); |
---|
1925 | flagCol.get(0, onflag); flagCol.get(1, offflag); |
---|
1926 | MaskedArray<Float> on = maskedArray(onspec, onflag); |
---|
1927 | MaskedArray<Float> off = maskedArray(offspec, offflag); |
---|
1928 | MaskedArray<Float> oncopy = on.copy(); |
---|
1929 | |
---|
1930 | on /= off; on -= 1.0f; |
---|
1931 | on *= ontsys[0]; |
---|
1932 | off /= oncopy; off -= 1.0f; |
---|
1933 | off *= offtsys[0]; |
---|
1934 | specCol.put(0, on.getArray()); |
---|
1935 | const Vector<Bool>& m0 = on.getMask(); |
---|
1936 | Vector<uChar> flags0(m0.shape()); |
---|
1937 | convertArray(flags0, !m0); |
---|
1938 | flagCol.put(0, flags0); |
---|
1939 | |
---|
1940 | specCol.put(1, off.getArray()); |
---|
1941 | const Vector<Bool>& m1 = off.getMask(); |
---|
1942 | Vector<uChar> flags1(m1.shape()); |
---|
1943 | convertArray(flags1, !m1); |
---|
1944 | flagCol.put(1, flags1); |
---|
1945 | ++iter; |
---|
1946 | } |
---|
1947 | |
---|
1948 | return out; |
---|
1949 | } |
---|
1950 | |
---|
1951 | std::vector< float > STMath::statistic( const CountedPtr< Scantable > & in, |
---|
1952 | const std::vector< bool > & mask, |
---|
1953 | const std::string& which ) |
---|
1954 | { |
---|
1955 | |
---|
1956 | Vector<Bool> m(mask); |
---|
1957 | const Table& tab = in->table(); |
---|
1958 | ROArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
1959 | ROArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
1960 | std::vector<float> out; |
---|
1961 | for (uInt i=0; i < tab.nrow(); ++i ) { |
---|
1962 | Vector<Float> spec; specCol.get(i, spec); |
---|
1963 | Vector<uChar> flag; flagCol.get(i, flag); |
---|
1964 | MaskedArray<Float> ma = maskedArray(spec, flag); |
---|
1965 | float outstat = 0.0; |
---|
1966 | if ( spec.nelements() == m.nelements() ) { |
---|
1967 | outstat = mathutil::statistics(which, ma(m)); |
---|
1968 | } else { |
---|
1969 | outstat = mathutil::statistics(which, ma); |
---|
1970 | } |
---|
1971 | out.push_back(outstat); |
---|
1972 | } |
---|
1973 | return out; |
---|
1974 | } |
---|
1975 | |
---|
1976 | std::vector< float > STMath::statisticRow( const CountedPtr< Scantable > & in, |
---|
1977 | const std::vector< bool > & mask, |
---|
1978 | const std::string& which, |
---|
1979 | int row ) |
---|
1980 | { |
---|
1981 | |
---|
1982 | Vector<Bool> m(mask); |
---|
1983 | const Table& tab = in->table(); |
---|
1984 | ROArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
1985 | ROArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
1986 | std::vector<float> out; |
---|
1987 | |
---|
1988 | Vector<Float> spec; specCol.get(row, spec); |
---|
1989 | Vector<uChar> flag; flagCol.get(row, flag); |
---|
1990 | MaskedArray<Float> ma = maskedArray(spec, flag); |
---|
1991 | float outstat = 0.0; |
---|
1992 | if ( spec.nelements() == m.nelements() ) { |
---|
1993 | outstat = mathutil::statistics(which, ma(m)); |
---|
1994 | } else { |
---|
1995 | outstat = mathutil::statistics(which, ma); |
---|
1996 | } |
---|
1997 | out.push_back(outstat); |
---|
1998 | |
---|
1999 | return out; |
---|
2000 | } |
---|
2001 | |
---|
2002 | std::vector< int > STMath::minMaxChan( const CountedPtr< Scantable > & in, |
---|
2003 | const std::vector< bool > & mask, |
---|
2004 | const std::string& which ) |
---|
2005 | { |
---|
2006 | |
---|
2007 | Vector<Bool> m(mask); |
---|
2008 | const Table& tab = in->table(); |
---|
2009 | ROArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2010 | ROArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2011 | std::vector<int> out; |
---|
2012 | for (uInt i=0; i < tab.nrow(); ++i ) { |
---|
2013 | Vector<Float> spec; specCol.get(i, spec); |
---|
2014 | Vector<uChar> flag; flagCol.get(i, flag); |
---|
2015 | MaskedArray<Float> ma = maskedArray(spec, flag); |
---|
2016 | if (ma.ndim() != 1) { |
---|
2017 | throw (ArrayError( |
---|
2018 | "std::vector<int> STMath::minMaxChan(" |
---|
2019 | "ContedPtr<Scantable> &in, std::vector<bool> &mask, " |
---|
2020 | " std::string &which)" |
---|
2021 | " - MaskedArray is not 1D")); |
---|
2022 | } |
---|
2023 | IPosition outpos(1,0); |
---|
2024 | if ( spec.nelements() == m.nelements() ) { |
---|
2025 | outpos = mathutil::minMaxPos(which, ma(m)); |
---|
2026 | } else { |
---|
2027 | outpos = mathutil::minMaxPos(which, ma); |
---|
2028 | } |
---|
2029 | out.push_back(outpos[0]); |
---|
2030 | } |
---|
2031 | return out; |
---|
2032 | } |
---|
2033 | |
---|
2034 | CountedPtr< Scantable > STMath::bin( const CountedPtr< Scantable > & in, |
---|
2035 | int width ) |
---|
2036 | { |
---|
2037 | if ( !in->getSelection().empty() ) throw(AipsError("Can't bin subset of the data.")); |
---|
2038 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2039 | Table& tout = out->table(); |
---|
2040 | out->frequencies().rescale(width, "BIN"); |
---|
2041 | ArrayColumn<Float> specCol(tout, "SPECTRA"); |
---|
2042 | ArrayColumn<uChar> flagCol(tout, "FLAGTRA"); |
---|
2043 | ArrayColumn<Float> tsysCol(tout, "TSYS"); |
---|
2044 | |
---|
2045 | for (uInt i=0; i < tout.nrow(); ++i ) { |
---|
2046 | MaskedArray<Float> main = maskedArray(specCol(i), flagCol(i)); |
---|
2047 | MaskedArray<Float> maout; |
---|
2048 | LatticeUtilities::bin(maout, main, 0, Int(width)); |
---|
2049 | specCol.put(i, maout.getArray()); |
---|
2050 | flagCol.put(i, flagsFromMA(maout)); |
---|
2051 | if (tsysCol(i).nelements() == specCol(i).nelements()) { |
---|
2052 | MaskedArray<Float> matsysin = maskedArray(tsysCol(i), flagCol(i)); |
---|
2053 | MaskedArray<Float> matsysout; |
---|
2054 | LatticeUtilities::bin(matsysout, matsysin, 0, Int(width)); |
---|
2055 | tsysCol.put(i, matsysout.getArray()); |
---|
2056 | } |
---|
2057 | // take only the first binned spectrum's length for the deprecated |
---|
2058 | // global header item nChan |
---|
2059 | if (i==0) tout.rwKeywordSet().define(String("nChan"), |
---|
2060 | Int(maout.getArray().nelements())); |
---|
2061 | } |
---|
2062 | return out; |
---|
2063 | } |
---|
2064 | |
---|
2065 | CountedPtr< Scantable > STMath::resample( const CountedPtr< Scantable >& in, |
---|
2066 | const std::string& method, |
---|
2067 | float width ) |
---|
2068 | // |
---|
2069 | // Should add the possibility of width being specified in km/s. This means |
---|
2070 | // that for each freqID (SpectralCoordinate) we will need to convert to an |
---|
2071 | // average channel width (say at the reference pixel). Then we would need |
---|
2072 | // to be careful to make sure each spectrum (of different freqID) |
---|
2073 | // is the same length. |
---|
2074 | // |
---|
2075 | { |
---|
2076 | //InterpolateArray1D<Double,Float>::InterpolationMethod interp; |
---|
2077 | Int interpMethod(stringToIMethod(method)); |
---|
2078 | |
---|
2079 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2080 | Table& tout = out->table(); |
---|
2081 | |
---|
2082 | // Resample SpectralCoordinates (one per freqID) |
---|
2083 | out->frequencies().rescale(width, "RESAMPLE"); |
---|
2084 | TableIterator iter(tout, "IFNO"); |
---|
2085 | TableRow row(tout); |
---|
2086 | while ( !iter.pastEnd() ) { |
---|
2087 | Table tab = iter.table(); |
---|
2088 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2089 | //ArrayColumn<Float> tsysCol(tout, "TSYS"); |
---|
2090 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2091 | Vector<Float> spec; |
---|
2092 | Vector<uChar> flag; |
---|
2093 | specCol.get(0,spec); // the number of channels should be constant per IF |
---|
2094 | uInt nChanIn = spec.nelements(); |
---|
2095 | Vector<Float> xIn(nChanIn); indgen(xIn); |
---|
2096 | Int fac = Int(nChanIn/width); |
---|
2097 | Vector<Float> xOut(fac+10); // 10 to be safe - resize later |
---|
2098 | uInt k = 0; |
---|
2099 | Float x = 0.0; |
---|
2100 | while (x < Float(nChanIn) ) { |
---|
2101 | xOut(k) = x; |
---|
2102 | k++; |
---|
2103 | x += width; |
---|
2104 | } |
---|
2105 | uInt nChanOut = k; |
---|
2106 | xOut.resize(nChanOut, True); |
---|
2107 | // process all rows for this IFNO |
---|
2108 | Vector<Float> specOut; |
---|
2109 | Vector<Bool> maskOut; |
---|
2110 | Vector<uChar> flagOut; |
---|
2111 | for (uInt i=0; i < tab.nrow(); ++i) { |
---|
2112 | specCol.get(i, spec); |
---|
2113 | flagCol.get(i, flag); |
---|
2114 | Vector<Bool> mask(flag.nelements()); |
---|
2115 | convertArray(mask, flag); |
---|
2116 | |
---|
2117 | IPosition shapeIn(spec.shape()); |
---|
2118 | //sh.nchan = nChanOut; |
---|
2119 | InterpolateArray1D<Float,Float>::interpolate(specOut, maskOut, xOut, |
---|
2120 | xIn, spec, mask, |
---|
2121 | interpMethod, True, True); |
---|
2122 | /// @todo do the same for channel based Tsys |
---|
2123 | flagOut.resize(maskOut.nelements()); |
---|
2124 | convertArray(flagOut, maskOut); |
---|
2125 | specCol.put(i, specOut); |
---|
2126 | flagCol.put(i, flagOut); |
---|
2127 | } |
---|
2128 | ++iter; |
---|
2129 | } |
---|
2130 | |
---|
2131 | return out; |
---|
2132 | } |
---|
2133 | |
---|
2134 | STMath::imethod STMath::stringToIMethod(const std::string& in) |
---|
2135 | { |
---|
2136 | static STMath::imap lookup; |
---|
2137 | |
---|
2138 | // initialize the lookup table if necessary |
---|
2139 | if ( lookup.empty() ) { |
---|
2140 | lookup["nearest"] = InterpolateArray1D<Double,Float>::nearestNeighbour; |
---|
2141 | lookup["linear"] = InterpolateArray1D<Double,Float>::linear; |
---|
2142 | lookup["cubic"] = InterpolateArray1D<Double,Float>::cubic; |
---|
2143 | lookup["spline"] = InterpolateArray1D<Double,Float>::spline; |
---|
2144 | } |
---|
2145 | |
---|
2146 | STMath::imap::const_iterator iter = lookup.find(in); |
---|
2147 | |
---|
2148 | if ( lookup.end() == iter ) { |
---|
2149 | std::string message = in; |
---|
2150 | message += " is not a valid interpolation mode"; |
---|
2151 | throw(AipsError(message)); |
---|
2152 | } |
---|
2153 | return iter->second; |
---|
2154 | } |
---|
2155 | |
---|
2156 | WeightType STMath::stringToWeight(const std::string& in) |
---|
2157 | { |
---|
2158 | static std::map<std::string, WeightType> lookup; |
---|
2159 | |
---|
2160 | // initialize the lookup table if necessary |
---|
2161 | if ( lookup.empty() ) { |
---|
2162 | lookup["NONE"] = asap::W_NONE; |
---|
2163 | lookup["TINT"] = asap::W_TINT; |
---|
2164 | lookup["TINTSYS"] = asap::W_TINTSYS; |
---|
2165 | lookup["TSYS"] = asap::W_TSYS; |
---|
2166 | lookup["VAR"] = asap::W_VAR; |
---|
2167 | } |
---|
2168 | |
---|
2169 | std::map<std::string, WeightType>::const_iterator iter = lookup.find(in); |
---|
2170 | |
---|
2171 | if ( lookup.end() == iter ) { |
---|
2172 | std::string message = in; |
---|
2173 | message += " is not a valid weighting mode"; |
---|
2174 | throw(AipsError(message)); |
---|
2175 | } |
---|
2176 | return iter->second; |
---|
2177 | } |
---|
2178 | |
---|
2179 | CountedPtr< Scantable > STMath::gainElevation( const CountedPtr< Scantable >& in, |
---|
2180 | const vector< float > & coeff, |
---|
2181 | const std::string & filename, |
---|
2182 | const std::string& method) |
---|
2183 | { |
---|
2184 | LogIO os( LogOrigin( "STMath", "gainElevation", WHERE ) ) ; |
---|
2185 | // Get elevation data from Scantable and convert to degrees |
---|
2186 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2187 | Table& tab = out->table(); |
---|
2188 | ROScalarColumn<Float> elev(tab, "ELEVATION"); |
---|
2189 | Vector<Float> x = elev.getColumn(); |
---|
2190 | x *= Float(180 / C::pi); // Degrees |
---|
2191 | |
---|
2192 | Vector<Float> coeffs(coeff); |
---|
2193 | const uInt nc = coeffs.nelements(); |
---|
2194 | if ( filename.length() > 0 && nc > 0 ) { |
---|
2195 | throw(AipsError("You must choose either polynomial coefficients or an ascii file, not both")); |
---|
2196 | } |
---|
2197 | |
---|
2198 | // Correct |
---|
2199 | if ( nc > 0 || filename.length() == 0 ) { |
---|
2200 | // Find instrument |
---|
2201 | Bool throwit = True; |
---|
2202 | Instrument inst = |
---|
2203 | STAttr::convertInstrument(tab.keywordSet().asString("AntennaName"), |
---|
2204 | throwit); |
---|
2205 | |
---|
2206 | // Set polynomial |
---|
2207 | Polynomial<Float>* ppoly = 0; |
---|
2208 | Vector<Float> coeff; |
---|
2209 | String msg; |
---|
2210 | if ( nc > 0 ) { |
---|
2211 | ppoly = new Polynomial<Float>(nc-1); |
---|
2212 | coeff = coeffs; |
---|
2213 | msg = String("user"); |
---|
2214 | } else { |
---|
2215 | STAttr sdAttr; |
---|
2216 | coeff = sdAttr.gainElevationPoly(inst); |
---|
2217 | ppoly = new Polynomial<Float>(coeff.nelements()-1); |
---|
2218 | msg = String("built in"); |
---|
2219 | } |
---|
2220 | |
---|
2221 | if ( coeff.nelements() > 0 ) { |
---|
2222 | ppoly->setCoefficients(coeff); |
---|
2223 | } else { |
---|
2224 | delete ppoly; |
---|
2225 | throw(AipsError("There is no known gain-elevation polynomial known for this instrument")); |
---|
2226 | } |
---|
2227 | os << "Making polynomial correction with " << msg << " coefficients:" << endl; |
---|
2228 | os << " " << coeff << LogIO::POST; |
---|
2229 | const uInt nrow = tab.nrow(); |
---|
2230 | Vector<Float> factor(nrow); |
---|
2231 | for ( uInt i=0; i < nrow; ++i ) { |
---|
2232 | factor[i] = 1.0 / (*ppoly)(x[i]); |
---|
2233 | } |
---|
2234 | delete ppoly; |
---|
2235 | scaleByVector(tab, factor, true); |
---|
2236 | |
---|
2237 | } else { |
---|
2238 | // Read and correct |
---|
2239 | os << "Making correction from ascii Table" << LogIO::POST; |
---|
2240 | scaleFromAsciiTable(tab, filename, method, x, true); |
---|
2241 | } |
---|
2242 | return out; |
---|
2243 | } |
---|
2244 | |
---|
2245 | void STMath::scaleFromAsciiTable(Table& in, const std::string& filename, |
---|
2246 | const std::string& method, |
---|
2247 | const Vector<Float>& xout, bool dotsys) |
---|
2248 | { |
---|
2249 | |
---|
2250 | // Read gain-elevation ascii file data into a Table. |
---|
2251 | |
---|
2252 | String formatString; |
---|
2253 | Table tbl = readAsciiTable(formatString, Table::Memory, filename, "", "", False); |
---|
2254 | scaleFromTable(in, tbl, method, xout, dotsys); |
---|
2255 | } |
---|
2256 | |
---|
2257 | void STMath::scaleFromTable(Table& in, |
---|
2258 | const Table& table, |
---|
2259 | const std::string& method, |
---|
2260 | const Vector<Float>& xout, bool dotsys) |
---|
2261 | { |
---|
2262 | |
---|
2263 | ROScalarColumn<Float> geElCol(table, "ELEVATION"); |
---|
2264 | ROScalarColumn<Float> geFacCol(table, "FACTOR"); |
---|
2265 | Vector<Float> xin = geElCol.getColumn(); |
---|
2266 | Vector<Float> yin = geFacCol.getColumn(); |
---|
2267 | Vector<Bool> maskin(xin.nelements(),True); |
---|
2268 | |
---|
2269 | // Interpolate (and extrapolate) with desired method |
---|
2270 | |
---|
2271 | InterpolateArray1D<Double,Float>::InterpolationMethod interp = stringToIMethod(method); |
---|
2272 | |
---|
2273 | Vector<Float> yout; |
---|
2274 | Vector<Bool> maskout; |
---|
2275 | InterpolateArray1D<Float,Float>::interpolate(yout, maskout, xout, |
---|
2276 | xin, yin, maskin, interp, |
---|
2277 | True, True); |
---|
2278 | |
---|
2279 | scaleByVector(in, Float(1.0)/yout, dotsys); |
---|
2280 | } |
---|
2281 | |
---|
2282 | void STMath::scaleByVector( Table& in, |
---|
2283 | const Vector< Float >& factor, |
---|
2284 | bool dotsys ) |
---|
2285 | { |
---|
2286 | uInt nrow = in.nrow(); |
---|
2287 | if ( factor.nelements() != nrow ) { |
---|
2288 | throw(AipsError("factors.nelements() != table.nelements()")); |
---|
2289 | } |
---|
2290 | ArrayColumn<Float> specCol(in, "SPECTRA"); |
---|
2291 | ArrayColumn<uChar> flagCol(in, "FLAGTRA"); |
---|
2292 | ArrayColumn<Float> tsysCol(in, "TSYS"); |
---|
2293 | for (uInt i=0; i < nrow; ++i) { |
---|
2294 | MaskedArray<Float> ma = maskedArray(specCol(i), flagCol(i)); |
---|
2295 | ma *= factor[i]; |
---|
2296 | specCol.put(i, ma.getArray()); |
---|
2297 | flagCol.put(i, flagsFromMA(ma)); |
---|
2298 | if ( dotsys ) { |
---|
2299 | Vector<Float> tsys = tsysCol(i); |
---|
2300 | tsys *= factor[i]; |
---|
2301 | tsysCol.put(i,tsys); |
---|
2302 | } |
---|
2303 | } |
---|
2304 | } |
---|
2305 | |
---|
2306 | CountedPtr< Scantable > STMath::convertFlux( const CountedPtr< Scantable >& in, |
---|
2307 | float d, float etaap, |
---|
2308 | float jyperk ) |
---|
2309 | { |
---|
2310 | LogIO os( LogOrigin( "STMath", "convertFlux", WHERE ) ) ; |
---|
2311 | |
---|
2312 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2313 | Table& tab = in->table(); |
---|
2314 | Table& outtab = out->table(); |
---|
2315 | Unit fluxUnit(tab.keywordSet().asString("FluxUnit")); |
---|
2316 | Unit K(String("K")); |
---|
2317 | Unit JY(String("Jy")); |
---|
2318 | |
---|
2319 | bool tokelvin = true; |
---|
2320 | Double cfac = 1.0; |
---|
2321 | |
---|
2322 | if ( fluxUnit == JY ) { |
---|
2323 | os << "Converting to K" << LogIO::POST; |
---|
2324 | Quantum<Double> t(1.0,fluxUnit); |
---|
2325 | Quantum<Double> t2 = t.get(JY); |
---|
2326 | cfac = (t2 / t).getValue(); // value to Jy |
---|
2327 | |
---|
2328 | tokelvin = true; |
---|
2329 | out->setFluxUnit("K"); |
---|
2330 | } else if ( fluxUnit == K ) { |
---|
2331 | os << "Converting to Jy" << LogIO::POST; |
---|
2332 | Quantum<Double> t(1.0,fluxUnit); |
---|
2333 | Quantum<Double> t2 = t.get(K); |
---|
2334 | cfac = (t2 / t).getValue(); // value to K |
---|
2335 | |
---|
2336 | tokelvin = false; |
---|
2337 | out->setFluxUnit("Jy"); |
---|
2338 | } else { |
---|
2339 | throw(AipsError("Unrecognized brightness units in Table - must be consistent with Jy or K")); |
---|
2340 | } |
---|
2341 | // Make sure input values are converted to either Jy or K first... |
---|
2342 | Float factor = cfac; |
---|
2343 | |
---|
2344 | // Select method |
---|
2345 | if (jyperk > 0.0) { |
---|
2346 | factor *= jyperk; |
---|
2347 | if ( tokelvin ) factor = 1.0 / jyperk; |
---|
2348 | os << "Jy/K = " << jyperk << LogIO::POST; |
---|
2349 | Vector<Float> factors(outtab.nrow(), factor); |
---|
2350 | scaleByVector(outtab,factors, false); |
---|
2351 | } else if ( etaap > 0.0) { |
---|
2352 | if (d < 0) { |
---|
2353 | Instrument inst = |
---|
2354 | STAttr::convertInstrument(tab.keywordSet().asString("AntennaName"), |
---|
2355 | True); |
---|
2356 | STAttr sda; |
---|
2357 | d = sda.diameter(inst); |
---|
2358 | } |
---|
2359 | jyperk = STAttr::findJyPerK(etaap, d); |
---|
2360 | os << "Jy/K = " << jyperk << LogIO::POST; |
---|
2361 | factor *= jyperk; |
---|
2362 | if ( tokelvin ) { |
---|
2363 | factor = 1.0 / factor; |
---|
2364 | } |
---|
2365 | Vector<Float> factors(outtab.nrow(), factor); |
---|
2366 | scaleByVector(outtab, factors, False); |
---|
2367 | } else { |
---|
2368 | |
---|
2369 | // OK now we must deal with automatic look up of values. |
---|
2370 | // We must also deal with the fact that the factors need |
---|
2371 | // to be computed per IF and may be different and may |
---|
2372 | // change per integration. |
---|
2373 | |
---|
2374 | os <<"Looking up conversion factors" << LogIO::POST; |
---|
2375 | convertBrightnessUnits(out, tokelvin, cfac); |
---|
2376 | } |
---|
2377 | |
---|
2378 | return out; |
---|
2379 | } |
---|
2380 | |
---|
2381 | void STMath::convertBrightnessUnits( CountedPtr<Scantable>& in, |
---|
2382 | bool tokelvin, float cfac ) |
---|
2383 | { |
---|
2384 | Table& table = in->table(); |
---|
2385 | Instrument inst = |
---|
2386 | STAttr::convertInstrument(table.keywordSet().asString("AntennaName"), True); |
---|
2387 | TableIterator iter(table, "FREQ_ID"); |
---|
2388 | STFrequencies stfreqs = in->frequencies(); |
---|
2389 | STAttr sdAtt; |
---|
2390 | while (!iter.pastEnd()) { |
---|
2391 | Table tab = iter.table(); |
---|
2392 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2393 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2394 | ROScalarColumn<uInt> freqidCol(tab, "FREQ_ID"); |
---|
2395 | MEpoch::ROScalarColumn timeCol(tab, "TIME"); |
---|
2396 | |
---|
2397 | uInt freqid; freqidCol.get(0, freqid); |
---|
2398 | Vector<Float> tmpspec; specCol.get(0, tmpspec); |
---|
2399 | // STAttr.JyPerK has a Vector interface... change sometime. |
---|
2400 | Vector<Float> freqs(1,stfreqs.getRefFreq(freqid, tmpspec.nelements())); |
---|
2401 | for ( uInt i=0; i<tab.nrow(); ++i) { |
---|
2402 | Float jyperk = (sdAtt.JyPerK(inst, timeCol(i), freqs))[0]; |
---|
2403 | Float factor = cfac * jyperk; |
---|
2404 | if ( tokelvin ) factor = Float(1.0) / factor; |
---|
2405 | MaskedArray<Float> ma = maskedArray(specCol(i), flagCol(i)); |
---|
2406 | ma *= factor; |
---|
2407 | specCol.put(i, ma.getArray()); |
---|
2408 | flagCol.put(i, flagsFromMA(ma)); |
---|
2409 | } |
---|
2410 | ++iter; |
---|
2411 | } |
---|
2412 | } |
---|
2413 | |
---|
2414 | CountedPtr< Scantable > STMath::opacity( const CountedPtr< Scantable > & in, |
---|
2415 | const std::vector<float>& tau ) |
---|
2416 | { |
---|
2417 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2418 | |
---|
2419 | Table outtab = out->table(); |
---|
2420 | |
---|
2421 | const Int ntau = uInt(tau.size()); |
---|
2422 | std::vector<float>::const_iterator tauit = tau.begin(); |
---|
2423 | AlwaysAssert((ntau == 1 || ntau == in->nif() || ntau == in->nif() * in->npol()), |
---|
2424 | AipsError); |
---|
2425 | TableIterator iiter(outtab, "IFNO"); |
---|
2426 | while ( !iiter.pastEnd() ) { |
---|
2427 | Table itab = iiter.table(); |
---|
2428 | TableIterator piter(itab, "POLNO"); |
---|
2429 | while ( !piter.pastEnd() ) { |
---|
2430 | Table tab = piter.table(); |
---|
2431 | ROScalarColumn<Float> elev(tab, "ELEVATION"); |
---|
2432 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2433 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2434 | ArrayColumn<Float> tsysCol(tab, "TSYS"); |
---|
2435 | for ( uInt i=0; i<tab.nrow(); ++i) { |
---|
2436 | Float zdist = Float(C::pi_2) - elev(i); |
---|
2437 | Float factor = exp(*tauit/cos(zdist)); |
---|
2438 | MaskedArray<Float> ma = maskedArray(specCol(i), flagCol(i)); |
---|
2439 | ma *= factor; |
---|
2440 | specCol.put(i, ma.getArray()); |
---|
2441 | flagCol.put(i, flagsFromMA(ma)); |
---|
2442 | Vector<Float> tsys; |
---|
2443 | tsysCol.get(i, tsys); |
---|
2444 | tsys *= factor; |
---|
2445 | tsysCol.put(i, tsys); |
---|
2446 | } |
---|
2447 | if (ntau == in->nif()*in->npol() ) { |
---|
2448 | tauit++; |
---|
2449 | } |
---|
2450 | piter++; |
---|
2451 | } |
---|
2452 | if (ntau >= in->nif() ) { |
---|
2453 | tauit++; |
---|
2454 | } |
---|
2455 | iiter++; |
---|
2456 | } |
---|
2457 | return out; |
---|
2458 | } |
---|
2459 | |
---|
2460 | CountedPtr< Scantable > STMath::smoothOther( const CountedPtr< Scantable >& in, |
---|
2461 | const std::string& kernel, |
---|
2462 | float width, int order) |
---|
2463 | { |
---|
2464 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2465 | Table table = out->table(); |
---|
2466 | |
---|
2467 | TableIterator iter(table, "IFNO"); |
---|
2468 | while (!iter.pastEnd()) { |
---|
2469 | Table tab = iter.table(); |
---|
2470 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2471 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2472 | ScalarColumn<uInt> flagrowCol(tab, "FLAGROW"); |
---|
2473 | Vector<Float> spec; |
---|
2474 | Vector<uChar> flag; |
---|
2475 | Vector<uInt> flagrow = flagrowCol.getColumn(); |
---|
2476 | for (uInt i = 0; i < tab.nrow(); ++i) { |
---|
2477 | if (flagrow[i] != 0) { |
---|
2478 | // do not process flagged row |
---|
2479 | continue; |
---|
2480 | } |
---|
2481 | specCol.get(i, spec); |
---|
2482 | flagCol.get(i, flag); |
---|
2483 | Vector<Bool> mask(flag.nelements()); |
---|
2484 | convertArray(mask, flag); |
---|
2485 | Vector<Float> specout; |
---|
2486 | Vector<Bool> maskout; |
---|
2487 | if (kernel == "hanning") { |
---|
2488 | mathutil::hanning(specout, maskout, spec, !mask); |
---|
2489 | } else if (kernel == "rmedian") { |
---|
2490 | mathutil::runningMedian(specout, maskout, spec , mask, width); |
---|
2491 | } else if (kernel == "poly") { |
---|
2492 | mathutil::polyfit(specout, maskout, spec, !mask, width, order); |
---|
2493 | } |
---|
2494 | |
---|
2495 | for (uInt j = 0; j < flag.nelements(); ++j) { |
---|
2496 | uChar userFlag = 1 << 7; |
---|
2497 | if (maskout[j]==True) userFlag = 0 << 7; |
---|
2498 | flag(j) = userFlag; |
---|
2499 | } |
---|
2500 | |
---|
2501 | flagCol.put(i, flag); |
---|
2502 | specCol.put(i, specout); |
---|
2503 | } |
---|
2504 | ++iter; |
---|
2505 | } |
---|
2506 | return out; |
---|
2507 | } |
---|
2508 | |
---|
2509 | CountedPtr< Scantable > STMath::smooth( const CountedPtr< Scantable >& in, |
---|
2510 | const std::string& kernel, float width, |
---|
2511 | int order) |
---|
2512 | { |
---|
2513 | if (kernel == "rmedian" || kernel == "hanning" || kernel == "poly") { |
---|
2514 | return smoothOther(in, kernel, width, order); |
---|
2515 | } |
---|
2516 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2517 | Table& table = out->table(); |
---|
2518 | VectorKernel::KernelTypes type = VectorKernel::toKernelType(kernel); |
---|
2519 | // same IFNO should have same no of channels |
---|
2520 | // this saves overhead |
---|
2521 | TableIterator iter(table, "IFNO"); |
---|
2522 | while (!iter.pastEnd()) { |
---|
2523 | Table tab = iter.table(); |
---|
2524 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2525 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2526 | ScalarColumn<uInt> flagrowCol(tab, "FLAGROW"); |
---|
2527 | Vector<Float> spec = specCol( 0 ); |
---|
2528 | uInt nchan = spec.nelements(); |
---|
2529 | Vector<Float> kvec = VectorKernel::make(type, width, nchan, True, False); |
---|
2530 | Convolver<Float> conv(kvec, IPosition(1,nchan)); |
---|
2531 | Vector<uChar> flag; |
---|
2532 | Vector<Bool> mask(nchan); |
---|
2533 | Vector<uInt> flagrow = flagrowCol.getColumn(); |
---|
2534 | for ( uInt i=0; i<tab.nrow(); ++i) { |
---|
2535 | if (flagrow[i] != 0) { |
---|
2536 | // do not process flagged row |
---|
2537 | continue; |
---|
2538 | } |
---|
2539 | |
---|
2540 | specCol.get(i, spec); |
---|
2541 | flagCol.get(i, flag); |
---|
2542 | convertArray(mask, flag); |
---|
2543 | Vector<Float> specout; |
---|
2544 | //mathutil::replaceMaskByZero(specout, mask); |
---|
2545 | mathutil::replaceMaskByZero(spec, !mask); |
---|
2546 | //std::vector<bool> vmask; |
---|
2547 | //(!mask).tovector(vmask); |
---|
2548 | //mathutil::doZeroOrderInterpolation(spec, vmask); |
---|
2549 | conv.linearConv(specout, spec); |
---|
2550 | specCol.put(i, specout); |
---|
2551 | } |
---|
2552 | ++iter; |
---|
2553 | } |
---|
2554 | return out; |
---|
2555 | } |
---|
2556 | |
---|
2557 | CountedPtr< Scantable > |
---|
2558 | STMath::merge( const std::vector< CountedPtr < Scantable > >& in, |
---|
2559 | const std::string &freqTol ) |
---|
2560 | { |
---|
2561 | Double freqTolInHz = 0.0; // default is 0.0Hz (merge only when exact match) |
---|
2562 | if (freqTol.size() > 0) { |
---|
2563 | Quantum<Double> freqTolInQuantity; |
---|
2564 | if (!Quantum<Double>::read(freqTolInQuantity, freqTol)) { |
---|
2565 | throw(AipsError("Failed to convert freqTol string to quantity")); |
---|
2566 | } |
---|
2567 | if (!freqTolInQuantity.isConform("Hz")) { |
---|
2568 | throw(AipsError("Invalid freqTol string")); |
---|
2569 | } |
---|
2570 | freqTolInHz = freqTolInQuantity.getValue("Hz"); |
---|
2571 | LogIO os(LogOrigin("STMath", "merge", WHERE)); |
---|
2572 | os << "frequency tolerance = " << freqTolInHz << "Hz" << LogIO::POST; |
---|
2573 | } |
---|
2574 | |
---|
2575 | if ( in.size() < 2 ) { |
---|
2576 | throw(AipsError("Need at least two scantables to perform a merge.")); |
---|
2577 | } |
---|
2578 | std::vector<CountedPtr < Scantable > >::const_iterator it = in.begin(); |
---|
2579 | bool insitu = insitu_; |
---|
2580 | setInsitu(false); |
---|
2581 | CountedPtr< Scantable > out = getScantable(*it, false); |
---|
2582 | setInsitu(insitu); |
---|
2583 | Table& tout = out->table(); |
---|
2584 | ScalarColumn<uInt> freqidcol(tout,"FREQ_ID"), molidcol(tout, "MOLECULE_ID"); |
---|
2585 | ScalarColumn<uInt> scannocol(tout,"SCANNO"), focusidcol(tout,"FOCUS_ID"); |
---|
2586 | ScalarColumn<uInt> ifnocol(tout, "IFNO"); |
---|
2587 | // Renumber SCANNO to be 0-based |
---|
2588 | Vector<uInt> scannos = scannocol.getColumn(); |
---|
2589 | uInt offset = min(scannos); |
---|
2590 | scannos -= offset; |
---|
2591 | scannocol.putColumn(scannos); |
---|
2592 | uInt newscanno = max(scannos)+1; |
---|
2593 | ++it; |
---|
2594 | |
---|
2595 | // new IFNO |
---|
2596 | uInt ifnoCounter = max(ifnocol.getColumn()) + 1; |
---|
2597 | |
---|
2598 | // Here we assume that each IFNO has unique MOLECULE_ID |
---|
2599 | // molIdMap: |
---|
2600 | // KEY: IFNO |
---|
2601 | // VALUE: MOLECULE_ID |
---|
2602 | map<uInt, uInt> molIdMap; |
---|
2603 | { |
---|
2604 | TableIterator ifit(tout, "IFNO"); |
---|
2605 | while (!ifit.pastEnd()) { |
---|
2606 | ROTableRow row(ifit.table()); |
---|
2607 | const TableRecord& rec = row.get(0); |
---|
2608 | molIdMap[rec.asuInt("IFNO")] = rec.asuInt("MOLECULE_ID"); |
---|
2609 | ifit.next(); |
---|
2610 | } |
---|
2611 | } |
---|
2612 | |
---|
2613 | while ( it != in.end() ){ |
---|
2614 | // Check FREQUENCIES/BASEFRAME |
---|
2615 | if ( out->frequencies().getFrame(true) != (*it)->frequencies().getFrame(true) ) { |
---|
2616 | throw(AipsError("BASEFRAME is not identical")); |
---|
2617 | } |
---|
2618 | |
---|
2619 | if ( ! (*it)->conformant(*out) ) { |
---|
2620 | // non conformant. |
---|
2621 | LogIO os( LogOrigin( "STMath", "merge()", WHERE ) ) ; |
---|
2622 | os << LogIO::SEVERE << "Can't merge scantables as header informations (any one of AntennaName, Equinox, and FluxUnit) differ." << LogIO::EXCEPTION ; |
---|
2623 | } |
---|
2624 | out->appendToHistoryTable((*it)->history()); |
---|
2625 | const Table& tab = (*it)->table(); |
---|
2626 | |
---|
2627 | Block<String> cols(3); |
---|
2628 | cols[0] = String("FREQ_ID"); |
---|
2629 | cols[1] = String("MOLECULE_ID"); |
---|
2630 | cols[2] = String("FOCUS_ID"); |
---|
2631 | |
---|
2632 | TableIterator scanit(tab, "SCANNO"); |
---|
2633 | while (!scanit.pastEnd()) { |
---|
2634 | TableIterator subit(scanit.table(), cols); |
---|
2635 | while ( !subit.pastEnd() ) { |
---|
2636 | uInt nrow = tout.nrow(); |
---|
2637 | Table thetab = subit.table(); |
---|
2638 | ROTableRow row(thetab); |
---|
2639 | Vector<uInt> thecolvals(thetab.nrow()); |
---|
2640 | // The selected subset of table should have |
---|
2641 | // the equal FREQ_ID, MOLECULE_ID, and FOCUS_ID values. |
---|
2642 | const TableRecord& rec = row.get(0); |
---|
2643 | |
---|
2644 | // Set the proper FREQ_ID |
---|
2645 | Double rv,rp,inc; |
---|
2646 | (*it)->frequencies().getEntry(rp, rv, inc, rec.asuInt("FREQ_ID")); |
---|
2647 | uInt id; |
---|
2648 | |
---|
2649 | // default value is new unique IFNO |
---|
2650 | uInt newifno = ifnoCounter; |
---|
2651 | Bool isIfMerged = False; |
---|
2652 | uInt nchan = rec.asArrayFloat("SPECTRA").shape()[0]; |
---|
2653 | //id = out->frequencies().addEntry(rp, rv, inc); |
---|
2654 | if ( !out->frequencies().match(rp, rv, inc, freqTolInHz, id) ) { |
---|
2655 | // add new entry to FREQUENCIES table |
---|
2656 | id = out->frequencies().addEntry(rp, rv, inc); |
---|
2657 | |
---|
2658 | // increment counter for IFNO |
---|
2659 | ifnoCounter++; |
---|
2660 | } |
---|
2661 | else { |
---|
2662 | // should renumber IFNO to be same as existing rows that have same FREQ_ID |
---|
2663 | LogIO os(LogOrigin("STMath", "merge", WHERE)); |
---|
2664 | Table outFreqIdSelected = tout(tout.col("FREQ_ID") == id); |
---|
2665 | TableIterator _iter(outFreqIdSelected, "IFNO"); |
---|
2666 | map<uInt, uInt> nchanMap; |
---|
2667 | while (!_iter.pastEnd()) { |
---|
2668 | const Table _table = _iter.table(); |
---|
2669 | ROTableRow _row(_table); |
---|
2670 | const TableRecord &_rec = _row.get(0); |
---|
2671 | uInt nchan = _rec.asArrayFloat("SPECTRA").shape()[0]; |
---|
2672 | if (nchanMap.find(nchan) != nchanMap.end()) { |
---|
2673 | throw(AipsError("There are non-unique IFNOs assigned to spectra that have same FREQ_ID and same nchan. Something wrong.")); |
---|
2674 | } |
---|
2675 | nchanMap[nchan] = _rec.asuInt("IFNO"); |
---|
2676 | _iter.next(); |
---|
2677 | } |
---|
2678 | |
---|
2679 | os << LogIO::DEBUGGING << "nchanMap for " << id << ":" << LogIO::POST; |
---|
2680 | for (map<uInt, uInt>::iterator i = nchanMap.begin(); i != nchanMap.end(); ++i) { |
---|
2681 | os << LogIO::DEBUGGING << "nchanMap[" << i->first << "] = " << i->second << LogIO::POST; |
---|
2682 | } |
---|
2683 | |
---|
2684 | if (nchanMap.find(nchan) == nchanMap.end()) { |
---|
2685 | // increment counter for IFNO |
---|
2686 | ifnoCounter++; |
---|
2687 | } |
---|
2688 | else { |
---|
2689 | // renumber IFNO to be same as existing value that corresponds to nchan |
---|
2690 | newifno = nchanMap[nchan]; |
---|
2691 | isIfMerged = True; |
---|
2692 | } |
---|
2693 | os << LogIO::DEBUGGING << "newifno = " << newifno << LogIO::POST; |
---|
2694 | } |
---|
2695 | // copy rows to output table |
---|
2696 | tout.addRow(thetab.nrow()); |
---|
2697 | TableCopy::copyRows(tout, thetab, nrow, 0, thetab.nrow()); |
---|
2698 | |
---|
2699 | Slicer slice(IPosition(1, nrow), IPosition(1, thetab.nrow()), |
---|
2700 | Slicer::endIsLength); |
---|
2701 | |
---|
2702 | thecolvals = id; |
---|
2703 | freqidcol.putColumnRange(slice, thecolvals); |
---|
2704 | |
---|
2705 | thecolvals = newifno; |
---|
2706 | ifnocol.putColumnRange(slice, thecolvals); |
---|
2707 | |
---|
2708 | // Set the proper MOLECULE_ID |
---|
2709 | Vector<String> name,fname;Vector<Double> rf; |
---|
2710 | (*it)->molecules().getEntry(rf, name, fname, rec.asuInt("MOLECULE_ID")); |
---|
2711 | id = out->molecules().addEntry(rf, name, fname); |
---|
2712 | if (molIdMap.find(newifno) == molIdMap.end()) { |
---|
2713 | // add new entry to molIdMap |
---|
2714 | molIdMap[newifno] = id; |
---|
2715 | } |
---|
2716 | if (isIfMerged) { |
---|
2717 | id = molIdMap[newifno]; |
---|
2718 | } |
---|
2719 | thecolvals = id; |
---|
2720 | molidcol.putColumnRange(slice, thecolvals); |
---|
2721 | |
---|
2722 | // Set the proper FOCUS_ID |
---|
2723 | Float fpa,frot,fax,ftan,fhand,fmount,fuser, fxy, fxyp; |
---|
2724 | (*it)->focus().getEntry(fpa, fax, ftan, frot, fhand, fmount,fuser, |
---|
2725 | fxy, fxyp, rec.asuInt("FOCUS_ID")); |
---|
2726 | id = out->focus().addEntry(fpa, fax, ftan, frot, fhand, fmount,fuser, |
---|
2727 | fxy, fxyp); |
---|
2728 | thecolvals = id; |
---|
2729 | focusidcol.putColumnRange(slice, thecolvals); |
---|
2730 | |
---|
2731 | // Set the proper SCANNO |
---|
2732 | thecolvals = newscanno; |
---|
2733 | scannocol.putColumnRange(slice, thecolvals); |
---|
2734 | |
---|
2735 | ++subit; |
---|
2736 | } |
---|
2737 | ++newscanno; |
---|
2738 | ++scanit; |
---|
2739 | } |
---|
2740 | ++it; |
---|
2741 | } |
---|
2742 | return out; |
---|
2743 | } |
---|
2744 | |
---|
2745 | CountedPtr< Scantable > |
---|
2746 | STMath::invertPhase( const CountedPtr < Scantable >& in ) |
---|
2747 | { |
---|
2748 | return applyToPol(in, &STPol::invertPhase, Float(0.0)); |
---|
2749 | } |
---|
2750 | |
---|
2751 | CountedPtr< Scantable > |
---|
2752 | STMath::rotateXYPhase( const CountedPtr < Scantable >& in, float phase ) |
---|
2753 | { |
---|
2754 | return applyToPol(in, &STPol::rotatePhase, Float(phase)); |
---|
2755 | } |
---|
2756 | |
---|
2757 | CountedPtr< Scantable > |
---|
2758 | STMath::rotateLinPolPhase( const CountedPtr < Scantable >& in, float phase ) |
---|
2759 | { |
---|
2760 | return applyToPol(in, &STPol::rotateLinPolPhase, Float(phase)); |
---|
2761 | } |
---|
2762 | |
---|
2763 | CountedPtr< Scantable > STMath::applyToPol( const CountedPtr<Scantable>& in, |
---|
2764 | STPol::polOperation fptr, |
---|
2765 | Float phase ) |
---|
2766 | { |
---|
2767 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2768 | Table& tout = out->table(); |
---|
2769 | Block<String> cols(4); |
---|
2770 | cols[0] = String("SCANNO"); |
---|
2771 | cols[1] = String("BEAMNO"); |
---|
2772 | cols[2] = String("IFNO"); |
---|
2773 | cols[3] = String("CYCLENO"); |
---|
2774 | TableIterator iter(tout, cols); |
---|
2775 | CountedPtr<STPol> stpol = STPol::getPolClass(out->factories_, |
---|
2776 | out->getPolType() ); |
---|
2777 | while (!iter.pastEnd()) { |
---|
2778 | Table t = iter.table(); |
---|
2779 | ArrayColumn<Float> speccol(t, "SPECTRA"); |
---|
2780 | ScalarColumn<uInt> focidcol(t, "FOCUS_ID"); |
---|
2781 | Matrix<Float> pols(speccol.getColumn()); |
---|
2782 | try { |
---|
2783 | stpol->setSpectra(pols); |
---|
2784 | Float fang,fhand; |
---|
2785 | fang = in->focusTable_.getTotalAngle(focidcol(0)); |
---|
2786 | fhand = in->focusTable_.getFeedHand(focidcol(0)); |
---|
2787 | stpol->setPhaseCorrections(fang, fhand); |
---|
2788 | // use a member function pointer in STPol. This only works on |
---|
2789 | // the STPol pointer itself, not the Counted Pointer so |
---|
2790 | // derefernce it. |
---|
2791 | (&(*(stpol))->*fptr)(phase); |
---|
2792 | speccol.putColumn(stpol->getSpectra()); |
---|
2793 | } catch (AipsError& e) { |
---|
2794 | //delete stpol;stpol=0; |
---|
2795 | throw(e); |
---|
2796 | } |
---|
2797 | ++iter; |
---|
2798 | } |
---|
2799 | //delete stpol;stpol=0; |
---|
2800 | return out; |
---|
2801 | } |
---|
2802 | |
---|
2803 | CountedPtr< Scantable > |
---|
2804 | STMath::swapPolarisations( const CountedPtr< Scantable > & in ) |
---|
2805 | { |
---|
2806 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2807 | Table& tout = out->table(); |
---|
2808 | Table t0 = tout(tout.col("POLNO") == 0); |
---|
2809 | Table t1 = tout(tout.col("POLNO") == 1); |
---|
2810 | if ( t0.nrow() != t1.nrow() ) |
---|
2811 | throw(AipsError("Inconsistent number of polarisations")); |
---|
2812 | ArrayColumn<Float> speccol0(t0, "SPECTRA"); |
---|
2813 | ArrayColumn<uChar> flagcol0(t0, "FLAGTRA"); |
---|
2814 | ArrayColumn<Float> speccol1(t1, "SPECTRA"); |
---|
2815 | ArrayColumn<uChar> flagcol1(t1, "FLAGTRA"); |
---|
2816 | Matrix<Float> s0 = speccol0.getColumn(); |
---|
2817 | Matrix<uChar> f0 = flagcol0.getColumn(); |
---|
2818 | speccol0.putColumn(speccol1.getColumn()); |
---|
2819 | flagcol0.putColumn(flagcol1.getColumn()); |
---|
2820 | speccol1.putColumn(s0); |
---|
2821 | flagcol1.putColumn(f0); |
---|
2822 | return out; |
---|
2823 | } |
---|
2824 | |
---|
2825 | CountedPtr< Scantable > |
---|
2826 | STMath::averagePolarisations( const CountedPtr< Scantable > & in, |
---|
2827 | const std::vector<bool>& mask, |
---|
2828 | const std::string& weight ) |
---|
2829 | { |
---|
2830 | if (in->npol() < 2 ) |
---|
2831 | throw(AipsError("averagePolarisations can only be applied to two or more" |
---|
2832 | "polarisations")); |
---|
2833 | bool insitu = insitu_; |
---|
2834 | setInsitu(false); |
---|
2835 | CountedPtr< Scantable > pols = getScantable(in, true); |
---|
2836 | setInsitu(insitu); |
---|
2837 | Table& tout = pols->table(); |
---|
2838 | std::string taql = "SELECT FROM $1 WHERE POLNO IN [0,1]"; |
---|
2839 | Table tab = tableCommand(taql, in->table()); |
---|
2840 | if (tab.nrow() == 0 ) |
---|
2841 | throw(AipsError("Could not find any rows with POLNO==0 and POLNO==1")); |
---|
2842 | TableCopy::copyRows(tout, tab); |
---|
2843 | TableVector<uInt> vec(tout, "POLNO"); |
---|
2844 | vec = 0; |
---|
2845 | pols->table_.rwKeywordSet().define("nPol", Int(1)); |
---|
2846 | pols->table_.rwKeywordSet().define("POLTYPE", String("stokes")); |
---|
2847 | //pols->table_.rwKeywordSet().define("POLTYPE", in->getPolType()); |
---|
2848 | std::vector<CountedPtr<Scantable> > vpols; |
---|
2849 | vpols.push_back(pols); |
---|
2850 | CountedPtr< Scantable > out = average(vpols, mask, weight, "SCAN"); |
---|
2851 | return out; |
---|
2852 | } |
---|
2853 | |
---|
2854 | CountedPtr< Scantable > |
---|
2855 | STMath::averageBeams( const CountedPtr< Scantable > & in, |
---|
2856 | const std::vector<bool>& mask, |
---|
2857 | const std::string& weight ) |
---|
2858 | { |
---|
2859 | bool insitu = insitu_; |
---|
2860 | setInsitu(false); |
---|
2861 | CountedPtr< Scantable > beams = getScantable(in, false); |
---|
2862 | setInsitu(insitu); |
---|
2863 | Table& tout = beams->table(); |
---|
2864 | // give all rows the same BEAMNO |
---|
2865 | TableVector<uInt> vec(tout, "BEAMNO"); |
---|
2866 | vec = 0; |
---|
2867 | beams->table_.rwKeywordSet().define("nBeam", Int(1)); |
---|
2868 | std::vector<CountedPtr<Scantable> > vbeams; |
---|
2869 | vbeams.push_back(beams); |
---|
2870 | CountedPtr< Scantable > out = average(vbeams, mask, weight, "SCAN"); |
---|
2871 | return out; |
---|
2872 | } |
---|
2873 | |
---|
2874 | |
---|
2875 | CountedPtr< Scantable > |
---|
2876 | asap::STMath::frequencyAlign( const CountedPtr< Scantable > & in, |
---|
2877 | const std::string & refTime, |
---|
2878 | const std::string & method) |
---|
2879 | { |
---|
2880 | LogIO os( casa::LogOrigin("STMath", "frequencyAlign()", WHERE)); |
---|
2881 | // clone as this is not working insitu |
---|
2882 | bool insitu = insitu_; |
---|
2883 | setInsitu(false); |
---|
2884 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2885 | setInsitu(insitu); |
---|
2886 | Table& tout = out->table(); |
---|
2887 | // Get reference Epoch to time of first row or given String |
---|
2888 | Unit DAY(String("d")); |
---|
2889 | MEpoch::Ref epochRef(in->getTimeReference()); |
---|
2890 | MEpoch refEpoch; |
---|
2891 | if (refTime.length()>0) { |
---|
2892 | Quantum<Double> qt; |
---|
2893 | if (MVTime::read(qt,refTime)) { |
---|
2894 | MVEpoch mv(qt); |
---|
2895 | refEpoch = MEpoch(mv, epochRef); |
---|
2896 | } else { |
---|
2897 | throw(AipsError("Invalid format for Epoch string")); |
---|
2898 | } |
---|
2899 | } else { |
---|
2900 | refEpoch = in->timeCol_(0); |
---|
2901 | } |
---|
2902 | MPosition refPos = in->getAntennaPosition(); |
---|
2903 | |
---|
2904 | InterpolateArray1D<Double,Float>::InterpolationMethod interp = stringToIMethod(method); |
---|
2905 | /* |
---|
2906 | // Comment from MV. |
---|
2907 | // the following code has been commented out because different FREQ_IDs have to be aligned together even |
---|
2908 | // if the frame doesn't change. So far, lack of this check didn't cause any problems. |
---|
2909 | // test if user frame is different to base frame |
---|
2910 | if ( in->frequencies().getFrameString(true) |
---|
2911 | == in->frequencies().getFrameString(false) ) { |
---|
2912 | throw(AipsError("Can't convert as no output frame has been set" |
---|
2913 | " (use set_freqframe) or it is aligned already.")); |
---|
2914 | } |
---|
2915 | */ |
---|
2916 | MFrequency::Types system = in->frequencies().getFrame(); |
---|
2917 | MVTime mvt(refEpoch.getValue()); |
---|
2918 | String epochout = mvt.string(MVTime::YMD) + String(" (") + refEpoch.getRefString() + String(")"); |
---|
2919 | os << "Aligning at reference Epoch " << epochout |
---|
2920 | << " in frame " << MFrequency::showType(system) << LogIO::POST; |
---|
2921 | // set up the iterator |
---|
2922 | Block<String> cols(4); |
---|
2923 | // select by constant direction |
---|
2924 | cols[0] = String("SRCNAME"); |
---|
2925 | cols[1] = String("BEAMNO"); |
---|
2926 | // select by IF ( no of channels varies over this ) |
---|
2927 | cols[2] = String("IFNO"); |
---|
2928 | // select by restfrequency |
---|
2929 | cols[3] = String("MOLECULE_ID"); |
---|
2930 | TableIterator iter(tout, cols); |
---|
2931 | while ( !iter.pastEnd() ) { |
---|
2932 | Table t = iter.table(); |
---|
2933 | ROScalarColumn<String> snCol(t, "SRCNAME"); |
---|
2934 | os << "Aligning to position of source '" << snCol(0) << "'" << LogIO::POST; |
---|
2935 | MDirection::ROScalarColumn dirCol(t, "DIRECTION"); |
---|
2936 | TableIterator fiter(t, "FREQ_ID"); |
---|
2937 | // determine nchan from the first row. This should work as |
---|
2938 | // we are iterating over BEAMNO and IFNO |
---|
2939 | // we should have constant direction |
---|
2940 | |
---|
2941 | ROArrayColumn<Float> sCol(t, "SPECTRA"); |
---|
2942 | const MDirection direction = dirCol(0); |
---|
2943 | const uInt nchan = sCol(0).nelements(); |
---|
2944 | |
---|
2945 | // skip operations if there is nothing to align |
---|
2946 | if (fiter.pastEnd()) { |
---|
2947 | continue; |
---|
2948 | } |
---|
2949 | |
---|
2950 | Table ftab = fiter.table(); |
---|
2951 | // align all frequency ids with respect to the first encountered id |
---|
2952 | ScalarColumn<uInt> freqidCol(ftab, "FREQ_ID"); |
---|
2953 | // get the SpectralCoordinate for the freqid, which we are iterating over |
---|
2954 | SpectralCoordinate sC = \ |
---|
2955 | in->frequencies().getSpectralCoordinate(freqidCol(0)); |
---|
2956 | FrequencyAligner<Float> fa( sC, nchan, refEpoch, |
---|
2957 | direction, refPos, system ); |
---|
2958 | // realign the SpectralCoordinate and put into the output Scantable |
---|
2959 | Vector<String> units(1); |
---|
2960 | units = String("Hz"); |
---|
2961 | Bool linear=True; |
---|
2962 | SpectralCoordinate sc2 = fa.alignedSpectralCoordinate(linear); |
---|
2963 | sc2.setWorldAxisUnits(units); |
---|
2964 | const uInt id = out->frequencies().addEntry(sc2.referencePixel()[0], |
---|
2965 | sc2.referenceValue()[0], |
---|
2966 | sc2.increment()[0]); |
---|
2967 | while ( !fiter.pastEnd() ) { |
---|
2968 | |
---|
2969 | ftab = fiter.table(); |
---|
2970 | // spectral coordinate for the current FREQ_ID |
---|
2971 | ScalarColumn<uInt> freqidCol2(ftab, "FREQ_ID"); |
---|
2972 | sC = in->frequencies().getSpectralCoordinate(freqidCol2(0)); |
---|
2973 | // create the "global" abcissa for alignment with same FREQ_ID |
---|
2974 | Vector<Double> abc(nchan); |
---|
2975 | for (uInt i=0; i<nchan; i++) { |
---|
2976 | Double w; |
---|
2977 | sC.toWorld(w,Double(i)); |
---|
2978 | abc[i] = w; |
---|
2979 | } |
---|
2980 | TableVector<uInt> tvec(ftab, "FREQ_ID"); |
---|
2981 | // assign new frequency id to all rows |
---|
2982 | tvec = id; |
---|
2983 | // cache abcissa for same time stamps, so iterate over those |
---|
2984 | TableIterator timeiter(ftab, "TIME"); |
---|
2985 | while ( !timeiter.pastEnd() ) { |
---|
2986 | Table tab = timeiter.table(); |
---|
2987 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2988 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2989 | MEpoch::ROScalarColumn timeCol(tab, "TIME"); |
---|
2990 | // use align abcissa cache after the first row |
---|
2991 | // these rows should be just be POLNO |
---|
2992 | bool first = true; |
---|
2993 | for (int i=0; i<int(tab.nrow()); ++i) { |
---|
2994 | // input values |
---|
2995 | Vector<uChar> flag = flagCol(i); |
---|
2996 | Vector<Bool> mask(flag.shape()); |
---|
2997 | Vector<Float> specOut, spec; |
---|
2998 | spec = specCol(i); |
---|
2999 | Vector<Bool> maskOut;Vector<uChar> flagOut; |
---|
3000 | convertArray(mask, flag); |
---|
3001 | // alignment |
---|
3002 | Bool ok = fa.align(specOut, maskOut, abc, spec, |
---|
3003 | mask, timeCol(i), !first, |
---|
3004 | interp, False); |
---|
3005 | (void) ok; // unused stop compiler nagging |
---|
3006 | // back into scantable |
---|
3007 | flagOut.resize(maskOut.nelements()); |
---|
3008 | convertArray(flagOut, maskOut); |
---|
3009 | flagCol.put(i, flagOut); |
---|
3010 | specCol.put(i, specOut); |
---|
3011 | // start abcissa caching |
---|
3012 | first = false; |
---|
3013 | } |
---|
3014 | // next timestamp |
---|
3015 | ++timeiter; |
---|
3016 | } |
---|
3017 | // next FREQ_ID |
---|
3018 | ++fiter; |
---|
3019 | } |
---|
3020 | // next aligner |
---|
3021 | ++iter; |
---|
3022 | } |
---|
3023 | // set this afterwards to ensure we are doing insitu correctly. |
---|
3024 | out->frequencies().setFrame(system, true); |
---|
3025 | return out; |
---|
3026 | } |
---|
3027 | |
---|
3028 | CountedPtr<Scantable> |
---|
3029 | asap::STMath::convertPolarisation( const CountedPtr<Scantable>& in, |
---|
3030 | const std::string & newtype ) |
---|
3031 | { |
---|
3032 | if (in->npol() != 2 && in->npol() != 4) |
---|
3033 | throw(AipsError("Can only convert two or four polarisations.")); |
---|
3034 | if ( in->getPolType() == newtype ) |
---|
3035 | throw(AipsError("No need to convert.")); |
---|
3036 | if ( ! in->selector_.empty() ) |
---|
3037 | throw(AipsError("Can only convert whole scantable. Unset the selection.")); |
---|
3038 | bool insitu = insitu_; |
---|
3039 | setInsitu(false); |
---|
3040 | CountedPtr< Scantable > out = getScantable(in, true); |
---|
3041 | setInsitu(insitu); |
---|
3042 | Table& tout = out->table(); |
---|
3043 | tout.rwKeywordSet().define("POLTYPE", String(newtype)); |
---|
3044 | |
---|
3045 | Block<String> cols(4); |
---|
3046 | cols[0] = "SCANNO"; |
---|
3047 | cols[1] = "CYCLENO"; |
---|
3048 | cols[2] = "BEAMNO"; |
---|
3049 | cols[3] = "IFNO"; |
---|
3050 | TableIterator it(in->originalTable_, cols); |
---|
3051 | String basetype = in->getPolType(); |
---|
3052 | STPol* stpol = STPol::getPolClass(in->factories_, basetype); |
---|
3053 | try { |
---|
3054 | while ( !it.pastEnd() ) { |
---|
3055 | Table tab = it.table(); |
---|
3056 | uInt row = tab.rowNumbers()[0]; |
---|
3057 | stpol->setSpectra(in->getPolMatrix(row)); |
---|
3058 | Float fang,fhand; |
---|
3059 | fang = in->focusTable_.getTotalAngle(in->mfocusidCol_(row)); |
---|
3060 | fhand = in->focusTable_.getFeedHand(in->mfocusidCol_(row)); |
---|
3061 | stpol->setPhaseCorrections(fang, fhand); |
---|
3062 | Int npolout = 0; |
---|
3063 | for (uInt i=0; i<tab.nrow(); ++i) { |
---|
3064 | Vector<Float> outvec = stpol->getSpectrum(i, newtype); |
---|
3065 | if ( outvec.nelements() > 0 ) { |
---|
3066 | tout.addRow(); |
---|
3067 | TableCopy::copyRows(tout, tab, tout.nrow()-1, 0, 1); |
---|
3068 | ArrayColumn<Float> sCol(tout,"SPECTRA"); |
---|
3069 | ScalarColumn<uInt> pCol(tout,"POLNO"); |
---|
3070 | sCol.put(tout.nrow()-1 ,outvec); |
---|
3071 | pCol.put(tout.nrow()-1 ,uInt(npolout)); |
---|
3072 | npolout++; |
---|
3073 | } |
---|
3074 | } |
---|
3075 | tout.rwKeywordSet().define("nPol", npolout); |
---|
3076 | ++it; |
---|
3077 | } |
---|
3078 | } catch (AipsError& e) { |
---|
3079 | delete stpol; |
---|
3080 | throw(e); |
---|
3081 | } |
---|
3082 | delete stpol; |
---|
3083 | return out; |
---|
3084 | } |
---|
3085 | |
---|
3086 | CountedPtr< Scantable > |
---|
3087 | asap::STMath::mxExtract( const CountedPtr< Scantable > & in, |
---|
3088 | const std::string & scantype ) |
---|
3089 | { |
---|
3090 | bool insitu = insitu_; |
---|
3091 | setInsitu(false); |
---|
3092 | CountedPtr< Scantable > out = getScantable(in, true); |
---|
3093 | setInsitu(insitu); |
---|
3094 | Table& tout = out->table(); |
---|
3095 | std::string taql = "SELECT FROM $1 WHERE BEAMNO != REFBEAMNO"; |
---|
3096 | if (scantype == "on") { |
---|
3097 | taql = "SELECT FROM $1 WHERE BEAMNO == REFBEAMNO"; |
---|
3098 | } |
---|
3099 | Table tab = tableCommand(taql, in->table()); |
---|
3100 | TableCopy::copyRows(tout, tab); |
---|
3101 | if (scantype == "on") { |
---|
3102 | // re-index SCANNO to 0 |
---|
3103 | TableVector<uInt> vec(tout, "SCANNO"); |
---|
3104 | vec = 0; |
---|
3105 | } |
---|
3106 | return out; |
---|
3107 | } |
---|
3108 | |
---|
3109 | std::vector<float> |
---|
3110 | asap::STMath::fft( const casa::CountedPtr< Scantable > & in, |
---|
3111 | const std::vector<int>& whichrow, |
---|
3112 | bool getRealImag ) |
---|
3113 | { |
---|
3114 | std::vector<float> res; |
---|
3115 | Table tab = in->table(); |
---|
3116 | std::vector<bool> mask; |
---|
3117 | |
---|
3118 | if (whichrow.size() < 1) { // for all rows (by default) |
---|
3119 | int nrow = int(tab.nrow()); |
---|
3120 | for (int i = 0; i < nrow; ++i) { |
---|
3121 | res = in->execFFT(i, mask, getRealImag); |
---|
3122 | } |
---|
3123 | } else { // for specified rows |
---|
3124 | for (uInt i = 0; i < whichrow.size(); ++i) { |
---|
3125 | res = in->execFFT(i, mask, getRealImag); |
---|
3126 | } |
---|
3127 | } |
---|
3128 | |
---|
3129 | return res; |
---|
3130 | } |
---|
3131 | |
---|
3132 | |
---|
3133 | CountedPtr<Scantable> |
---|
3134 | asap::STMath::lagFlag( const CountedPtr<Scantable>& in, |
---|
3135 | double start, double end, |
---|
3136 | const std::string& mode ) |
---|
3137 | { |
---|
3138 | CountedPtr<Scantable> out = getScantable(in, false); |
---|
3139 | Table& tout = out->table(); |
---|
3140 | TableIterator iter(tout, "FREQ_ID"); |
---|
3141 | FFTServer<Float,Complex> ffts; |
---|
3142 | |
---|
3143 | while ( !iter.pastEnd() ) { |
---|
3144 | Table tab = iter.table(); |
---|
3145 | Double rp,rv,inc; |
---|
3146 | ROTableRow row(tab); |
---|
3147 | const TableRecord& rec = row.get(0); |
---|
3148 | uInt freqid = rec.asuInt("FREQ_ID"); |
---|
3149 | out->frequencies().getEntry(rp, rv, inc, freqid); |
---|
3150 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
3151 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
3152 | |
---|
3153 | for (int i=0; i<int(tab.nrow()); ++i) { |
---|
3154 | Vector<Float> spec = specCol(i); |
---|
3155 | Vector<uChar> flag = flagCol(i); |
---|
3156 | std::vector<bool> mask; |
---|
3157 | for (uInt j = 0; j < flag.nelements(); ++j) { |
---|
3158 | mask.push_back(!(flag[j]>0)); |
---|
3159 | } |
---|
3160 | mathutil::doZeroOrderInterpolation(spec, mask); |
---|
3161 | |
---|
3162 | Vector<Complex> lags; |
---|
3163 | ffts.fft0(lags, spec); |
---|
3164 | |
---|
3165 | Int lag0(start+0.5); |
---|
3166 | Int lag1(end+0.5); |
---|
3167 | if (mode == "frequency") { |
---|
3168 | lag0 = Int(spec.nelements()*abs(inc)/(start)+0.5); |
---|
3169 | lag1 = Int(spec.nelements()*abs(inc)/(end)+0.5); |
---|
3170 | } |
---|
3171 | Int lstart = max(0, lag0); |
---|
3172 | Int lend = min(Int(lags.nelements()-1), lag1); |
---|
3173 | if (lstart == lend) { |
---|
3174 | lags[lstart] = Complex(0.0); |
---|
3175 | } else { |
---|
3176 | if (lstart > lend) { |
---|
3177 | Int tmp = lend; |
---|
3178 | lend = lstart; |
---|
3179 | lstart = tmp; |
---|
3180 | } |
---|
3181 | for (int j=lstart; j <=lend ;++j) { |
---|
3182 | lags[j] = Complex(0.0); |
---|
3183 | } |
---|
3184 | } |
---|
3185 | |
---|
3186 | ffts.fft0(spec, lags); |
---|
3187 | |
---|
3188 | specCol.put(i, spec); |
---|
3189 | } |
---|
3190 | ++iter; |
---|
3191 | } |
---|
3192 | return out; |
---|
3193 | } |
---|
3194 | |
---|
3195 | // Averaging spectra with different channel/resolution |
---|
3196 | CountedPtr<Scantable> |
---|
3197 | STMath::new_average( const std::vector<CountedPtr<Scantable> >& in, |
---|
3198 | const bool& compel, |
---|
3199 | const std::vector<bool>& mask, |
---|
3200 | const std::string& weight, |
---|
3201 | const std::string& avmode ) |
---|
3202 | throw ( casa::AipsError ) |
---|
3203 | { |
---|
3204 | LogIO os( LogOrigin( "STMath", "new_average()", WHERE ) ) ; |
---|
3205 | if ( avmode == "SCAN" && in.size() != 1 ) |
---|
3206 | throw(AipsError("Can't perform 'SCAN' averaging on multiple tables.\n" |
---|
3207 | "Use merge first.")); |
---|
3208 | |
---|
3209 | CountedPtr<Scantable> out ; // processed result |
---|
3210 | if ( compel ) { |
---|
3211 | std::vector< CountedPtr<Scantable> > newin ; // input for average process |
---|
3212 | uInt insize = in.size() ; // number of input scantables |
---|
3213 | |
---|
3214 | // setup newin |
---|
3215 | bool oldInsitu = insitu_ ; |
---|
3216 | setInsitu( false ) ; |
---|
3217 | newin.resize( insize ) ; |
---|
3218 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3219 | newin[itable] = getScantable( in[itable], false ) ; |
---|
3220 | } |
---|
3221 | setInsitu( oldInsitu ) ; |
---|
3222 | |
---|
3223 | // warning |
---|
3224 | os << "Average spectra with different spectral resolution" << LogIO::POST ; |
---|
3225 | |
---|
3226 | // temporarily set coordinfo |
---|
3227 | vector<string> oldinfo( insize ) ; |
---|
3228 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3229 | vector<string> coordinfo = in[itable]->getCoordInfo() ; |
---|
3230 | oldinfo[itable] = coordinfo[0] ; |
---|
3231 | coordinfo[0] = "Hz" ; |
---|
3232 | newin[itable]->setCoordInfo( coordinfo ) ; |
---|
3233 | } |
---|
3234 | |
---|
3235 | ostringstream oss ; |
---|
3236 | |
---|
3237 | // check IF frequency coverage |
---|
3238 | // freqid: list of FREQ_ID, which is used, in each table |
---|
3239 | // iffreq: list of minimum and maximum frequency for each FREQ_ID in |
---|
3240 | // each table |
---|
3241 | // freqid[insize][numIF] |
---|
3242 | // freqid: [[id00, id01, ...], |
---|
3243 | // [id10, id11, ...], |
---|
3244 | // ... |
---|
3245 | // [idn0, idn1, ...]] |
---|
3246 | // iffreq[insize][numIF*2] |
---|
3247 | // iffreq: [[min_id00, max_id00, min_id01, max_id01, ...], |
---|
3248 | // [min_id10, max_id10, min_id11, max_id11, ...], |
---|
3249 | // ... |
---|
3250 | // [min_idn0, max_idn0, min_idn1, max_idn1, ...]] |
---|
3251 | //os << "Check IF settings in each table" << LogIO::POST ; |
---|
3252 | vector< vector<uInt> > freqid( insize ); |
---|
3253 | vector< vector<double> > iffreq( insize ) ; |
---|
3254 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3255 | Vector<uInt> freqIds = newin[itable]->mfreqidCol_.getColumn() ; |
---|
3256 | vector<uInt> uniqueFreqId = newin[itable]->getNumbers(newin[itable]->mfreqidCol_) ; |
---|
3257 | for ( vector<uInt>::iterator i = uniqueFreqId.begin() ; |
---|
3258 | i != uniqueFreqId.end() ; i++ ) { |
---|
3259 | //os << "itable = " << itable << ": IF " << id << " is included in the list" << LogIO::POST ; |
---|
3260 | uInt target = 0 ; |
---|
3261 | while ( freqIds[target] != *i ) |
---|
3262 | target++ ; |
---|
3263 | vector<double> abcissa = newin[itable]->getAbcissa( target ) ; |
---|
3264 | freqid[itable].push_back( *i ) ; |
---|
3265 | double incr = abs( abcissa[1] - abcissa[0] ) ; |
---|
3266 | iffreq[itable].push_back( (*min_element(abcissa.begin(),abcissa.end()))-0.5*incr ) ; |
---|
3267 | iffreq[itable].push_back( (*max_element(abcissa.begin(),abcissa.end()))+0.5*incr ) ; |
---|
3268 | } |
---|
3269 | } |
---|
3270 | |
---|
3271 | // debug |
---|
3272 | // os << "IF settings summary:" << endl ; |
---|
3273 | // for ( uInt i = 0 ; i < freqid.size() ; i++ ) { |
---|
3274 | // os << " Table" << i << endl ; |
---|
3275 | // for ( uInt j = 0 ; j < freqid[i].size() ; j++ ) { |
---|
3276 | // os << " id = " << freqid[i][j] << " (min,max) = (" << iffreq[i][2*j] << "," << iffreq[i][2*j+1] << ")" << endl ; |
---|
3277 | // } |
---|
3278 | // } |
---|
3279 | // os << endl ; |
---|
3280 | // os.post() ; |
---|
3281 | |
---|
3282 | // IF grouping based on their frequency coverage |
---|
3283 | // ifgrp: number of member in each IF group |
---|
3284 | // ifgrp[numgrp] |
---|
3285 | // ifgrp: [n0, n1, ...] |
---|
3286 | //os << "IF grouping based on their frequency coverage" << LogIO::POST ; |
---|
3287 | |
---|
3288 | // parameter for IF grouping |
---|
3289 | // groupmode = OR retrieve all region |
---|
3290 | // AND only retrieve overlaped region |
---|
3291 | //string groupmode = "AND" ; |
---|
3292 | string groupmode = "OR" ; |
---|
3293 | uInt sizecr = 0 ; |
---|
3294 | if ( groupmode == "AND" ) |
---|
3295 | sizecr = 1 ; |
---|
3296 | else if ( groupmode == "OR" ) |
---|
3297 | sizecr = 0 ; |
---|
3298 | |
---|
3299 | vector<double> sortedfreq ; |
---|
3300 | for ( uInt i = 0 ; i < iffreq.size() ; i++ ) { |
---|
3301 | for ( uInt j = 0 ; j < iffreq[i].size() ; j++ ) { |
---|
3302 | if ( count( sortedfreq.begin(), sortedfreq.end(), iffreq[i][j] ) == 0 ) |
---|
3303 | sortedfreq.push_back( iffreq[i][j] ) ; |
---|
3304 | } |
---|
3305 | } |
---|
3306 | sort( sortedfreq.begin(), sortedfreq.end() ) ; |
---|
3307 | vector<uInt> ifgrp( sortedfreq.size()-1, 0 ) ; |
---|
3308 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3309 | for ( uInt iif = 0 ; iif < freqid[itable].size() ; iif++ ) { |
---|
3310 | double range0 = iffreq[itable][2*iif] ; |
---|
3311 | double range1 = iffreq[itable][2*iif+1] ; |
---|
3312 | for ( uInt j = 0 ; j < sortedfreq.size()-1 ; j++ ) { |
---|
3313 | double fmin = max( range0, sortedfreq[j] ) ; |
---|
3314 | double fmax = min( range1, sortedfreq[j+1] ) ; |
---|
3315 | if ( fmin < fmax ) { |
---|
3316 | ifgrp[j]++ ; |
---|
3317 | } |
---|
3318 | } |
---|
3319 | } |
---|
3320 | } |
---|
3321 | |
---|
3322 | // Grouping continuous IF groups (without frequency gap) |
---|
3323 | // freqgrp: list of IF group indexes in each frequency group |
---|
3324 | // freqgrp[numgrp][nummember] |
---|
3325 | // freqgrp: [[ifgrp00, ifgrp01, ifgrp02, ...], |
---|
3326 | // [ifgrp10, ifgrp11, ifgrp12, ...], |
---|
3327 | // ... |
---|
3328 | // [ifgrpn0, ifgrpn1, ifgrpn2, ...]] |
---|
3329 | // grprange[2*numgrp] |
---|
3330 | // grprange: [fmin0,fmax0,fmin1,fmax1,...] |
---|
3331 | vector< vector<uInt> > freqgrp ; |
---|
3332 | vector<double> grprange ; |
---|
3333 | vector<uInt> grpedge ; |
---|
3334 | for ( uInt igrp = 0 ; igrp < ifgrp.size() ; igrp++ ) { |
---|
3335 | if ( ifgrp[igrp] <= sizecr ) { |
---|
3336 | grpedge.push_back( igrp ) ; |
---|
3337 | } |
---|
3338 | } |
---|
3339 | grpedge.push_back( ifgrp.size() ) ; |
---|
3340 | uInt itmp = 0 ; |
---|
3341 | for ( uInt i = 0 ; i < grpedge.size() ; i++ ) { |
---|
3342 | int n = grpedge[i] - itmp ; |
---|
3343 | if ( n > 0 ) { |
---|
3344 | vector<uInt> members( n ) ; |
---|
3345 | for ( int j = 0 ; j < n ; j++ ) { |
---|
3346 | members[j] = itmp+j ; |
---|
3347 | } |
---|
3348 | freqgrp.push_back( members ) ; |
---|
3349 | grprange.push_back( sortedfreq[itmp] ) ; |
---|
3350 | grprange.push_back( sortedfreq[grpedge[i]] ) ; |
---|
3351 | } |
---|
3352 | itmp += n + 1 ; |
---|
3353 | } |
---|
3354 | |
---|
3355 | // print frequency group |
---|
3356 | oss.str("") ; |
---|
3357 | oss << "Frequency Group summary: " << endl ; |
---|
3358 | oss << " GROUP_ID: [FREQ_MIN, FREQ_MAX]" << endl ; |
---|
3359 | for ( uInt i = 0 ; i < freqgrp.size() ; i++ ) { |
---|
3360 | oss << " GROUP " << setw( 2 ) << i << ": [" << grprange[2*i] << "," << grprange[2*i+1] << "]" ; |
---|
3361 | oss << endl ; |
---|
3362 | } |
---|
3363 | oss << endl ; |
---|
3364 | os << oss.str() << LogIO::POST ; |
---|
3365 | |
---|
3366 | // groups: list of frequency group index whose frequency range overlaps |
---|
3367 | // with that of each table and IF |
---|
3368 | // groups[numtable][numIF] |
---|
3369 | // groups: [[grpx, grpy,...], |
---|
3370 | // [grpa, grpb,...], |
---|
3371 | // ... |
---|
3372 | // [grpk, grpm,...]] |
---|
3373 | vector< vector<uInt> > groups( insize ) ; |
---|
3374 | for ( uInt i = 0 ; i < insize ; i++ ) { |
---|
3375 | groups[i].resize( freqid[i].size() ) ; |
---|
3376 | } |
---|
3377 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3378 | for ( uInt ifreq = 0 ; ifreq < freqid[itable].size() ; ifreq++ ) { |
---|
3379 | double minf = iffreq[itable][2*ifreq] ; |
---|
3380 | uInt groupid ; |
---|
3381 | for ( uInt igrp = 0 ; igrp < freqgrp.size() ; igrp++ ) { |
---|
3382 | vector<uInt> memberlist = freqgrp[igrp] ; |
---|
3383 | if ( (minf >= grprange[2*igrp]) && (minf <= grprange[2*igrp+1]) ) { |
---|
3384 | groupid = igrp ; |
---|
3385 | break ; |
---|
3386 | } |
---|
3387 | } |
---|
3388 | groups[itable][ifreq] = groupid ; |
---|
3389 | } |
---|
3390 | } |
---|
3391 | |
---|
3392 | |
---|
3393 | // print membership |
---|
3394 | oss.str("") ; |
---|
3395 | for ( uInt i = 0 ; i < insize ; i++ ) { |
---|
3396 | oss << "Table " << i << endl ; |
---|
3397 | for ( uInt j = 0 ; j < groups[i].size() ; j++ ) { |
---|
3398 | oss << " FREQ_ID " << setw( 2 ) << freqid[i][j] << ": " ; |
---|
3399 | oss << setw( 2 ) << groups[i][j] ; |
---|
3400 | oss << endl ; |
---|
3401 | } |
---|
3402 | } |
---|
3403 | os << oss.str() << LogIO::POST ; |
---|
3404 | |
---|
3405 | // reset SCANNO and IFNO/FREQ_ID: IF is reset by the result of sortation |
---|
3406 | //os << "All IF number is set to IF group index" << LogIO::POST ; |
---|
3407 | // reset SCANNO only when avmode != "SCAN" |
---|
3408 | if ( avmode != "SCAN" ) { |
---|
3409 | os << "All scan number is set to 0" << LogIO::POST ; |
---|
3410 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3411 | uInt nrow = newin[itable]->nrow() ; |
---|
3412 | Vector<uInt> resetScan( nrow, 0 ) ; |
---|
3413 | newin[itable]->scanCol_.putColumn( resetScan ) ; |
---|
3414 | } |
---|
3415 | } |
---|
3416 | |
---|
3417 | // reset spectra and flagtra: align spectral resolution |
---|
3418 | //os << "Align spectral resolution" << LogIO::POST ; |
---|
3419 | // gmaxdnu: the coarsest frequency resolution in the frequency group |
---|
3420 | // gminfreq: lower frequency edge of the frequency group |
---|
3421 | // gnchan: number of channels for the frequency group |
---|
3422 | vector<double> gmaxdnu( freqgrp.size(), 0.0 ) ; |
---|
3423 | vector<double> gminfreq( freqgrp.size() ) ; |
---|
3424 | vector<double> gnchan( freqgrp.size() ) ; |
---|
3425 | for ( uInt i = 0 ; i < insize ; i++ ) { |
---|
3426 | vector<uInt> members = groups[i] ; |
---|
3427 | for ( uInt j = 0 ; j < members.size() ; j++ ) { |
---|
3428 | uInt groupid = members[j] ; |
---|
3429 | Double rp,rv,ic ; |
---|
3430 | newin[i]->frequencies().getEntry( rp, rv, ic, j ) ; |
---|
3431 | if ( abs(ic) > abs(gmaxdnu[groupid]) ) |
---|
3432 | gmaxdnu[groupid] = ic ; |
---|
3433 | } |
---|
3434 | } |
---|
3435 | for ( uInt igrp = 0 ; igrp < freqgrp.size() ; igrp++ ) { |
---|
3436 | gminfreq[igrp] = grprange[2*igrp] ; |
---|
3437 | double maxfreq = grprange[2*igrp+1] ; |
---|
3438 | gnchan[igrp] = (int)(abs((maxfreq-gminfreq[igrp])/gmaxdnu[igrp])+0.9) ; |
---|
3439 | } |
---|
3440 | |
---|
3441 | // regrid spectral data and update frequency info |
---|
3442 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3443 | Vector<uInt> oldFreqId = newin[itable]->mfreqidCol_.getColumn() ; |
---|
3444 | Vector<uInt> newFreqId( oldFreqId.nelements() ) ; |
---|
3445 | |
---|
3446 | // update MAIN |
---|
3447 | for ( uInt irow = 0 ; irow < newin[itable]->nrow() ; irow++ ) { |
---|
3448 | uInt groupid = groups[itable][oldFreqId[irow]] ; |
---|
3449 | newFreqId[irow] = groupid ; |
---|
3450 | newin[itable]->regridChannel( gnchan[groupid], |
---|
3451 | gmaxdnu[groupid], |
---|
3452 | gminfreq[groupid], |
---|
3453 | irow ) ; |
---|
3454 | } |
---|
3455 | newin[itable]->mfreqidCol_.putColumn( newFreqId ) ; |
---|
3456 | newin[itable]->ifCol_.putColumn( newFreqId ) ; |
---|
3457 | |
---|
3458 | // update FREQUENCIES |
---|
3459 | Table tab = newin[itable]->frequencies().table() ; |
---|
3460 | ScalarColumn<uInt> fIdCol( tab, "ID" ) ; |
---|
3461 | ScalarColumn<Double> fRefPixCol( tab, "REFPIX" ) ; |
---|
3462 | ScalarColumn<Double> fRefValCol( tab, "REFVAL" ) ; |
---|
3463 | ScalarColumn<Double> fIncrCol( tab, "INCREMENT" ) ; |
---|
3464 | if ( freqgrp.size() > tab.nrow() ) { |
---|
3465 | tab.addRow( freqgrp.size()-tab.nrow() ) ; |
---|
3466 | } |
---|
3467 | for ( uInt irow = 0 ; irow < freqgrp.size() ; irow++ ) { |
---|
3468 | Double refval = gminfreq[irow] + 0.5 * abs(gmaxdnu[irow]) ; |
---|
3469 | Double refpix = (gmaxdnu[irow] > 0.0) ? 0 : gnchan[irow]-1 ; |
---|
3470 | Double increment = gmaxdnu[irow] ; |
---|
3471 | fIdCol.put( irow, irow ) ; |
---|
3472 | fRefPixCol.put( irow, refpix ) ; |
---|
3473 | fRefValCol.put( irow, refval ) ; |
---|
3474 | fIncrCol.put( irow, increment ) ; |
---|
3475 | } |
---|
3476 | } |
---|
3477 | |
---|
3478 | // set back coordinfo |
---|
3479 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3480 | vector<string> coordinfo = newin[itable]->getCoordInfo() ; |
---|
3481 | coordinfo[0] = oldinfo[itable] ; |
---|
3482 | newin[itable]->setCoordInfo( coordinfo ) ; |
---|
3483 | } |
---|
3484 | |
---|
3485 | // average |
---|
3486 | out = average( newin, mask, weight, avmode ) ; |
---|
3487 | } |
---|
3488 | else { |
---|
3489 | // simple average |
---|
3490 | out = average( in, mask, weight, avmode ) ; |
---|
3491 | } |
---|
3492 | |
---|
3493 | return out; |
---|
3494 | } |
---|
3495 | |
---|
3496 | CountedPtr<Scantable> STMath::cwcal( const CountedPtr<Scantable>& s, |
---|
3497 | const String calmode, |
---|
3498 | const String antname ) |
---|
3499 | { |
---|
3500 | // frequency switch |
---|
3501 | if ( calmode == "fs" ) { |
---|
3502 | return cwcalfs( s, antname ) ; |
---|
3503 | } |
---|
3504 | else { |
---|
3505 | vector<bool> masks = s->getMask( 0 ) ; |
---|
3506 | vector<int> types ; |
---|
3507 | |
---|
3508 | // save original table selection |
---|
3509 | Table torg = s->table_ ; |
---|
3510 | |
---|
3511 | // sky scan |
---|
3512 | bool insitu = insitu_ ; |
---|
3513 | insitu_ = false ; |
---|
3514 | // share calibration scans before average with out |
---|
3515 | CountedPtr<Scantable> out = getScantable( s, true ) ; |
---|
3516 | insitu_ = insitu ; |
---|
3517 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::SKY ) ; |
---|
3518 | out->attach() ; |
---|
3519 | CountedPtr<Scantable> asky = averageWithinSession( out, |
---|
3520 | masks, |
---|
3521 | "TINT" ) ; |
---|
3522 | // hot scan |
---|
3523 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::HOT ) ; |
---|
3524 | out->attach() ; |
---|
3525 | CountedPtr<Scantable> ahot = averageWithinSession( out, |
---|
3526 | masks, |
---|
3527 | "TINT" ) ; |
---|
3528 | // cold scan |
---|
3529 | CountedPtr<Scantable> acold ; |
---|
3530 | // out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::COLD ) ; |
---|
3531 | // out->attach() ; |
---|
3532 | // CountedPtr<Scantable> acold = averageWithinSession( out, |
---|
3533 | // masks, |
---|
3534 | // "TINT" ) ; |
---|
3535 | |
---|
3536 | // off scan |
---|
3537 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::PSOFF ) ; |
---|
3538 | out->attach() ; |
---|
3539 | CountedPtr<Scantable> aoff = averageWithinSession( out, |
---|
3540 | masks, |
---|
3541 | "TINT" ) ; |
---|
3542 | |
---|
3543 | // on scan |
---|
3544 | s->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::PSON ) ; |
---|
3545 | s->attach() ; |
---|
3546 | out->table_ = out->originalTable_ ; |
---|
3547 | out->attach() ; |
---|
3548 | out->table().addRow( s->nrow() ) ; |
---|
3549 | copyRows( out->table(), s->table(), 0, 0, s->nrow(), False, True, False ) ; |
---|
3550 | |
---|
3551 | // iterate throgh STIdxIter2 |
---|
3552 | ChopperWheelCalibrator cal(out, s, aoff, asky, ahot, acold); |
---|
3553 | STIdxIter2::Iterate<ChopperWheelCalibrator>(cal, "BEAMNO,POLNO,IFNO"); |
---|
3554 | |
---|
3555 | s->table_ = torg ; |
---|
3556 | s->attach() ; |
---|
3557 | |
---|
3558 | // flux unit |
---|
3559 | out->setFluxUnit( "K" ) ; |
---|
3560 | |
---|
3561 | return out ; |
---|
3562 | } |
---|
3563 | } |
---|
3564 | |
---|
3565 | CountedPtr<Scantable> STMath::almacal( const CountedPtr<Scantable>& s, |
---|
3566 | const String calmode ) |
---|
3567 | { |
---|
3568 | // frequency switch |
---|
3569 | if ( calmode == "fs" ) { |
---|
3570 | return almacalfs( s ) ; |
---|
3571 | } |
---|
3572 | else { |
---|
3573 | // double t0, t1 ; |
---|
3574 | // t0 = mathutil::gettimeofday_sec() ; |
---|
3575 | vector<bool> masks = s->getMask( 0 ) ; |
---|
3576 | |
---|
3577 | // save original table selection |
---|
3578 | Table torg = s->table_ ; |
---|
3579 | |
---|
3580 | // off scan |
---|
3581 | // TODO 2010/01/08 TN |
---|
3582 | // Grouping by time should be needed before averaging. |
---|
3583 | // Each group must have own unique SCANNO (should be renumbered). |
---|
3584 | // See PIPELINE/SDCalibration.py |
---|
3585 | bool insitu = insitu_ ; |
---|
3586 | insitu_ = false ; |
---|
3587 | // share off scan before average with out |
---|
3588 | CountedPtr<Scantable> out = getScantable( s, true ) ; |
---|
3589 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::PSOFF ) ; |
---|
3590 | out->attach() ; |
---|
3591 | insitu_ = insitu ; |
---|
3592 | CountedPtr<Scantable> aoff = averageWithinSession( out, |
---|
3593 | masks, |
---|
3594 | "TINT" ) ; |
---|
3595 | |
---|
3596 | // on scan |
---|
3597 | // t0 = mathutil::gettimeofday_sec() ; |
---|
3598 | s->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::PSON ) ; |
---|
3599 | s->attach() ; |
---|
3600 | out->table_ = out->originalTable_ ; |
---|
3601 | out->attach() ; |
---|
3602 | out->table().addRow( s->nrow() ) ; |
---|
3603 | copyRows( out->table(), s->table(), 0, 0, s->nrow(), False ) ; |
---|
3604 | // t1 = mathutil::gettimeofday_sec() ; |
---|
3605 | // cout << "elapsed time for preparing output table: " << t1-t0 << " sec" << endl ; |
---|
3606 | |
---|
3607 | // process each on scan |
---|
3608 | // t0 = mathutil::gettimeofday_sec() ; |
---|
3609 | |
---|
3610 | // iterate throgh STIdxIter2 |
---|
3611 | AlmaCalibrator cal(out, s, aoff); |
---|
3612 | STIdxIter2::Iterate<AlmaCalibrator>(cal, "BEAMNO,POLNO,IFNO"); |
---|
3613 | |
---|
3614 | // finalize |
---|
3615 | s->table_ = torg ; |
---|
3616 | s->attach() ; |
---|
3617 | |
---|
3618 | // t1 = mathutil::gettimeofday_sec() ; |
---|
3619 | // cout << "elapsed time for calibration: " << t1-t0 << " sec" << endl ; |
---|
3620 | |
---|
3621 | // flux unit |
---|
3622 | out->setFluxUnit( "K" ) ; |
---|
3623 | |
---|
3624 | return out ; |
---|
3625 | } |
---|
3626 | } |
---|
3627 | |
---|
3628 | CountedPtr<Scantable> STMath::cwcalfs( const CountedPtr<Scantable>& s, |
---|
3629 | const String antname ) |
---|
3630 | { |
---|
3631 | vector<int> types ; |
---|
3632 | |
---|
3633 | // APEX calibration mode |
---|
3634 | int apexcalmode = 1 ; |
---|
3635 | |
---|
3636 | if ( antname.find( "APEX" ) != string::npos ) { |
---|
3637 | // check if off scan exists or not |
---|
3638 | STSelector sel = STSelector() ; |
---|
3639 | //sel.setName( offstr1 ) ; |
---|
3640 | types.push_back( SrcType::FLOOFF ) ; |
---|
3641 | sel.setTypes( types ) ; |
---|
3642 | try { |
---|
3643 | s->setSelection( sel ) ; |
---|
3644 | } |
---|
3645 | catch ( AipsError &e ) { |
---|
3646 | apexcalmode = 0 ; |
---|
3647 | } |
---|
3648 | sel.reset() ; |
---|
3649 | } |
---|
3650 | s->unsetSelection() ; |
---|
3651 | types.clear() ; |
---|
3652 | |
---|
3653 | vector<bool> masks = s->getMask( 0 ) ; |
---|
3654 | CountedPtr<Scantable> ssig, sref ; |
---|
3655 | //CountedPtr<Scantable> out ; |
---|
3656 | bool insitu = insitu_ ; |
---|
3657 | insitu_ = False ; |
---|
3658 | CountedPtr<Scantable> out = getScantable( s, true ) ; |
---|
3659 | insitu_ = insitu ; |
---|
3660 | |
---|
3661 | if ( antname.find( "APEX" ) != string::npos ) { |
---|
3662 | // APEX calibration |
---|
3663 | // sky scan |
---|
3664 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FLOSKY ) ; |
---|
3665 | out->attach() ; |
---|
3666 | CountedPtr<Scantable> askylo = averageWithinSession( out, |
---|
3667 | masks, |
---|
3668 | "TINT" ) ; |
---|
3669 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FHISKY ) ; |
---|
3670 | out->attach() ; |
---|
3671 | CountedPtr<Scantable> askyhi = averageWithinSession( out, |
---|
3672 | masks, |
---|
3673 | "TINT" ) ; |
---|
3674 | |
---|
3675 | // hot scan |
---|
3676 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FLOHOT ) ; |
---|
3677 | out->attach() ; |
---|
3678 | CountedPtr<Scantable> ahotlo = averageWithinSession( out, |
---|
3679 | masks, |
---|
3680 | "TINT" ) ; |
---|
3681 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FHIHOT ) ; |
---|
3682 | out->attach() ; |
---|
3683 | CountedPtr<Scantable> ahothi = averageWithinSession( out, |
---|
3684 | masks, |
---|
3685 | "TINT" ) ; |
---|
3686 | |
---|
3687 | // cold scan |
---|
3688 | CountedPtr<Scantable> acoldlo, acoldhi ; |
---|
3689 | // out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FLOCOLD ) ; |
---|
3690 | // out->attach() ; |
---|
3691 | // CountedPtr<Scantable> acoldlo = averageWithinSession( out, |
---|
3692 | // masks, |
---|
3693 | // "TINT" ) ; |
---|
3694 | // out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FHICOLD ) ; |
---|
3695 | // out->attach() ; |
---|
3696 | // CountedPtr<Scantable> acoldhi = averageWithinSession( out, |
---|
3697 | // masks, |
---|
3698 | // "TINT" ) ; |
---|
3699 | |
---|
3700 | // ref scan |
---|
3701 | insitu_ = false ; |
---|
3702 | sref = getScantable( s, true ) ; |
---|
3703 | CountedPtr<Scantable> rref = getScantable( s, true ) ; |
---|
3704 | insitu_ = insitu ; |
---|
3705 | rref->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FSLO ) ; |
---|
3706 | rref->attach() ; |
---|
3707 | copyRows( sref->table_, rref->table_, 0, 0, rref->nrow(), False, True, False ) ; |
---|
3708 | |
---|
3709 | // sig scan |
---|
3710 | insitu_ = false ; |
---|
3711 | ssig = getScantable( s, true ) ; |
---|
3712 | CountedPtr<Scantable> rsig = getScantable( s, true ) ; |
---|
3713 | insitu_ = insitu ; |
---|
3714 | rsig->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FSHI ) ; |
---|
3715 | rsig->attach() ; |
---|
3716 | copyRows( ssig->table_, rsig->table_, 0, 0, rsig->nrow(), False, True, False ) ; |
---|
3717 | |
---|
3718 | if ( apexcalmode == 0 ) { |
---|
3719 | // using STIdxIter2 |
---|
3720 | vector<string> cols( 3 ) ; |
---|
3721 | cols[0] = "BEAMNO" ; |
---|
3722 | cols[1] = "POLNO" ; |
---|
3723 | cols[2] = "IFNO" ; |
---|
3724 | STIdxIter2 iter(ssig, cols) ; |
---|
3725 | STSelector sel ; |
---|
3726 | vector< CountedPtr<Scantable> > on( 2 ) ; |
---|
3727 | on[0] = rsig ; |
---|
3728 | on[1] = rref ; |
---|
3729 | vector< CountedPtr<Scantable> > sky( 2 ) ; |
---|
3730 | sky[0] = askylo ; |
---|
3731 | sky[1] = askyhi ; |
---|
3732 | vector< CountedPtr<Scantable> > hot( 2 ) ; |
---|
3733 | hot[0] = ahotlo ; |
---|
3734 | hot[1] = ahothi ; |
---|
3735 | vector< CountedPtr<Scantable> > cold( 2 ) ; |
---|
3736 | while ( !iter.pastEnd() ) { |
---|
3737 | Record ids = iter.currentValue() ; |
---|
3738 | stringstream ss ; |
---|
3739 | ss << "SELECT FROM $1 WHERE " |
---|
3740 | << "BEAMNO==" << ids.asuInt("BEAMNO") << "&&" |
---|
3741 | << "POLNO==" << ids.asuInt("POLNO") << "&&" |
---|
3742 | << "IFNO==" << ids.asuInt("IFNO") ; |
---|
3743 | //cout << "TaQL string: " << ss.str() << endl ; |
---|
3744 | sel.setTaQL( ss.str() ) ; |
---|
3745 | sky[0]->setSelection( sel ) ; |
---|
3746 | sky[1]->setSelection( sel ) ; |
---|
3747 | hot[0]->setSelection( sel ) ; |
---|
3748 | hot[1]->setSelection( sel ) ; |
---|
3749 | Vector<uInt> rows = iter.getRows( SHARE ) ; |
---|
3750 | calibrateAPEXFS( ssig, sref, on, sky, hot, cold, rows ) ; |
---|
3751 | sky[0]->unsetSelection() ; |
---|
3752 | sky[1]->unsetSelection() ; |
---|
3753 | hot[0]->unsetSelection() ; |
---|
3754 | hot[1]->unsetSelection() ; |
---|
3755 | sel.reset() ; |
---|
3756 | iter.next() ; |
---|
3757 | } |
---|
3758 | |
---|
3759 | } |
---|
3760 | else if ( apexcalmode == 1 ) { |
---|
3761 | // APEX fs data with off scan |
---|
3762 | // off scan |
---|
3763 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FLOOFF ) ; |
---|
3764 | out->attach() ; |
---|
3765 | CountedPtr<Scantable> aofflo = averageWithinSession( out, |
---|
3766 | masks, |
---|
3767 | "TINT" ) ; |
---|
3768 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FHIOFF ) ; |
---|
3769 | out->attach() ; |
---|
3770 | CountedPtr<Scantable> aoffhi = averageWithinSession( out, |
---|
3771 | masks, |
---|
3772 | "TINT" ) ; |
---|
3773 | |
---|
3774 | // process each sig and ref scan |
---|
3775 | // iterate throgh STIdxIter2 |
---|
3776 | ChopperWheelCalibrator cal_sig(ssig, rsig, aofflo, askylo, ahotlo, acoldlo); |
---|
3777 | STIdxIter2::Iterate<ChopperWheelCalibrator>(cal_sig, "BEAMNO,POLNO,IFNO"); |
---|
3778 | ChopperWheelCalibrator cal_ref(sref, rref, aoffhi, askyhi, ahothi, acoldhi); |
---|
3779 | STIdxIter2::Iterate<ChopperWheelCalibrator>(cal_ref, "BEAMNO,POLNO,IFNO"); |
---|
3780 | } |
---|
3781 | } |
---|
3782 | else { |
---|
3783 | // non-APEX fs data |
---|
3784 | // sky scan |
---|
3785 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::SKY ) ; |
---|
3786 | out->attach() ; |
---|
3787 | CountedPtr<Scantable> asky = averageWithinSession( out, |
---|
3788 | masks, |
---|
3789 | "TINT" ) ; |
---|
3790 | STSelector sel = STSelector() ; |
---|
3791 | |
---|
3792 | // hot scan |
---|
3793 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::HOT ) ; |
---|
3794 | out->attach() ; |
---|
3795 | CountedPtr<Scantable> ahot = averageWithinSession( out, |
---|
3796 | masks, |
---|
3797 | "TINT" ) ; |
---|
3798 | |
---|
3799 | // cold scan |
---|
3800 | CountedPtr<Scantable> acold ; |
---|
3801 | // out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::COLD ) ; |
---|
3802 | // out->attach() ; |
---|
3803 | // CountedPtr<Scantable> acold = averageWithinSession( out, |
---|
3804 | // masks, |
---|
3805 | // "TINT" ) ; |
---|
3806 | |
---|
3807 | // ref scan |
---|
3808 | bool insitu = insitu_ ; |
---|
3809 | insitu_ = false ; |
---|
3810 | sref = getScantable( s, true ) ; |
---|
3811 | CountedPtr<Scantable> rref = getScantable( s, true ) ; |
---|
3812 | insitu_ = insitu ; |
---|
3813 | rref->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::PSOFF ) ; |
---|
3814 | rref->attach() ; |
---|
3815 | copyRows( sref->table_, rref->table_, 0, 0, rref->nrow(), False, True, False ) ; |
---|
3816 | |
---|
3817 | // sig scan |
---|
3818 | insitu_ = false ; |
---|
3819 | ssig = getScantable( s, true ) ; |
---|
3820 | CountedPtr<Scantable> rsig = getScantable( s, true ) ; |
---|
3821 | insitu_ = insitu ; |
---|
3822 | rsig->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::PSON ) ; |
---|
3823 | rsig->attach() ; |
---|
3824 | copyRows( ssig->table_, rsig->table_, 0, 0, rsig->nrow(), False, True, False ) ; |
---|
3825 | |
---|
3826 | // process each sig and ref scan |
---|
3827 | vector<string> cols( 3 ) ; |
---|
3828 | cols[0] = "BEAMNO" ; |
---|
3829 | cols[1] = "POLNO" ; |
---|
3830 | cols[2] = "IFNO" ; |
---|
3831 | STIdxIter2 iter(ssig, cols); |
---|
3832 | while ( !iter.pastEnd() ) { |
---|
3833 | Record ids = iter.currentValue() ; |
---|
3834 | stringstream ss ; |
---|
3835 | ss << "SELECT FROM $1 WHERE " |
---|
3836 | << "BEAMNO==" << ids.asuInt("BEAMNO") << "&&" |
---|
3837 | << "POLNO==" << ids.asuInt("POLNO") << "&&" |
---|
3838 | << "IFNO==" << ids.asuInt("IFNO") ; |
---|
3839 | //cout << "TaQL string: " << ss.str() << endl ; |
---|
3840 | sel.setTaQL( ss.str() ) ; |
---|
3841 | ahot->setSelection( sel ) ; |
---|
3842 | asky->setSelection( sel ) ; |
---|
3843 | Vector<uInt> rows = iter.getRows( SHARE ) ; |
---|
3844 | // out should be an exact copy of s except that SPECTRA column is empty |
---|
3845 | calibrateFS( ssig, sref, rsig, rref, asky, ahot, acold, rows ) ; |
---|
3846 | ahot->unsetSelection() ; |
---|
3847 | asky->unsetSelection() ; |
---|
3848 | sel.reset() ; |
---|
3849 | iter.next() ; |
---|
3850 | } |
---|
3851 | } |
---|
3852 | |
---|
3853 | // do folding if necessary |
---|
3854 | Table sigtab = ssig->table() ; |
---|
3855 | Table reftab = sref->table() ; |
---|
3856 | ScalarColumn<uInt> reffidCol ; |
---|
3857 | Int nchan = (Int)ssig->nchan() ; |
---|
3858 | reffidCol.attach( reftab, "FREQ_ID" ) ; |
---|
3859 | Vector<uInt> sfids = ssig->mfreqidCol_.getColumn() ; |
---|
3860 | Vector<uInt> rfids = sref->mfreqidCol_.getColumn() ; |
---|
3861 | vector<uInt> sfids_unique ; |
---|
3862 | vector<uInt> rfids_unique ; |
---|
3863 | vector<uInt> sifno_unique ; |
---|
3864 | vector<uInt> rifno_unique ; |
---|
3865 | for ( uInt i = 0 ; i < sfids.nelements() ; i++ ) { |
---|
3866 | if ( count( sfids_unique.begin(), sfids_unique.end(), sfids[i] ) == 0 ) { |
---|
3867 | sfids_unique.push_back( sfids[i] ) ; |
---|
3868 | sifno_unique.push_back( ssig->getIF( i ) ) ; |
---|
3869 | } |
---|
3870 | if ( count( rfids_unique.begin(), rfids_unique.end(), rfids[i] ) == 0 ) { |
---|
3871 | rfids_unique.push_back( rfids[i] ) ; |
---|
3872 | rifno_unique.push_back( sref->getIF( i ) ) ; |
---|
3873 | } |
---|
3874 | } |
---|
3875 | double refpix_sig, refval_sig, increment_sig ; |
---|
3876 | double refpix_ref, refval_ref, increment_ref ; |
---|
3877 | vector< CountedPtr<Scantable> > tmp( sfids_unique.size() ) ; |
---|
3878 | for ( uInt i = 0 ; i < sfids_unique.size() ; i++ ) { |
---|
3879 | ssig->frequencies().getEntry( refpix_sig, refval_sig, increment_sig, sfids_unique[i] ) ; |
---|
3880 | sref->frequencies().getEntry( refpix_ref, refval_ref, increment_ref, rfids_unique[i] ) ; |
---|
3881 | if ( refpix_sig == refpix_ref ) { |
---|
3882 | double foffset = refval_ref - refval_sig ; |
---|
3883 | int choffset = static_cast<int>(foffset/increment_sig) ; |
---|
3884 | double doffset = foffset / increment_sig ; |
---|
3885 | if ( abs(choffset) >= nchan ) { |
---|
3886 | LogIO os( LogOrigin( "STMath", "cwcalfs", WHERE ) ) ; |
---|
3887 | os << "FREQ_ID=[" << sfids_unique[i] << "," << rfids_unique[i] << "]: out-band frequency switching, no folding" << LogIO::POST ; |
---|
3888 | os << "Just return signal data" << LogIO::POST ; |
---|
3889 | //std::vector< CountedPtr<Scantable> > tabs ; |
---|
3890 | //tabs.push_back( ssig ) ; |
---|
3891 | //tabs.push_back( sref ) ; |
---|
3892 | //out = merge( tabs ) ; |
---|
3893 | tmp[i] = ssig ; |
---|
3894 | } |
---|
3895 | else { |
---|
3896 | STSelector sel = STSelector() ; |
---|
3897 | vector<int> v( 1, sifno_unique[i] ) ; |
---|
3898 | sel.setIFs( v ) ; |
---|
3899 | ssig->setSelection( sel ) ; |
---|
3900 | sel.reset() ; |
---|
3901 | v[0] = rifno_unique[i] ; |
---|
3902 | sel.setIFs( v ) ; |
---|
3903 | sref->setSelection( sel ) ; |
---|
3904 | sel.reset() ; |
---|
3905 | if ( antname.find( "APEX" ) != string::npos ) { |
---|
3906 | tmp[i] = dofold( ssig, sref, 0.5*doffset, -0.5*doffset ) ; |
---|
3907 | //tmp[i] = dofold( ssig, sref, doffset ) ; |
---|
3908 | } |
---|
3909 | else { |
---|
3910 | tmp[i] = dofold( ssig, sref, doffset ) ; |
---|
3911 | } |
---|
3912 | ssig->unsetSelection() ; |
---|
3913 | sref->unsetSelection() ; |
---|
3914 | } |
---|
3915 | } |
---|
3916 | } |
---|
3917 | |
---|
3918 | if ( tmp.size() > 1 ) { |
---|
3919 | out = merge( tmp ) ; |
---|
3920 | } |
---|
3921 | else { |
---|
3922 | out = tmp[0] ; |
---|
3923 | } |
---|
3924 | |
---|
3925 | // flux unit |
---|
3926 | out->setFluxUnit( "K" ) ; |
---|
3927 | |
---|
3928 | return out ; |
---|
3929 | } |
---|
3930 | |
---|
3931 | CountedPtr<Scantable> STMath::almacalfs( const CountedPtr<Scantable>& s ) |
---|
3932 | { |
---|
3933 | (void) s; //currently unused |
---|
3934 | CountedPtr<Scantable> out ; |
---|
3935 | |
---|
3936 | return out ; |
---|
3937 | } |
---|
3938 | |
---|
3939 | void STMath::calibrateAPEXFS( CountedPtr<Scantable> &sig, |
---|
3940 | CountedPtr<Scantable> &ref, |
---|
3941 | const vector< CountedPtr<Scantable> >& on, |
---|
3942 | const vector< CountedPtr<Scantable> >& sky, |
---|
3943 | const vector< CountedPtr<Scantable> >& hot, |
---|
3944 | const vector< CountedPtr<Scantable> >& cold, |
---|
3945 | const Vector<uInt> &rows ) |
---|
3946 | { |
---|
3947 | // if rows is empty, just return |
---|
3948 | if ( rows.nelements() == 0 ) |
---|
3949 | return ; |
---|
3950 | ROScalarColumn<Double> timeCol( sky[0]->table(), "TIME" ) ; |
---|
3951 | Vector<Double> timeSkyS = timeCol.getColumn() ; |
---|
3952 | timeCol.attach( sky[1]->table(), "TIME" ) ; |
---|
3953 | Vector<Double> timeSkyR = timeCol.getColumn() ; |
---|
3954 | timeCol.attach( hot[0]->table(), "TIME" ) ; |
---|
3955 | Vector<Double> timeHotS = timeCol.getColumn() ; |
---|
3956 | timeCol.attach( hot[1]->table(), "TIME" ) ; |
---|
3957 | Vector<Double> timeHotR = timeCol.getColumn() ; |
---|
3958 | timeCol.attach( sig->table(), "TIME" ) ; |
---|
3959 | ROScalarColumn<Double> timeCol2( ref->table(), "TIME" ) ; |
---|
3960 | ROArrayColumn<Float> arrayFloatCol( sky[0]->table(), "SPECTRA" ) ; |
---|
3961 | SpectralData skyspectraS(arrayFloatCol.getColumn()); |
---|
3962 | arrayFloatCol.attach( sky[1]->table(), "SPECTRA" ) ; |
---|
3963 | SpectralData skyspectraR(arrayFloatCol.getColumn()); |
---|
3964 | arrayFloatCol.attach( hot[0]->table(), "SPECTRA" ) ; |
---|
3965 | SpectralData hotspectraS(arrayFloatCol.getColumn()); |
---|
3966 | arrayFloatCol.attach( hot[1]->table(), "SPECTRA" ) ; |
---|
3967 | SpectralData hotspectraR(arrayFloatCol.getColumn()); |
---|
3968 | TcalData tcaldataS(sky[0]); |
---|
3969 | TsysData tsysdataS(sky[0]); |
---|
3970 | TcalData tcaldataR(sky[1]); |
---|
3971 | TsysData tsysdataR(sky[1]); |
---|
3972 | unsigned int spsize = sig->nchan( sig->getIF(rows[0]) ) ; |
---|
3973 | Vector<Float> spec( spsize ) ; |
---|
3974 | // I know that the data is contiguous |
---|
3975 | const uInt *p = rows.data() ; |
---|
3976 | vector<int> ids( 2 ) ; |
---|
3977 | Block<uInt> flagchan( spsize ) ; |
---|
3978 | uInt nflag = 0 ; |
---|
3979 | for ( int irow = 0 ; irow < rows.nelements() ; irow++ ) { |
---|
3980 | double reftime = timeCol.asdouble(*p) ; |
---|
3981 | ids = getRowIdFromTime( reftime, timeSkyS ) ; |
---|
3982 | Vector<Float> spskyS = SimpleInterpolationHelper<SpectralData>::GetFromTime(reftime, timeSkyS, ids, skyspectraS, "linear"); |
---|
3983 | Vector<Float> tcalS = SimpleInterpolationHelper<TcalData>::GetFromTime(reftime, timeSkyS, ids, tcaldataS, "linear"); |
---|
3984 | Vector<Float> tsysS = SimpleInterpolationHelper<TsysData>::GetFromTime(reftime, timeSkyS, ids, tsysdataS, "linear"); |
---|
3985 | ids = getRowIdFromTime( reftime, timeHotS ) ; |
---|
3986 | Vector<Float> sphotS = SimpleInterpolationHelper<SpectralData>::GetFromTime(reftime, timeHotS, ids, hotspectraS, "linear"); |
---|
3987 | reftime = timeCol2.asdouble(*p) ; |
---|
3988 | ids = getRowIdFromTime( reftime, timeSkyR ) ; |
---|
3989 | Vector<Float> spskyR = SimpleInterpolationHelper<SpectralData>::GetFromTime(reftime, timeSkyR, ids, skyspectraR, "linear"); |
---|
3990 | Vector<Float> tcalR = SimpleInterpolationHelper<TcalData>::GetFromTime(reftime, timeSkyR, ids, tcaldataR, "linear"); |
---|
3991 | Vector<Float> tsysR = SimpleInterpolationHelper<TsysData>::GetFromTime(reftime, timeSkyR, ids, tsysdataR, "linear"); |
---|
3992 | ids = getRowIdFromTime( reftime, timeHotR ) ; |
---|
3993 | Vector<Float> sphotR = SimpleInterpolationHelper<SpectralData>::GetFromTime(reftime, timeHotR, ids, hotspectraR, "linear"); |
---|
3994 | Vector<Float> spsig = on[0]->specCol_( *p ) ; |
---|
3995 | Vector<Float> spref = on[1]->specCol_( *p ) ; |
---|
3996 | for ( unsigned int j = 0 ; j < spsize ; j++ ) { |
---|
3997 | if ( (sphotS[j]-spskyS[j]) == 0.0 || (sphotR[j]-spskyR[j]) == 0.0 ) { |
---|
3998 | spec[j] = 0.0 ; |
---|
3999 | flagchan[nflag++] = j ; |
---|
4000 | } |
---|
4001 | else { |
---|
4002 | spec[j] = tcalS[j] * spsig[j] / ( sphotS[j] - spskyS[j] ) |
---|
4003 | - tcalR[j] * spref[j] / ( sphotR[j] - spskyR[j] ) ; |
---|
4004 | } |
---|
4005 | } |
---|
4006 | sig->specCol_.put( *p, spec ) ; |
---|
4007 | sig->tsysCol_.put( *p, tsysS ) ; |
---|
4008 | spec *= (Float)-1.0 ; |
---|
4009 | ref->specCol_.put( *p, spec ) ; |
---|
4010 | ref->tsysCol_.put( *p, tsysR ) ; |
---|
4011 | if ( nflag > 0 ) { |
---|
4012 | Vector<uChar> flsig = sig->flagsCol_( *p ) ; |
---|
4013 | Vector<uChar> flref = ref->flagsCol_( *p ) ; |
---|
4014 | for ( unsigned int j = 0 ; j < nflag ; j++ ) { |
---|
4015 | flsig[flagchan[j]] = (uChar)True ; |
---|
4016 | flref[flagchan[j]] = (uChar)True ; |
---|
4017 | } |
---|
4018 | sig->flagsCol_.put( *p, flsig ) ; |
---|
4019 | ref->flagsCol_.put( *p, flref ) ; |
---|
4020 | } |
---|
4021 | nflag = 0 ; |
---|
4022 | p++ ; |
---|
4023 | } |
---|
4024 | } |
---|
4025 | |
---|
4026 | void STMath::calibrateFS( CountedPtr<Scantable> &sig, |
---|
4027 | CountedPtr<Scantable> &ref, |
---|
4028 | const CountedPtr<Scantable>& rsig, |
---|
4029 | const CountedPtr<Scantable>& rref, |
---|
4030 | const CountedPtr<Scantable>& sky, |
---|
4031 | const CountedPtr<Scantable>& hot, |
---|
4032 | const CountedPtr<Scantable>& cold, |
---|
4033 | const Vector<uInt> &rows ) |
---|
4034 | { |
---|
4035 | // if rows is empty, just return |
---|
4036 | if ( rows.nelements() == 0 ) |
---|
4037 | return ; |
---|
4038 | ROScalarColumn<Double> timeCol( sky->table(), "TIME" ) ; |
---|
4039 | Vector<Double> timeSky = timeCol.getColumn() ; |
---|
4040 | timeCol.attach( hot->table(), "TIME" ) ; |
---|
4041 | Vector<Double> timeHot = timeCol.getColumn() ; |
---|
4042 | timeCol.attach( sig->table(), "TIME" ) ; |
---|
4043 | ROScalarColumn<Double> timeCol2( ref->table(), "TIME" ) ; |
---|
4044 | ROArrayColumn<Float> arrayFloatCol( sky->table(), "SPECTRA" ) ; |
---|
4045 | SpectralData skyspectra(arrayFloatCol.getColumn()); |
---|
4046 | arrayFloatCol.attach( hot->table(), "SPECTRA" ) ; |
---|
4047 | SpectralData hotspectra(arrayFloatCol.getColumn()); |
---|
4048 | TcalData tcaldata(sky); |
---|
4049 | TsysData tsysdata(sky); |
---|
4050 | unsigned int spsize = sig->nchan( sig->getIF(rows[0]) ) ; |
---|
4051 | Vector<Float> spec( spsize ) ; |
---|
4052 | // I know that the data is contiguous |
---|
4053 | const uInt *p = rows.data() ; |
---|
4054 | vector<int> ids( 2 ) ; |
---|
4055 | Block<uInt> flagchan( spsize ) ; |
---|
4056 | uInt nflag = 0 ; |
---|
4057 | for ( int irow = 0 ; irow < rows.nelements() ; irow++ ) { |
---|
4058 | double reftime = timeCol.asdouble(*p) ; |
---|
4059 | ids = getRowIdFromTime( reftime, timeSky ) ; |
---|
4060 | Vector<Float> spsky = SimpleInterpolationHelper<SpectralData>::GetFromTime(reftime, timeSky, ids, skyspectra, "linear"); |
---|
4061 | Vector<Float> tcal = SimpleInterpolationHelper<TcalData>::GetFromTime(reftime, timeSky, ids, tcaldata, "linear"); |
---|
4062 | Vector<Float> tsys = SimpleInterpolationHelper<TsysData>::GetFromTime(reftime, timeSky, ids, tsysdata, "linear"); |
---|
4063 | ids = getRowIdFromTime( reftime, timeHot ) ; |
---|
4064 | Vector<Float> sphot = SimpleInterpolationHelper<SpectralData>::GetFromTime(reftime, timeHot, ids, hotspectra, "linear"); |
---|
4065 | Vector<Float> spsig = rsig->specCol_( *p ) ; |
---|
4066 | Vector<Float> spref = rref->specCol_( *p ) ; |
---|
4067 | // using gain array |
---|
4068 | for ( unsigned int j = 0 ; j < spsize ; j++ ) { |
---|
4069 | if ( spref[j] == 0.0 || (sphot[j]-spsky[j]) == 0.0 ) { |
---|
4070 | spec[j] = 0.0 ; |
---|
4071 | flagchan[nflag++] = j ; |
---|
4072 | } |
---|
4073 | else { |
---|
4074 | spec[j] = ( ( spsig[j] - spref[j] ) / spref[j] ) |
---|
4075 | * ( spsky[j] / ( sphot[j] - spsky[j] ) ) * tcal[j] ; |
---|
4076 | } |
---|
4077 | } |
---|
4078 | sig->specCol_.put( *p, spec ) ; |
---|
4079 | sig->tsysCol_.put( *p, tsys ) ; |
---|
4080 | if ( nflag > 0 ) { |
---|
4081 | Vector<uChar> fl = sig->flagsCol_( *p ) ; |
---|
4082 | for ( unsigned int j = 0 ; j < nflag ; j++ ) { |
---|
4083 | fl[flagchan[j]] = (uChar)True ; |
---|
4084 | } |
---|
4085 | sig->flagsCol_.put( *p, fl ) ; |
---|
4086 | } |
---|
4087 | nflag = 0 ; |
---|
4088 | |
---|
4089 | reftime = timeCol2.asdouble(*p) ; |
---|
4090 | ids = getRowIdFromTime( reftime, timeSky ) ; |
---|
4091 | spsky = SimpleInterpolationHelper<SpectralData>::GetFromTime(reftime, timeSky, ids, skyspectra, "linear"); |
---|
4092 | tcal = SimpleInterpolationHelper<TcalData>::GetFromTime(reftime, timeSky, ids, tcaldata, "linear"); |
---|
4093 | tsys = SimpleInterpolationHelper<TsysData>::GetFromTime(reftime, timeSky, ids, tsysdata, "linear"); |
---|
4094 | ids = getRowIdFromTime( reftime, timeHot ) ; |
---|
4095 | sphot = SimpleInterpolationHelper<SpectralData>::GetFromTime(reftime, timeHot, ids, hotspectra, "linear"); |
---|
4096 | // using gain array |
---|
4097 | for ( unsigned int j = 0 ; j < spsize ; j++ ) { |
---|
4098 | if ( spsig[j] == 0.0 || (sphot[j]-spsky[j]) == 0.0 ) { |
---|
4099 | spec[j] = 0.0 ; |
---|
4100 | flagchan[nflag++] = j ; |
---|
4101 | } |
---|
4102 | else { |
---|
4103 | spec[j] = ( ( spref[j] - spsig[j] ) / spsig[j] ) |
---|
4104 | * ( spsky[j] / ( sphot[j] - spsky[j] ) ) * tcal[j] ; |
---|
4105 | } |
---|
4106 | } |
---|
4107 | ref->specCol_.put( *p, spec ) ; |
---|
4108 | ref->tsysCol_.put( *p, tsys ) ; |
---|
4109 | if ( nflag > 0 ) { |
---|
4110 | Vector<uChar> fl = ref->flagsCol_( *p ) ; |
---|
4111 | for ( unsigned int j = 0 ; j < nflag ; j++ ) { |
---|
4112 | fl[flagchan[j]] = (uChar)True ; |
---|
4113 | } |
---|
4114 | ref->flagsCol_.put( *p, fl ) ; |
---|
4115 | } |
---|
4116 | nflag = 0 ; |
---|
4117 | p++ ; |
---|
4118 | } |
---|
4119 | } |
---|
4120 | |
---|
4121 | void STMath::copyRows( Table &out, |
---|
4122 | const Table &in, |
---|
4123 | uInt startout, |
---|
4124 | uInt startin, |
---|
4125 | uInt nrow, |
---|
4126 | Bool copySpectra, |
---|
4127 | Bool copyFlagtra, |
---|
4128 | Bool copyTsys ) |
---|
4129 | { |
---|
4130 | uInt nexclude = 0 ; |
---|
4131 | Block<String> excludeColsBlock( 3 ) ; |
---|
4132 | if ( !copySpectra ) { |
---|
4133 | excludeColsBlock[nexclude] = "SPECTRA" ; |
---|
4134 | nexclude++ ; |
---|
4135 | } |
---|
4136 | if ( !copyFlagtra ) { |
---|
4137 | excludeColsBlock[nexclude] = "FLAGTRA" ; |
---|
4138 | nexclude++ ; |
---|
4139 | } |
---|
4140 | if ( !copyTsys ) { |
---|
4141 | excludeColsBlock[nexclude] = "TSYS" ; |
---|
4142 | nexclude++ ; |
---|
4143 | } |
---|
4144 | // if ( nexclude < 3 ) { |
---|
4145 | // excludeCols.resize( nexclude, True ) ; |
---|
4146 | // } |
---|
4147 | Vector<String> excludeCols( IPosition(1,nexclude), |
---|
4148 | excludeColsBlock.storage(), |
---|
4149 | SHARE ) ; |
---|
4150 | // cout << "excludeCols=" << excludeCols << endl ; |
---|
4151 | TableRow rowout( out, excludeCols, True ) ; |
---|
4152 | ROTableRow rowin( in, excludeCols, True ) ; |
---|
4153 | uInt rin = startin ; |
---|
4154 | uInt rout = startout ; |
---|
4155 | for ( uInt i = 0 ; i < nrow ; i++ ) { |
---|
4156 | rowin.get( rin ) ; |
---|
4157 | rowout.putMatchingFields( rout, rowin.record() ) ; |
---|
4158 | rin++ ; |
---|
4159 | rout++ ; |
---|
4160 | } |
---|
4161 | } |
---|
4162 | |
---|
4163 | CountedPtr<Scantable> STMath::averageWithinSession( CountedPtr<Scantable> &s, |
---|
4164 | vector<bool> &mask, |
---|
4165 | string weight ) |
---|
4166 | { |
---|
4167 | // prepare output table |
---|
4168 | bool insitu = insitu_ ; |
---|
4169 | insitu_ = false ; |
---|
4170 | CountedPtr<Scantable> a = getScantable( s, true ) ; |
---|
4171 | insitu_ = insitu ; |
---|
4172 | Table &atab = a->table() ; |
---|
4173 | ScalarColumn<Double> timeColOut( atab, "TIME" ) ; |
---|
4174 | |
---|
4175 | if ( s->nrow() == 0 ) |
---|
4176 | return a ; |
---|
4177 | |
---|
4178 | // setup RowAccumulator |
---|
4179 | WeightType wtype = stringToWeight( weight ) ; |
---|
4180 | RowAccumulator acc( wtype ) ; |
---|
4181 | Vector<Bool> cmask( mask ) ; |
---|
4182 | acc.setUserMask( cmask ) ; |
---|
4183 | |
---|
4184 | vector<string> cols( 3 ) ; |
---|
4185 | cols[0] = "IFNO" ; |
---|
4186 | cols[1] = "POLNO" ; |
---|
4187 | cols[2] = "BEAMNO" ; |
---|
4188 | STIdxIter2 iter( s, cols ) ; |
---|
4189 | |
---|
4190 | Table ttab = s->table() ; |
---|
4191 | ROScalarColumn<Double> *timeCol = new ROScalarColumn<Double>( ttab, "TIME" ) ; |
---|
4192 | Vector<Double> timeVec = timeCol->getColumn() ; |
---|
4193 | delete timeCol ; |
---|
4194 | Vector<Double> interval = s->integrCol_.getColumn() ; |
---|
4195 | uInt nrow = timeVec.nelements() ; |
---|
4196 | uInt outrow = 0 ; |
---|
4197 | |
---|
4198 | while( !iter.pastEnd() ) { |
---|
4199 | |
---|
4200 | Vector<uInt> rows = iter.getRows( SHARE ) ; |
---|
4201 | uInt len = rows.nelements() ; |
---|
4202 | |
---|
4203 | if ( len == 0 ) { |
---|
4204 | iter.next() ; |
---|
4205 | continue ; |
---|
4206 | } |
---|
4207 | |
---|
4208 | uInt nchan = s->nchan(s->getIF(rows[0])) ; |
---|
4209 | Vector<uChar> flag( nchan ) ; |
---|
4210 | Vector<Bool> bflag( nchan ) ; |
---|
4211 | Vector<Float> spec( nchan ) ; |
---|
4212 | Vector<Float> tsys( nchan ) ; |
---|
4213 | |
---|
4214 | Vector<Double> timeSep( len-1 ) ; |
---|
4215 | for ( uInt i = 0 ; i < len-1 ; i++ ) { |
---|
4216 | timeSep[i] = timeVec[rows[i+1]] - timeVec[rows[i]] ; |
---|
4217 | } |
---|
4218 | |
---|
4219 | uInt irow ; |
---|
4220 | uInt jrow ; |
---|
4221 | for ( uInt i = 0 ; i < len-1 ; i++ ) { |
---|
4222 | irow = rows[i] ; |
---|
4223 | jrow = rows[i+1] ; |
---|
4224 | // accumulate data |
---|
4225 | s->flagsCol_.get( irow, flag ) ; |
---|
4226 | convertArray( bflag, flag ) ; |
---|
4227 | s->specCol_.get( irow, spec ) ; |
---|
4228 | tsys.assign( s->tsysCol_( irow ) ) ; |
---|
4229 | if ( !allEQ(bflag,True) ) |
---|
4230 | acc.add( spec, !bflag, tsys, interval[irow], timeVec[irow] ) ; |
---|
4231 | double gap = 2.0 * 86400.0 * timeSep[i] / ( interval[jrow] + interval[irow] ) ; |
---|
4232 | //cout << "gap[" << i << "]=" << setw(5) << gap << endl ; |
---|
4233 | if ( gap > 1.1 ) { |
---|
4234 | //cout << "detected gap between " << i << " and " << i+1 << endl ; |
---|
4235 | // put data to output table |
---|
4236 | // reset RowAccumulator |
---|
4237 | if ( acc.state() ) { |
---|
4238 | atab.addRow() ; |
---|
4239 | copyRows( atab, ttab, outrow, irow, 1, False, False, False ) ; |
---|
4240 | acc.replaceNaN() ; |
---|
4241 | const Vector<Bool> &msk = acc.getMask() ; |
---|
4242 | convertArray( flag, !msk ) ; |
---|
4243 | for (uInt k = 0; k < nchan; ++k) { |
---|
4244 | uChar userFlag = 1 << 7; |
---|
4245 | if (msk[k]==True) userFlag = 0 << 7; |
---|
4246 | flag(k) = userFlag; |
---|
4247 | } |
---|
4248 | a->flagsCol_.put( outrow, flag ) ; |
---|
4249 | a->specCol_.put( outrow, acc.getSpectrum() ) ; |
---|
4250 | a->tsysCol_.put( outrow, acc.getTsys() ) ; |
---|
4251 | a->integrCol_.put( outrow, acc.getInterval() ) ; |
---|
4252 | timeColOut.put( outrow, acc.getTime() ) ; |
---|
4253 | a->cycleCol_.put( outrow, 0 ) ; |
---|
4254 | } |
---|
4255 | acc.reset() ; |
---|
4256 | outrow++ ; |
---|
4257 | } |
---|
4258 | } |
---|
4259 | |
---|
4260 | // accumulate and add last data |
---|
4261 | irow = rows[len-1] ; |
---|
4262 | s->flagsCol_.get( irow, flag ) ; |
---|
4263 | convertArray( bflag, flag ) ; |
---|
4264 | s->specCol_.get( irow, spec ) ; |
---|
4265 | tsys.assign( s->tsysCol_( irow ) ) ; |
---|
4266 | if (!allEQ(bflag,True) ) |
---|
4267 | acc.add( spec, !bflag, tsys, interval[irow], timeVec[irow] ) ; |
---|
4268 | if ( acc.state() ) { |
---|
4269 | atab.addRow() ; |
---|
4270 | copyRows( atab, ttab, outrow, irow, 1, False, False, False ) ; |
---|
4271 | acc.replaceNaN() ; |
---|
4272 | const Vector<Bool> &msk = acc.getMask() ; |
---|
4273 | convertArray( flag, !msk ) ; |
---|
4274 | for (uInt k = 0; k < nchan; ++k) { |
---|
4275 | uChar userFlag = 1 << 7; |
---|
4276 | if (msk[k]==True) userFlag = 0 << 7; |
---|
4277 | flag(k) = userFlag; |
---|
4278 | } |
---|
4279 | a->flagsCol_.put( outrow, flag ) ; |
---|
4280 | a->specCol_.put( outrow, acc.getSpectrum() ) ; |
---|
4281 | a->tsysCol_.put( outrow, acc.getTsys() ) ; |
---|
4282 | a->integrCol_.put( outrow, acc.getInterval() ) ; |
---|
4283 | timeColOut.put( outrow, acc.getTime() ) ; |
---|
4284 | a->cycleCol_.put( outrow, 0 ) ; |
---|
4285 | } |
---|
4286 | acc.reset() ; |
---|
4287 | outrow++ ; |
---|
4288 | |
---|
4289 | iter.next() ; |
---|
4290 | } |
---|
4291 | |
---|
4292 | return a ; |
---|
4293 | } |
---|