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 | |
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28 | #include <coordinates/Coordinates/CoordinateSystem.h> |
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29 | #include <coordinates/Coordinates/CoordinateUtil.h> |
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30 | #include <coordinates/Coordinates/FrequencyAligner.h> |
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31 | #include <coordinates/Coordinates/SpectralCoordinate.h> |
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32 | |
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33 | #include <lattices/Lattices/LatticeUtilities.h> |
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34 | |
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35 | #include <scimath/Functionals/Polynomial.h> |
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36 | #include <scimath/Mathematics/Convolver.h> |
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37 | #include <scimath/Mathematics/VectorKernel.h> |
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38 | |
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39 | #include <tables/Tables/ExprNode.h> |
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40 | #include <tables/Tables/ReadAsciiTable.h> |
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41 | #include <tables/Tables/TableCopy.h> |
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42 | #include <tables/Tables/TableIter.h> |
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43 | #include <tables/Tables/TableParse.h> |
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44 | #include <tables/Tables/TableRecord.h> |
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45 | #include <tables/Tables/TableRow.h> |
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46 | #include <tables/Tables/TableVector.h> |
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47 | #include <tables/Tables/TabVecMath.h> |
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48 | |
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49 | #include <atnf/PKSIO/SrcType.h> |
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50 | |
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51 | #include "RowAccumulator.h" |
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52 | #include "STAttr.h" |
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53 | #include "STMath.h" |
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54 | #include "STSelector.h" |
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55 | #include "Accelerator.h" |
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56 | #include "STIdxIter.h" |
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57 | |
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58 | using namespace casa; |
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59 | using namespace asap; |
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60 | |
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61 | // 2012/02/17 TN |
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62 | // Since STGrid is implemented, average doesn't consider direction |
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63 | // when accumulating |
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64 | // tolerance for direction comparison (rad) |
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65 | // #define TOL_OTF 1.0e-15 |
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66 | // #define TOL_POINT 2.9088821e-4 // 1 arcmin |
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67 | |
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68 | STMath::STMath(bool insitu) : |
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69 | insitu_(insitu) |
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70 | { |
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71 | } |
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72 | |
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73 | |
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74 | STMath::~STMath() |
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75 | { |
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76 | } |
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77 | |
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78 | CountedPtr<Scantable> |
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79 | STMath::average( const std::vector<CountedPtr<Scantable> >& in, |
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80 | const std::vector<bool>& mask, |
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81 | const std::string& weight, |
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82 | const std::string& avmode) |
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83 | { |
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84 | // double t0, t1 ; |
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85 | // t0 = mathutil::gettimeofday_sec() ; |
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86 | |
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87 | LogIO os( LogOrigin( "STMath", "average()", WHERE ) ) ; |
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88 | if ( avmode == "SCAN" && in.size() != 1 ) |
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89 | throw(AipsError("Can't perform 'SCAN' averaging on multiple tables.\n" |
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90 | "Use merge first.")); |
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91 | WeightType wtype = stringToWeight(weight); |
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92 | |
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93 | // 2012/02/17 TN |
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94 | // Since STGrid is implemented, average doesn't consider direction |
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95 | // when accumulating |
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96 | // check if OTF observation |
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97 | // String obstype = in[0]->getHeader().obstype ; |
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98 | // Double tol = 0.0 ; |
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99 | // if ( (obstype.find( "OTF" ) != String::npos) || (obstype.find( "OBSERVE_TARGET" ) != String::npos) ) { |
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100 | // tol = TOL_OTF ; |
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101 | // } |
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102 | // else { |
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103 | // tol = TOL_POINT ; |
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104 | // } |
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105 | |
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106 | // output |
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107 | // clone as this is non insitu |
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108 | bool insitu = insitu_; |
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109 | setInsitu(false); |
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110 | CountedPtr< Scantable > out = getScantable(in[0], true); |
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111 | setInsitu(insitu); |
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112 | std::vector<CountedPtr<Scantable> >::const_iterator stit = in.begin(); |
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113 | ++stit; |
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114 | while ( stit != in.end() ) { |
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115 | out->appendToHistoryTable((*stit)->history()); |
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116 | ++stit; |
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117 | } |
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118 | |
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119 | Table& tout = out->table(); |
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120 | |
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121 | /// @todo check if all scantables are conformant |
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122 | |
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123 | ArrayColumn<Float> specColOut(tout,"SPECTRA"); |
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124 | ArrayColumn<uChar> flagColOut(tout,"FLAGTRA"); |
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125 | ArrayColumn<Float> tsysColOut(tout,"TSYS"); |
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126 | ScalarColumn<Double> mjdColOut(tout,"TIME"); |
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127 | ScalarColumn<Double> intColOut(tout,"INTERVAL"); |
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128 | ScalarColumn<uInt> cycColOut(tout,"CYCLENO"); |
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129 | ScalarColumn<uInt> scanColOut(tout,"SCANNO"); |
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130 | ScalarColumn<uInt> flagRowColOut(tout,"FLAGROW"); |
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131 | |
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132 | // set up the output table rows. These are based on the structure of the |
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133 | // FIRST scantable in the vector |
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134 | const Table& baset = in[0]->table(); |
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135 | |
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136 | RowAccumulator acc(wtype); |
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137 | Vector<Bool> cmask(mask); |
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138 | acc.setUserMask(cmask); |
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139 | // ROTableRow row(tout); |
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140 | ROArrayColumn<Float> specCol, tsysCol; |
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141 | ROArrayColumn<uChar> flagCol; |
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142 | ROScalarColumn<Double> mjdCol, intCol; |
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143 | ROScalarColumn<Int> scanIDCol; |
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144 | ROScalarColumn<uInt> flagRowCol; |
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145 | |
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146 | //Vector<uInt> rowstodelete; |
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147 | Block<uInt> rowstodelB( in[0]->nrow() ) ; |
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148 | uInt nrowdel = 0 ; |
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149 | |
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150 | // Block<String> cols(3); |
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151 | vector<string> cols(3) ; |
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152 | cols[0] = String("BEAMNO"); |
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153 | cols[1] = String("IFNO"); |
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154 | cols[2] = String("POLNO"); |
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155 | if ( avmode == "SOURCE" ) { |
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156 | cols.resize(4); |
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157 | cols[3] = String("SRCNAME"); |
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158 | } |
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159 | if ( avmode == "SCAN" && in.size() == 1) { |
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160 | //cols.resize(4); |
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161 | //cols[3] = String("SCANNO"); |
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162 | cols.resize(5); |
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163 | cols[3] = String("SRCNAME"); |
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164 | cols[4] = String("SCANNO"); |
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165 | } |
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166 | uInt outrowCount = 0; |
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167 | // use STIdxIterExAcc instead of TableIterator |
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168 | STIdxIterExAcc iter( in[0], cols ) ; |
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169 | // double t2 = 0 ; |
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170 | // double t3 = 0 ; |
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171 | // double t4 = 0 ; |
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172 | // double t5 = 0 ; |
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173 | // TableIterator iter(baset, cols); |
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174 | // int count = 0 ; |
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175 | while (!iter.pastEnd()) { |
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176 | Vector<uInt> rows = iter.getRows( SHARE ) ; |
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177 | if ( rows.nelements() == 0 ) { |
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178 | iter.next() ; |
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179 | continue ; |
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180 | } |
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181 | Vector<uInt> current = iter.current() ; |
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182 | String srcname = iter.getSrcName() ; |
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183 | //Table subt = iter.table(); |
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184 | // copy the first row of this selection into the new table |
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185 | tout.addRow(); |
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186 | // t4 = mathutil::gettimeofday_sec() ; |
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187 | // skip to copy SPECTRA, FLAGTRA, and TSYS since those heavy columns are |
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188 | // overwritten in the following process |
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189 | copyRows( tout, baset, outrowCount, rows[0], 1, False, False, False ) ; |
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190 | // t5 += mathutil::gettimeofday_sec() - t4 ; |
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191 | // re-index to 0 |
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192 | if ( avmode != "SCAN" && avmode != "SOURCE" ) { |
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193 | scanColOut.put(outrowCount, uInt(0)); |
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194 | } |
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195 | |
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196 | // 2012/02/17 TN |
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197 | // Since STGrid is implemented, average doesn't consider direction |
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198 | // when accumulating |
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199 | // MDirection::ScalarColumn dircol ; |
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200 | // dircol.attach( subt, "DIRECTION" ) ; |
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201 | // Int length = subt.nrow() ; |
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202 | // vector< Vector<Double> > dirs ; |
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203 | // vector<int> indexes ; |
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204 | // for ( Int i = 0 ; i < length ; i++ ) { |
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205 | // Vector<Double> t = dircol(i).getAngle(Unit(String("rad"))).getValue() ; |
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206 | // //os << << count++ << ": " ; |
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207 | // //os << "[" << t[0] << "," << t[1] << "]" << LogIO::POST ; |
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208 | // bool adddir = true ; |
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209 | // for ( uInt j = 0 ; j < dirs.size() ; j++ ) { |
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210 | // //if ( allTrue( t == dirs[j] ) ) { |
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211 | // Double dx = t[0] - dirs[j][0] ; |
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212 | // Double dy = t[1] - dirs[j][1] ; |
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213 | // Double dd = sqrt( dx * dx + dy * dy ) ; |
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214 | // //if ( allNearAbs( t, dirs[j], tol ) ) { |
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215 | // if ( dd <= tol ) { |
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216 | // adddir = false ; |
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217 | // break ; |
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218 | // } |
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219 | // } |
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220 | // if ( adddir ) { |
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221 | // dirs.push_back( t ) ; |
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222 | // indexes.push_back( i ) ; |
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223 | // } |
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224 | // } |
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225 | // uInt rowNum = dirs.size() ; |
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226 | // tout.addRow( rowNum ) ; |
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227 | // for ( uInt i = 0 ; i < rowNum ; i++ ) { |
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228 | // TableCopy::copyRows( tout, subt, outrowCount+i, indexes[i], 1 ) ; |
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229 | // // re-index to 0 |
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230 | // if ( avmode != "SCAN" && avmode != "SOURCE" ) { |
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231 | // scanColOut.put(outrowCount+i, uInt(0)); |
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232 | // } |
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233 | // } |
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234 | // outrowCount += rowNum ; |
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235 | |
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236 | // merge loop |
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237 | uInt i = outrowCount ; |
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238 | // in[0] is already selected by iterator |
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239 | specCol.attach(baset,"SPECTRA"); |
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240 | flagCol.attach(baset,"FLAGTRA"); |
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241 | tsysCol.attach(baset,"TSYS"); |
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242 | intCol.attach(baset,"INTERVAL"); |
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243 | mjdCol.attach(baset,"TIME"); |
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244 | flagRowCol.attach(baset,"FLAGROW"); |
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245 | Vector<Float> spec,tsys; |
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246 | Vector<uChar> flag; |
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247 | Double inter,time; |
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248 | uInt flagRow; |
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249 | |
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250 | for (uInt l = 0; l < rows.nelements(); ++l ) { |
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251 | uInt k = rows[l] ; |
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252 | flagCol.get(k, flag); |
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253 | Vector<Bool> bflag(flag.shape()); |
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254 | flagRowCol.get(k, flagRow); |
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255 | if (flagRow > 0) |
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256 | bflag = true; |
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257 | else |
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258 | convertArray(bflag, flag); |
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259 | /* |
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260 | if ( allEQ(bflag, True) ) { |
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261 | continue;//don't accumulate |
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262 | } |
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263 | */ |
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264 | specCol.get(k, spec); |
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265 | tsysCol.get(k, tsys); |
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266 | intCol.get(k, inter); |
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267 | mjdCol.get(k, time); |
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268 | // spectrum has to be added last to enable weighting by the other values |
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269 | // t2 = mathutil::gettimeofday_sec() ; |
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270 | acc.add(spec, !bflag, tsys, inter, time); |
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271 | // t3 += mathutil::gettimeofday_sec() - t2 ; |
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272 | |
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273 | } |
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274 | |
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275 | |
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276 | // in[0] is already selected by TableIterator so that index is |
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277 | // started from 1 |
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278 | for ( int j=1; j < int(in.size()); ++j ) { |
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279 | const Table& tin = in[j]->table(); |
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280 | //const TableRecord& rec = row.get(i); |
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281 | ROScalarColumn<Double> tmp(tin, "TIME"); |
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282 | Double td;tmp.get(0,td); |
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283 | |
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284 | #if 1 |
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285 | static char const*const colNames1[] = { "IFNO", "BEAMNO", "POLNO" }; |
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286 | //uInt const values1[] = { rec.asuInt("IFNO"), rec.asuInt("BEAMNO"), rec.asuInt("POLNO") }; |
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287 | uInt const values1[] = { current[1], current[0], current[2] }; |
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288 | SingleTypeEqPredicate<uInt, 3> myPred(tin, colNames1, values1); |
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289 | CustomTableExprNodeRep myNodeRep(tin, myPred); |
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290 | myNodeRep.link(); // to avoid automatic delete when myExpr is destructed. |
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291 | CustomTableExprNode myExpr(myNodeRep); |
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292 | Table basesubt = tin(myExpr); |
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293 | #else |
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294 | // Table basesubt = tin( tin.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
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295 | // && tin.col("IFNO") == Int(rec.asuInt("IFNO")) |
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296 | // && tin.col("POLNO") == Int(rec.asuInt("POLNO")) ); |
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297 | Table basesubt = tin( tin.col("BEAMNO") == current[0] |
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298 | && tin.col("IFNO") == current[1] |
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299 | && tin.col("POLNO") == current[2] ); |
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300 | #endif |
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301 | Table subt; |
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302 | if ( avmode == "SOURCE") { |
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303 | // subt = basesubt( basesubt.col("SRCNAME") == rec.asString("SRCNAME")); |
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304 | subt = basesubt( basesubt.col("SRCNAME") == srcname ); |
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305 | |
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306 | } else if (avmode == "SCAN") { |
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307 | // subt = basesubt( basesubt.col("SRCNAME") == rec.asString("SRCNAME") |
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308 | // && basesubt.col("SCANNO") == Int(rec.asuInt("SCANNO")) ); |
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309 | subt = basesubt( basesubt.col("SRCNAME") == srcname |
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310 | && basesubt.col("SCANNO") == current[4] ); |
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311 | } else { |
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312 | subt = basesubt; |
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313 | } |
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314 | |
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315 | // 2012/02/17 TN |
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316 | // Since STGrid is implemented, average doesn't consider direction |
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317 | // when accumulating |
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318 | // vector<uInt> removeRows ; |
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319 | // uInt nrsubt = subt.nrow() ; |
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320 | // for ( uInt irow = 0 ; irow < nrsubt ; irow++ ) { |
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321 | // //if ( !allTrue((subt.col("DIRECTION").getArrayDouble(TableExprId(irow)))==rec.asArrayDouble("DIRECTION")) ) { |
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322 | // Vector<Double> x0 = (subt.col("DIRECTION").getArrayDouble(TableExprId(irow))) ; |
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323 | // Vector<Double> x1 = rec.asArrayDouble("DIRECTION") ; |
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324 | // double dx = x0[0] - x1[0]; |
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325 | // double dy = x0[1] - x1[1]; |
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326 | // Double dd = sqrt( dx * dx + dy * dy ) ; |
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327 | // //if ( !allNearAbs((subt.col("DIRECTION").getArrayDouble(TableExprId(irow))), rec.asArrayDouble("DIRECTION"), tol ) ) { |
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328 | // if ( dd > tol ) { |
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329 | // removeRows.push_back( irow ) ; |
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330 | // } |
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331 | // } |
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332 | // if ( removeRows.size() != 0 ) { |
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333 | // subt.removeRow( removeRows ) ; |
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334 | // } |
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335 | |
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336 | // if ( nrsubt == removeRows.size() ) |
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337 | // throw(AipsError("Averaging data is empty.")) ; |
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338 | |
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339 | specCol.attach(subt,"SPECTRA"); |
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340 | flagCol.attach(subt,"FLAGTRA"); |
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341 | tsysCol.attach(subt,"TSYS"); |
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342 | intCol.attach(subt,"INTERVAL"); |
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343 | mjdCol.attach(subt,"TIME"); |
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344 | flagRowCol.attach(subt,"FLAGROW"); |
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345 | for (uInt k = 0; k < subt.nrow(); ++k ) { |
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346 | flagCol.get(k, flag); |
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347 | Vector<Bool> bflag(flag.shape()); |
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348 | flagRowCol.get(k, flagRow); |
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349 | if (flagRow > 0) |
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350 | bflag = true; |
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351 | else |
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352 | convertArray(bflag, flag); |
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353 | /* |
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354 | if ( allEQ(bflag, True) ) { |
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355 | continue;//don't accumulate |
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356 | } |
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357 | */ |
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358 | specCol.get(k, spec); |
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359 | //tsysCol.get(k, tsys); |
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360 | tsys.assign( tsysCol(k) ); |
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361 | intCol.get(k, inter); |
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362 | mjdCol.get(k, time); |
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363 | // spectrum has to be added last to enable weighting by the other values |
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364 | // t2 = mathutil::gettimeofday_sec() ; |
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365 | acc.add(spec, !bflag, tsys, inter, time); |
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366 | // t3 += mathutil::gettimeofday_sec() - t2 ; |
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367 | } |
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368 | |
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369 | } |
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370 | const Vector<Bool>& msk = acc.getMask(); |
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371 | if ( allEQ(msk, False) ) { |
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372 | rowstodelB[nrowdel] = i ; |
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373 | nrowdel++ ; |
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374 | continue; |
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375 | } |
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376 | //write out |
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377 | if (acc.state()) { |
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378 | // If there exists a channel at which all the input spectra are masked, |
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379 | // spec has 'nan' values for that channel and it may affect the following |
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380 | // processes. To avoid this, replacing 'nan' values in spec with |
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381 | // weighted-mean of all spectra in the following line. |
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382 | // (done for CAS-2776, 2011/04/07 by Wataru Kawasaki) |
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383 | acc.replaceNaN(); |
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384 | |
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385 | Vector<uChar> flg(msk.shape()); |
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386 | convertArray(flg, !msk); |
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387 | for (uInt k = 0; k < flg.nelements(); ++k) { |
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388 | uChar userFlag = 1 << 7; |
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389 | if (msk[k]==True) userFlag = 0 << 7; |
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390 | flg(k) = userFlag; |
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391 | } |
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392 | |
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393 | flagColOut.put(i, flg); |
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394 | specColOut.put(i, acc.getSpectrum()); |
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395 | tsysColOut.put(i, acc.getTsys()); |
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396 | intColOut.put(i, acc.getInterval()); |
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397 | mjdColOut.put(i, acc.getTime()); |
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398 | // we should only have one cycle now -> reset it to be 0 |
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399 | // frequency switched data has different CYCLENO for different IFNO |
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400 | // which requires resetting this value |
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401 | cycColOut.put(i, uInt(0)); |
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402 | // completely flagged rows are removed anyway |
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403 | flagRowColOut.put(i, uInt(0)); |
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404 | } else { |
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405 | os << "For output row="<<i<<", all input rows of data are flagged. no averaging" << LogIO::POST; |
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406 | } |
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407 | acc.reset(); |
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408 | |
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409 | // merge with while loop for preparing out table |
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410 | ++outrowCount; |
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411 | // ++iter ; |
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412 | iter.next() ; |
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413 | } |
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414 | |
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415 | if ( nrowdel > 0 ) { |
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416 | Vector<uInt> rowstodelete( IPosition(1,nrowdel), rowstodelB.storage(), SHARE ) ; |
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417 | os << rowstodelete << LogIO::POST ; |
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418 | tout.removeRow(rowstodelete); |
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419 | if (tout.nrow() == 0) { |
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420 | throw(AipsError("Can't average fully flagged data.")); |
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421 | } |
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422 | } |
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423 | |
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424 | // t1 = mathutil::gettimeofday_sec() ; |
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425 | // cout << "elapsed time for average(): " << t1-t0 << " sec" << endl ; |
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426 | // cout << " elapsed time for acc.add(): " << t3 << " sec" << endl ; |
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427 | // cout << " elapsed time for copyRows(): " << t5 << " sec" << endl ; |
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428 | |
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429 | return out; |
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430 | } |
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431 | |
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432 | CountedPtr< Scantable > |
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433 | STMath::averageChannel( const CountedPtr < Scantable > & in, |
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434 | const std::string & mode, |
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435 | const std::string& avmode ) |
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436 | { |
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437 | (void) mode; // currently unused |
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438 | // 2012/02/17 TN |
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439 | // Since STGrid is implemented, average doesn't consider direction |
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440 | // when accumulating |
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441 | // check if OTF observation |
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442 | // String obstype = in->getHeader().obstype ; |
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443 | // Double tol = 0.0 ; |
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444 | // if ( obstype.find( "OTF" ) != String::npos ) { |
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445 | // tol = TOL_OTF ; |
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446 | // } |
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447 | // else { |
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448 | // tol = TOL_POINT ; |
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449 | // } |
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450 | |
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451 | // clone as this is non insitu |
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452 | bool insitu = insitu_; |
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453 | setInsitu(false); |
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454 | CountedPtr< Scantable > out = getScantable(in, true); |
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455 | setInsitu(insitu); |
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456 | Table& tout = out->table(); |
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457 | ArrayColumn<Float> specColOut(tout,"SPECTRA"); |
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458 | ArrayColumn<uChar> flagColOut(tout,"FLAGTRA"); |
---|
459 | ArrayColumn<Float> tsysColOut(tout,"TSYS"); |
---|
460 | ScalarColumn<uInt> scanColOut(tout,"SCANNO"); |
---|
461 | ScalarColumn<Double> intColOut(tout, "INTERVAL"); |
---|
462 | Table tmp = in->table().sort("BEAMNO"); |
---|
463 | Block<String> cols(3); |
---|
464 | cols[0] = String("BEAMNO"); |
---|
465 | cols[1] = String("IFNO"); |
---|
466 | cols[2] = String("POLNO"); |
---|
467 | if ( avmode == "SCAN") { |
---|
468 | cols.resize(4); |
---|
469 | cols[3] = String("SCANNO"); |
---|
470 | } |
---|
471 | uInt outrowCount = 0; |
---|
472 | uChar userflag = 1 << 7; |
---|
473 | TableIterator iter(tmp, cols); |
---|
474 | while (!iter.pastEnd()) { |
---|
475 | Table subt = iter.table(); |
---|
476 | ROArrayColumn<Float> specCol, tsysCol; |
---|
477 | ROArrayColumn<uChar> flagCol; |
---|
478 | ROScalarColumn<Double> intCol(subt, "INTERVAL"); |
---|
479 | specCol.attach(subt,"SPECTRA"); |
---|
480 | flagCol.attach(subt,"FLAGTRA"); |
---|
481 | tsysCol.attach(subt,"TSYS"); |
---|
482 | |
---|
483 | tout.addRow(); |
---|
484 | TableCopy::copyRows(tout, subt, outrowCount, 0, 1); |
---|
485 | if ( avmode != "SCAN") { |
---|
486 | scanColOut.put(outrowCount, uInt(0)); |
---|
487 | } |
---|
488 | Vector<Float> tmp; |
---|
489 | specCol.get(0, tmp); |
---|
490 | uInt nchan = tmp.nelements(); |
---|
491 | // have to do channel by channel here as MaskedArrMath |
---|
492 | // doesn't have partialMedians |
---|
493 | Vector<uChar> flags = flagCol.getColumn(Slicer(Slice(0))); |
---|
494 | Vector<Float> outspec(nchan); |
---|
495 | Vector<uChar> outflag(nchan,0); |
---|
496 | Vector<Float> outtsys(1);/// @fixme when tsys is channel based |
---|
497 | for (uInt i=0; i<nchan; ++i) { |
---|
498 | Vector<Float> specs = specCol.getColumn(Slicer(Slice(i))); |
---|
499 | MaskedArray<Float> ma = maskedArray(specs,flags); |
---|
500 | outspec[i] = median(ma); |
---|
501 | if ( allEQ(ma.getMask(), False) ) |
---|
502 | outflag[i] = userflag;// flag data |
---|
503 | } |
---|
504 | outtsys[0] = median(tsysCol.getColumn()); |
---|
505 | specColOut.put(outrowCount, outspec); |
---|
506 | flagColOut.put(outrowCount, outflag); |
---|
507 | tsysColOut.put(outrowCount, outtsys); |
---|
508 | Double intsum = sum(intCol.getColumn()); |
---|
509 | intColOut.put(outrowCount, intsum); |
---|
510 | ++outrowCount; |
---|
511 | ++iter; |
---|
512 | |
---|
513 | // 2012/02/17 TN |
---|
514 | // Since STGrid is implemented, average doesn't consider direction |
---|
515 | // when accumulating |
---|
516 | // MDirection::ScalarColumn dircol ; |
---|
517 | // dircol.attach( subt, "DIRECTION" ) ; |
---|
518 | // Int length = subt.nrow() ; |
---|
519 | // vector< Vector<Double> > dirs ; |
---|
520 | // vector<int> indexes ; |
---|
521 | // // Handle MX mode averaging |
---|
522 | // if (in->nbeam() > 1 ) { |
---|
523 | // length = 1; |
---|
524 | // } |
---|
525 | // for ( Int i = 0 ; i < length ; i++ ) { |
---|
526 | // Vector<Double> t = dircol(i).getAngle(Unit(String("rad"))).getValue() ; |
---|
527 | // bool adddir = true ; |
---|
528 | // for ( uInt j = 0 ; j < dirs.size() ; j++ ) { |
---|
529 | // //if ( allTrue( t == dirs[j] ) ) { |
---|
530 | // Double dx = t[0] - dirs[j][0] ; |
---|
531 | // Double dy = t[1] - dirs[j][1] ; |
---|
532 | // Double dd = sqrt( dx * dx + dy * dy ) ; |
---|
533 | // //if ( allNearAbs( t, dirs[j], tol ) ) { |
---|
534 | // if ( dd <= tol ) { |
---|
535 | // adddir = false ; |
---|
536 | // break ; |
---|
537 | // } |
---|
538 | // } |
---|
539 | // if ( adddir ) { |
---|
540 | // dirs.push_back( t ) ; |
---|
541 | // indexes.push_back( i ) ; |
---|
542 | // } |
---|
543 | // } |
---|
544 | // uInt rowNum = dirs.size() ; |
---|
545 | // tout.addRow( rowNum ); |
---|
546 | // for ( uInt i = 0 ; i < rowNum ; i++ ) { |
---|
547 | // TableCopy::copyRows(tout, subt, outrowCount+i, indexes[i], 1) ; |
---|
548 | // // Handle MX mode averaging |
---|
549 | // if ( avmode != "SCAN") { |
---|
550 | // scanColOut.put(outrowCount+i, uInt(0)); |
---|
551 | // } |
---|
552 | // } |
---|
553 | // MDirection::ScalarColumn dircolOut ; |
---|
554 | // dircolOut.attach( tout, "DIRECTION" ) ; |
---|
555 | // for ( uInt irow = 0 ; irow < rowNum ; irow++ ) { |
---|
556 | // Vector<Double> t = \ |
---|
557 | // dircolOut(outrowCount+irow).getAngle(Unit(String("rad"))).getValue() ; |
---|
558 | // Vector<Float> tmp; |
---|
559 | // specCol.get(0, tmp); |
---|
560 | // uInt nchan = tmp.nelements(); |
---|
561 | // // have to do channel by channel here as MaskedArrMath |
---|
562 | // // doesn't have partialMedians |
---|
563 | // Vector<uChar> flags = flagCol.getColumn(Slicer(Slice(0))); |
---|
564 | // // mask spectra for different DIRECTION |
---|
565 | // for ( uInt jrow = 0 ; jrow < subt.nrow() ; jrow++ ) { |
---|
566 | // Vector<Double> direction = \ |
---|
567 | // dircol(jrow).getAngle(Unit(String("rad"))).getValue() ; |
---|
568 | // //if ( t[0] != direction[0] || t[1] != direction[1] ) { |
---|
569 | // Double dx = t[0] - direction[0]; |
---|
570 | // Double dy = t[1] - direction[1]; |
---|
571 | // Double dd = sqrt(dx*dx + dy*dy); |
---|
572 | // //if ( !allNearAbs( t, direction, tol ) ) { |
---|
573 | // if ( dd > tol && in->nbeam() < 2 ) { |
---|
574 | // flags[jrow] = userflag ; |
---|
575 | // } |
---|
576 | // } |
---|
577 | // Vector<Float> outspec(nchan); |
---|
578 | // Vector<uChar> outflag(nchan,0); |
---|
579 | // Vector<Float> outtsys(1);/// @fixme when tsys is channel based |
---|
580 | // for (uInt i=0; i<nchan; ++i) { |
---|
581 | // Vector<Float> specs = specCol.getColumn(Slicer(Slice(i))); |
---|
582 | // MaskedArray<Float> ma = maskedArray(specs,flags); |
---|
583 | // outspec[i] = median(ma); |
---|
584 | // if ( allEQ(ma.getMask(), False) ) |
---|
585 | // outflag[i] = userflag;// flag data |
---|
586 | // } |
---|
587 | // outtsys[0] = median(tsysCol.getColumn()); |
---|
588 | // specColOut.put(outrowCount+irow, outspec); |
---|
589 | // flagColOut.put(outrowCount+irow, outflag); |
---|
590 | // tsysColOut.put(outrowCount+irow, outtsys); |
---|
591 | // Vector<Double> integ = intCol.getColumn() ; |
---|
592 | // MaskedArray<Double> mi = maskedArray( integ, flags ) ; |
---|
593 | // Double intsum = sum(mi); |
---|
594 | // intColOut.put(outrowCount+irow, intsum); |
---|
595 | // } |
---|
596 | // outrowCount += rowNum ; |
---|
597 | // ++iter; |
---|
598 | } |
---|
599 | return out; |
---|
600 | } |
---|
601 | |
---|
602 | CountedPtr< Scantable > STMath::getScantable(const CountedPtr< Scantable >& in, |
---|
603 | bool droprows) |
---|
604 | { |
---|
605 | if (insitu_) { |
---|
606 | return in; |
---|
607 | } |
---|
608 | else { |
---|
609 | // clone |
---|
610 | return CountedPtr<Scantable>(new Scantable(*in, Bool(droprows))); |
---|
611 | } |
---|
612 | } |
---|
613 | |
---|
614 | CountedPtr< Scantable > STMath::unaryOperate( const CountedPtr< Scantable >& in, |
---|
615 | float val, |
---|
616 | const std::string& mode, |
---|
617 | bool tsys ) |
---|
618 | { |
---|
619 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
620 | Table& tab = out->table(); |
---|
621 | ArrayColumn<Float> specCol(tab,"SPECTRA"); |
---|
622 | ArrayColumn<Float> tsysCol(tab,"TSYS"); |
---|
623 | if (mode=="DIV") val = 1.0/val ; |
---|
624 | else if (mode=="SUB") val *= -1.0 ; |
---|
625 | for (uInt i=0; i<tab.nrow(); ++i) { |
---|
626 | Vector<Float> spec; |
---|
627 | Vector<Float> ts; |
---|
628 | specCol.get(i, spec); |
---|
629 | tsysCol.get(i, ts); |
---|
630 | if (mode == "MUL" || mode == "DIV") { |
---|
631 | //if (mode == "DIV") val = 1.0/val; |
---|
632 | spec *= val; |
---|
633 | specCol.put(i, spec); |
---|
634 | if ( tsys ) { |
---|
635 | ts *= val; |
---|
636 | tsysCol.put(i, ts); |
---|
637 | } |
---|
638 | } else if ( mode == "ADD" || mode == "SUB") { |
---|
639 | //if (mode == "SUB") val *= -1.0; |
---|
640 | spec += val; |
---|
641 | specCol.put(i, spec); |
---|
642 | if ( tsys ) { |
---|
643 | ts += val; |
---|
644 | tsysCol.put(i, ts); |
---|
645 | } |
---|
646 | } |
---|
647 | } |
---|
648 | return out; |
---|
649 | } |
---|
650 | |
---|
651 | CountedPtr< Scantable > STMath::arrayOperate( const CountedPtr< Scantable >& in, |
---|
652 | const std::vector<float> val, |
---|
653 | const std::string& mode, |
---|
654 | const std::string& opmode, |
---|
655 | bool tsys ) |
---|
656 | { |
---|
657 | CountedPtr< Scantable > out ; |
---|
658 | if ( opmode == "channel" ) { |
---|
659 | out = arrayOperateChannel( in, val, mode, tsys ) ; |
---|
660 | } |
---|
661 | else if ( opmode == "row" ) { |
---|
662 | out = arrayOperateRow( in, val, mode, tsys ) ; |
---|
663 | } |
---|
664 | else { |
---|
665 | throw( AipsError( "Unknown array operation mode." ) ) ; |
---|
666 | } |
---|
667 | return out ; |
---|
668 | } |
---|
669 | |
---|
670 | CountedPtr< Scantable > STMath::arrayOperateChannel( const CountedPtr< Scantable >& in, |
---|
671 | const std::vector<float> val, |
---|
672 | const std::string& mode, |
---|
673 | bool tsys ) |
---|
674 | { |
---|
675 | if ( val.size() == 1 ){ |
---|
676 | return unaryOperate( in, val[0], mode, tsys ) ; |
---|
677 | } |
---|
678 | |
---|
679 | // conformity of SPECTRA and TSYS |
---|
680 | if ( tsys ) { |
---|
681 | TableIterator titer(in->table(), "IFNO"); |
---|
682 | while ( !titer.pastEnd() ) { |
---|
683 | ArrayColumn<Float> specCol( in->table(), "SPECTRA" ) ; |
---|
684 | ArrayColumn<Float> tsysCol( in->table(), "TSYS" ) ; |
---|
685 | Array<Float> spec = specCol.getColumn() ; |
---|
686 | Array<Float> ts = tsysCol.getColumn() ; |
---|
687 | if ( !spec.conform( ts ) ) { |
---|
688 | throw( AipsError( "SPECTRA and TSYS must conform in shape if you want to apply operation on Tsys." ) ) ; |
---|
689 | } |
---|
690 | titer.next() ; |
---|
691 | } |
---|
692 | } |
---|
693 | |
---|
694 | // check if all spectra in the scantable have the same number of channel |
---|
695 | vector<uInt> nchans; |
---|
696 | vector<uInt> ifnos = in->getIFNos() ; |
---|
697 | for ( uInt i = 0 ; i < ifnos.size() ; i++ ) { |
---|
698 | nchans.push_back( in->nchan( ifnos[i] ) ) ; |
---|
699 | } |
---|
700 | Vector<uInt> mchans( nchans ) ; |
---|
701 | if ( anyNE( mchans, mchans[0] ) ) { |
---|
702 | throw( AipsError("All spectra in the input scantable must have the same number of channel for vector operation." ) ) ; |
---|
703 | } |
---|
704 | |
---|
705 | // check if vector size is equal to nchan |
---|
706 | Vector<Float> fact( val ) ; |
---|
707 | if ( fact.nelements() != mchans[0] ) { |
---|
708 | throw( AipsError("Vector size must be 1 or be same as number of channel.") ) ; |
---|
709 | } |
---|
710 | |
---|
711 | // check divided by zero |
---|
712 | if ( ( mode == "DIV" ) && anyEQ( fact, (float)0.0 ) ) { |
---|
713 | throw( AipsError("Divided by zero is not recommended." ) ) ; |
---|
714 | } |
---|
715 | |
---|
716 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
717 | Table& tab = out->table(); |
---|
718 | ArrayColumn<Float> specCol(tab,"SPECTRA"); |
---|
719 | ArrayColumn<Float> tsysCol(tab,"TSYS"); |
---|
720 | if (mode == "DIV") fact = (float)1.0 / fact; |
---|
721 | else if (mode == "SUB") fact *= (float)-1.0 ; |
---|
722 | for (uInt i=0; i<tab.nrow(); ++i) { |
---|
723 | Vector<Float> spec; |
---|
724 | Vector<Float> ts; |
---|
725 | specCol.get(i, spec); |
---|
726 | tsysCol.get(i, ts); |
---|
727 | if (mode == "MUL" || mode == "DIV") { |
---|
728 | //if (mode == "DIV") fact = (float)1.0 / fact; |
---|
729 | spec *= fact; |
---|
730 | specCol.put(i, spec); |
---|
731 | if ( tsys ) { |
---|
732 | ts *= fact; |
---|
733 | tsysCol.put(i, ts); |
---|
734 | } |
---|
735 | } else if ( mode == "ADD" || mode == "SUB") { |
---|
736 | //if (mode == "SUB") fact *= (float)-1.0 ; |
---|
737 | spec += fact; |
---|
738 | specCol.put(i, spec); |
---|
739 | if ( tsys ) { |
---|
740 | ts += fact; |
---|
741 | tsysCol.put(i, ts); |
---|
742 | } |
---|
743 | } |
---|
744 | } |
---|
745 | return out; |
---|
746 | } |
---|
747 | |
---|
748 | CountedPtr< Scantable > STMath::arrayOperateRow( const CountedPtr< Scantable >& in, |
---|
749 | const std::vector<float> val, |
---|
750 | const std::string& mode, |
---|
751 | bool tsys ) |
---|
752 | { |
---|
753 | if ( val.size() == 1 ) { |
---|
754 | return unaryOperate( in, val[0], mode, tsys ) ; |
---|
755 | } |
---|
756 | |
---|
757 | // conformity of SPECTRA and TSYS |
---|
758 | if ( tsys ) { |
---|
759 | TableIterator titer(in->table(), "IFNO"); |
---|
760 | while ( !titer.pastEnd() ) { |
---|
761 | ArrayColumn<Float> specCol( in->table(), "SPECTRA" ) ; |
---|
762 | ArrayColumn<Float> tsysCol( in->table(), "TSYS" ) ; |
---|
763 | Array<Float> spec = specCol.getColumn() ; |
---|
764 | Array<Float> ts = tsysCol.getColumn() ; |
---|
765 | if ( !spec.conform( ts ) ) { |
---|
766 | throw( AipsError( "SPECTRA and TSYS must conform in shape if you want to apply operation on Tsys." ) ) ; |
---|
767 | } |
---|
768 | titer.next() ; |
---|
769 | } |
---|
770 | } |
---|
771 | |
---|
772 | // check if vector size is equal to nrow |
---|
773 | Vector<Float> fact( val ) ; |
---|
774 | if (fact.nelements() != uInt(in->nrow())) { |
---|
775 | throw( AipsError("Vector size must be 1 or be same as number of row.") ) ; |
---|
776 | } |
---|
777 | |
---|
778 | // check divided by zero |
---|
779 | if ( ( mode == "DIV" ) && anyEQ( fact, (float)0.0 ) ) { |
---|
780 | throw( AipsError("Divided by zero is not recommended." ) ) ; |
---|
781 | } |
---|
782 | |
---|
783 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
784 | Table& tab = out->table(); |
---|
785 | ArrayColumn<Float> specCol(tab,"SPECTRA"); |
---|
786 | ArrayColumn<Float> tsysCol(tab,"TSYS"); |
---|
787 | if (mode == "DIV") fact = (float)1.0 / fact; |
---|
788 | if (mode == "SUB") fact *= (float)-1.0 ; |
---|
789 | for (uInt i=0; i<tab.nrow(); ++i) { |
---|
790 | Vector<Float> spec; |
---|
791 | Vector<Float> ts; |
---|
792 | specCol.get(i, spec); |
---|
793 | tsysCol.get(i, ts); |
---|
794 | if (mode == "MUL" || mode == "DIV") { |
---|
795 | spec *= fact[i]; |
---|
796 | specCol.put(i, spec); |
---|
797 | if ( tsys ) { |
---|
798 | ts *= fact[i]; |
---|
799 | tsysCol.put(i, ts); |
---|
800 | } |
---|
801 | } else if ( mode == "ADD" || mode == "SUB") { |
---|
802 | spec += fact[i]; |
---|
803 | specCol.put(i, spec); |
---|
804 | if ( tsys ) { |
---|
805 | ts += fact[i]; |
---|
806 | tsysCol.put(i, ts); |
---|
807 | } |
---|
808 | } |
---|
809 | } |
---|
810 | return out; |
---|
811 | } |
---|
812 | |
---|
813 | CountedPtr< Scantable > STMath::array2dOperate( const CountedPtr< Scantable >& in, |
---|
814 | const std::vector< std::vector<float> > val, |
---|
815 | const std::string& mode, |
---|
816 | bool tsys ) |
---|
817 | { |
---|
818 | // conformity of SPECTRA and TSYS |
---|
819 | if ( tsys ) { |
---|
820 | TableIterator titer(in->table(), "IFNO"); |
---|
821 | while ( !titer.pastEnd() ) { |
---|
822 | ArrayColumn<Float> specCol( in->table(), "SPECTRA" ) ; |
---|
823 | ArrayColumn<Float> tsysCol( in->table(), "TSYS" ) ; |
---|
824 | Array<Float> spec = specCol.getColumn() ; |
---|
825 | Array<Float> ts = tsysCol.getColumn() ; |
---|
826 | if ( !spec.conform( ts ) ) { |
---|
827 | throw( AipsError( "SPECTRA and TSYS must conform in shape if you want to apply operation on Tsys." ) ) ; |
---|
828 | } |
---|
829 | titer.next() ; |
---|
830 | } |
---|
831 | } |
---|
832 | |
---|
833 | // some checks |
---|
834 | vector<uInt> nchans; |
---|
835 | for (Int i = 0 ; i < in->nrow() ; i++) { |
---|
836 | nchans.push_back((in->getSpectrum(i)).size()); |
---|
837 | } |
---|
838 | //Vector<uInt> mchans( nchans ) ; |
---|
839 | vector< Vector<Float> > facts ; |
---|
840 | for ( uInt i = 0 ; i < nchans.size() ; i++ ) { |
---|
841 | Vector<Float> tmp( val[i] ) ; |
---|
842 | // check divided by zero |
---|
843 | if ( ( mode == "DIV" ) && anyEQ( tmp, (float)0.0 ) ) { |
---|
844 | throw( AipsError("Divided by zero is not recommended." ) ) ; |
---|
845 | } |
---|
846 | // conformity check |
---|
847 | if ( tmp.nelements() != nchans[i] ) { |
---|
848 | stringstream ss ; |
---|
849 | ss << "Row " << i << ": Vector size must be same as number of channel." ; |
---|
850 | throw( AipsError( ss.str() ) ) ; |
---|
851 | } |
---|
852 | facts.push_back( tmp ) ; |
---|
853 | } |
---|
854 | |
---|
855 | |
---|
856 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
857 | Table& tab = out->table(); |
---|
858 | ArrayColumn<Float> specCol(tab,"SPECTRA"); |
---|
859 | ArrayColumn<Float> tsysCol(tab,"TSYS"); |
---|
860 | for (uInt i=0; i<tab.nrow(); ++i) { |
---|
861 | Vector<Float> fact = facts[i] ; |
---|
862 | Vector<Float> spec; |
---|
863 | Vector<Float> ts; |
---|
864 | specCol.get(i, spec); |
---|
865 | tsysCol.get(i, ts); |
---|
866 | if (mode == "MUL" || mode == "DIV") { |
---|
867 | if (mode == "DIV") fact = (float)1.0 / fact; |
---|
868 | spec *= fact; |
---|
869 | specCol.put(i, spec); |
---|
870 | if ( tsys ) { |
---|
871 | ts *= fact; |
---|
872 | tsysCol.put(i, ts); |
---|
873 | } |
---|
874 | } else if ( mode == "ADD" || mode == "SUB") { |
---|
875 | if (mode == "SUB") fact *= (float)-1.0 ; |
---|
876 | spec += fact; |
---|
877 | specCol.put(i, spec); |
---|
878 | if ( tsys ) { |
---|
879 | ts += fact; |
---|
880 | tsysCol.put(i, ts); |
---|
881 | } |
---|
882 | } |
---|
883 | } |
---|
884 | return out; |
---|
885 | } |
---|
886 | |
---|
887 | CountedPtr<Scantable> STMath::binaryOperate(const CountedPtr<Scantable>& left, |
---|
888 | const CountedPtr<Scantable>& right, |
---|
889 | const std::string& mode) |
---|
890 | { |
---|
891 | bool insitu = insitu_; |
---|
892 | if ( ! left->conformant(*right) ) { |
---|
893 | throw(AipsError("'left' and 'right' scantables are not conformant.")); |
---|
894 | } |
---|
895 | setInsitu(false); |
---|
896 | CountedPtr< Scantable > out = getScantable(left, false); |
---|
897 | setInsitu(insitu); |
---|
898 | Table& tout = out->table(); |
---|
899 | Block<String> coln(5); |
---|
900 | coln[0] = "SCANNO"; coln[1] = "CYCLENO"; coln[2] = "BEAMNO"; |
---|
901 | coln[3] = "IFNO"; coln[4] = "POLNO"; |
---|
902 | Table tmpl = tout.sort(coln); |
---|
903 | Table tmpr = right->table().sort(coln); |
---|
904 | ArrayColumn<Float> lspecCol(tmpl,"SPECTRA"); |
---|
905 | ROArrayColumn<Float> rspecCol(tmpr,"SPECTRA"); |
---|
906 | ArrayColumn<uChar> lflagCol(tmpl,"FLAGTRA"); |
---|
907 | ROArrayColumn<uChar> rflagCol(tmpr,"FLAGTRA"); |
---|
908 | |
---|
909 | for (uInt i=0; i<tout.nrow(); ++i) { |
---|
910 | Vector<Float> lspecvec, rspecvec; |
---|
911 | Vector<uChar> lflagvec, rflagvec; |
---|
912 | lspecvec = lspecCol(i); rspecvec = rspecCol(i); |
---|
913 | lflagvec = lflagCol(i); rflagvec = rflagCol(i); |
---|
914 | MaskedArray<Float> mleft = maskedArray(lspecvec, lflagvec); |
---|
915 | MaskedArray<Float> mright = maskedArray(rspecvec, rflagvec); |
---|
916 | if (mode == "ADD") { |
---|
917 | mleft += mright; |
---|
918 | } else if ( mode == "SUB") { |
---|
919 | mleft -= mright; |
---|
920 | } else if ( mode == "MUL") { |
---|
921 | mleft *= mright; |
---|
922 | } else if ( mode == "DIV") { |
---|
923 | mleft /= mright; |
---|
924 | } else { |
---|
925 | throw(AipsError("Illegal binary operator")); |
---|
926 | } |
---|
927 | lspecCol.put(i, mleft.getArray()); |
---|
928 | } |
---|
929 | return out; |
---|
930 | } |
---|
931 | |
---|
932 | |
---|
933 | |
---|
934 | MaskedArray<Float> STMath::maskedArray( const Vector<Float>& s, |
---|
935 | const Vector<uChar>& f) |
---|
936 | { |
---|
937 | Vector<Bool> mask; |
---|
938 | mask.resize(f.shape()); |
---|
939 | convertArray(mask, f); |
---|
940 | return MaskedArray<Float>(s,!mask); |
---|
941 | } |
---|
942 | |
---|
943 | MaskedArray<Double> STMath::maskedArray( const Vector<Double>& s, |
---|
944 | const Vector<uChar>& f) |
---|
945 | { |
---|
946 | Vector<Bool> mask; |
---|
947 | mask.resize(f.shape()); |
---|
948 | convertArray(mask, f); |
---|
949 | return MaskedArray<Double>(s,!mask); |
---|
950 | } |
---|
951 | |
---|
952 | Vector<uChar> STMath::flagsFromMA(const MaskedArray<Float>& ma) |
---|
953 | { |
---|
954 | const Vector<Bool>& m = ma.getMask(); |
---|
955 | Vector<uChar> flags(m.shape()); |
---|
956 | convertArray(flags, !m); |
---|
957 | return flags; |
---|
958 | } |
---|
959 | |
---|
960 | CountedPtr< Scantable > STMath::autoQuotient( const CountedPtr< Scantable >& in, |
---|
961 | const std::string & mode, |
---|
962 | bool preserve ) |
---|
963 | { |
---|
964 | /// @todo make other modes available |
---|
965 | /// modes should be "nearest", "pair" |
---|
966 | // make this operation non insitu |
---|
967 | (void) mode; //currently unused |
---|
968 | const Table& tin = in->table(); |
---|
969 | Table ons = tin(tin.col("SRCTYPE") == Int(SrcType::PSON)); |
---|
970 | Table offs = tin(tin.col("SRCTYPE") == Int(SrcType::PSOFF)); |
---|
971 | if ( offs.nrow() == 0 ) |
---|
972 | throw(AipsError("No 'off' scans present.")); |
---|
973 | // put all "on" scans into output table |
---|
974 | |
---|
975 | bool insitu = insitu_; |
---|
976 | setInsitu(false); |
---|
977 | CountedPtr< Scantable > out = getScantable(in, true); |
---|
978 | setInsitu(insitu); |
---|
979 | Table& tout = out->table(); |
---|
980 | |
---|
981 | TableCopy::copyRows(tout, ons); |
---|
982 | TableRow row(tout); |
---|
983 | ROScalarColumn<Double> offtimeCol(offs, "TIME"); |
---|
984 | ArrayColumn<Float> outspecCol(tout, "SPECTRA"); |
---|
985 | ROArrayColumn<Float> outtsysCol(tout, "TSYS"); |
---|
986 | ArrayColumn<uChar> outflagCol(tout, "FLAGTRA"); |
---|
987 | for (uInt i=0; i < tout.nrow(); ++i) { |
---|
988 | const TableRecord& rec = row.get(i); |
---|
989 | Double ontime = rec.asDouble("TIME"); |
---|
990 | Table presel = offs(offs.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
991 | && offs.col("IFNO") == Int(rec.asuInt("IFNO")) |
---|
992 | && offs.col("POLNO") == Int(rec.asuInt("POLNO")) ); |
---|
993 | ROScalarColumn<Double> offtimeCol(presel, "TIME"); |
---|
994 | |
---|
995 | Double mindeltat = min(abs(offtimeCol.getColumn() - ontime)); |
---|
996 | // Timestamp may vary within a cycle ???!!! |
---|
997 | // increase this by 0.01 sec in case of rounding errors... |
---|
998 | // There might be a better way to do this. |
---|
999 | // fix to this fix. TIME is MJD, so 1.0d not 1.0s |
---|
1000 | mindeltat += 0.01/24./60./60.; |
---|
1001 | Table sel = presel( abs(presel.col("TIME")-ontime) <= mindeltat); |
---|
1002 | |
---|
1003 | if ( sel.nrow() < 1 ) { |
---|
1004 | throw(AipsError("No closest in time found... This could be a rounding " |
---|
1005 | "issue. Try quotient instead.")); |
---|
1006 | } |
---|
1007 | TableRow offrow(sel); |
---|
1008 | const TableRecord& offrec = offrow.get(0);//should only be one row |
---|
1009 | RORecordFieldPtr< Array<Float> > specoff(offrec, "SPECTRA"); |
---|
1010 | RORecordFieldPtr< Array<Float> > tsysoff(offrec, "TSYS"); |
---|
1011 | RORecordFieldPtr< Array<uChar> > flagoff(offrec, "FLAGTRA"); |
---|
1012 | /// @fixme this assumes tsys is a scalar not vector |
---|
1013 | Float tsysoffscalar = (*tsysoff)(IPosition(1,0)); |
---|
1014 | Vector<Float> specon, tsyson; |
---|
1015 | outtsysCol.get(i, tsyson); |
---|
1016 | outspecCol.get(i, specon); |
---|
1017 | Vector<uChar> flagon; |
---|
1018 | outflagCol.get(i, flagon); |
---|
1019 | MaskedArray<Float> mon = maskedArray(specon, flagon); |
---|
1020 | MaskedArray<Float> moff = maskedArray(*specoff, *flagoff); |
---|
1021 | MaskedArray<Float> quot = (tsysoffscalar * mon / moff); |
---|
1022 | if (preserve) { |
---|
1023 | quot -= tsysoffscalar; |
---|
1024 | } else { |
---|
1025 | quot -= tsyson[0]; |
---|
1026 | } |
---|
1027 | outspecCol.put(i, quot.getArray()); |
---|
1028 | outflagCol.put(i, flagsFromMA(quot)); |
---|
1029 | } |
---|
1030 | // renumber scanno |
---|
1031 | TableIterator it(tout, "SCANNO"); |
---|
1032 | uInt i = 0; |
---|
1033 | while ( !it.pastEnd() ) { |
---|
1034 | Table t = it.table(); |
---|
1035 | TableVector<uInt> vec(t, "SCANNO"); |
---|
1036 | vec = i; |
---|
1037 | ++i; |
---|
1038 | ++it; |
---|
1039 | } |
---|
1040 | return out; |
---|
1041 | } |
---|
1042 | |
---|
1043 | |
---|
1044 | CountedPtr< Scantable > STMath::quotient( const CountedPtr< Scantable > & on, |
---|
1045 | const CountedPtr< Scantable > & off, |
---|
1046 | bool preserve ) |
---|
1047 | { |
---|
1048 | bool insitu = insitu_; |
---|
1049 | if ( ! on->conformant(*off) ) { |
---|
1050 | throw(AipsError("'on' and 'off' scantables are not conformant.")); |
---|
1051 | } |
---|
1052 | setInsitu(false); |
---|
1053 | CountedPtr< Scantable > out = getScantable(on, false); |
---|
1054 | setInsitu(insitu); |
---|
1055 | Table& tout = out->table(); |
---|
1056 | const Table& toff = off->table(); |
---|
1057 | TableIterator sit(tout, "SCANNO"); |
---|
1058 | TableIterator s2it(toff, "SCANNO"); |
---|
1059 | while ( !sit.pastEnd() ) { |
---|
1060 | Table ton = sit.table(); |
---|
1061 | TableRow row(ton); |
---|
1062 | Table t = s2it.table(); |
---|
1063 | ArrayColumn<Float> outspecCol(ton, "SPECTRA"); |
---|
1064 | ROArrayColumn<Float> outtsysCol(ton, "TSYS"); |
---|
1065 | ArrayColumn<uChar> outflagCol(ton, "FLAGTRA"); |
---|
1066 | for (uInt i=0; i < ton.nrow(); ++i) { |
---|
1067 | const TableRecord& rec = row.get(i); |
---|
1068 | Table offsel = t( t.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
1069 | && t.col("IFNO") == Int(rec.asuInt("IFNO")) |
---|
1070 | && t.col("POLNO") == Int(rec.asuInt("POLNO")) ); |
---|
1071 | if ( offsel.nrow() == 0 ) |
---|
1072 | throw AipsError("STMath::quotient: no matching off"); |
---|
1073 | TableRow offrow(offsel); |
---|
1074 | const TableRecord& offrec = offrow.get(0);//should be ncycles - take first |
---|
1075 | RORecordFieldPtr< Array<Float> > specoff(offrec, "SPECTRA"); |
---|
1076 | RORecordFieldPtr< Array<Float> > tsysoff(offrec, "TSYS"); |
---|
1077 | RORecordFieldPtr< Array<uChar> > flagoff(offrec, "FLAGTRA"); |
---|
1078 | Float tsysoffscalar = (*tsysoff)(IPosition(1,0)); |
---|
1079 | Vector<Float> specon, tsyson; |
---|
1080 | outtsysCol.get(i, tsyson); |
---|
1081 | outspecCol.get(i, specon); |
---|
1082 | Vector<uChar> flagon; |
---|
1083 | outflagCol.get(i, flagon); |
---|
1084 | MaskedArray<Float> mon = maskedArray(specon, flagon); |
---|
1085 | MaskedArray<Float> moff = maskedArray(*specoff, *flagoff); |
---|
1086 | MaskedArray<Float> quot = (tsysoffscalar * mon / moff); |
---|
1087 | if (preserve) { |
---|
1088 | quot -= tsysoffscalar; |
---|
1089 | } else { |
---|
1090 | quot -= tsyson[0]; |
---|
1091 | } |
---|
1092 | outspecCol.put(i, quot.getArray()); |
---|
1093 | outflagCol.put(i, flagsFromMA(quot)); |
---|
1094 | } |
---|
1095 | ++sit; |
---|
1096 | ++s2it; |
---|
1097 | // take the first off for each on scan which doesn't have a |
---|
1098 | // matching off scan |
---|
1099 | // non <= noff: matching pairs, non > noff matching pairs then first off |
---|
1100 | if ( s2it.pastEnd() ) s2it.reset(); |
---|
1101 | } |
---|
1102 | return out; |
---|
1103 | } |
---|
1104 | |
---|
1105 | // dototalpower (migration of GBTIDL procedure dototalpower.pro) |
---|
1106 | // calibrate the CAL on-off pair. It calculate Tsys and average CAL on-off subintegrations |
---|
1107 | // do it for each cycles in a specific scan. |
---|
1108 | CountedPtr< Scantable > STMath::dototalpower( const CountedPtr< Scantable >& calon, |
---|
1109 | const CountedPtr< Scantable >& caloff, Float tcal ) |
---|
1110 | { |
---|
1111 | if ( ! calon->conformant(*caloff) ) { |
---|
1112 | throw(AipsError("'CAL on' and 'CAL off' scantables are not conformant.")); |
---|
1113 | } |
---|
1114 | setInsitu(false); |
---|
1115 | CountedPtr< Scantable > out = getScantable(caloff, false); |
---|
1116 | Table& tout = out->table(); |
---|
1117 | const Table& tcon = calon->table(); |
---|
1118 | Vector<Float> tcalout; |
---|
1119 | |
---|
1120 | std::map<uInt,uInt> tcalIdToRecNoMap; |
---|
1121 | const Table& calOffTcalTable = caloff->tcal().table(); |
---|
1122 | { |
---|
1123 | ROScalarColumn<uInt> calOffTcalTable_IDcol(calOffTcalTable, "ID"); |
---|
1124 | const Vector<uInt> tcalIds(calOffTcalTable_IDcol.getColumn()); |
---|
1125 | size_t tcalIdsEnd = tcalIds.nelements(); |
---|
1126 | for (uInt i = 0; i < tcalIdsEnd; i++) { |
---|
1127 | tcalIdToRecNoMap[tcalIds[i]] = i; |
---|
1128 | } |
---|
1129 | } |
---|
1130 | ROArrayColumn<Float> calOffTcalTable_TCALcol(calOffTcalTable, "TCAL"); |
---|
1131 | |
---|
1132 | if ( tout.nrow() != tcon.nrow() ) { |
---|
1133 | throw(AipsError("Mismatch in number of rows to form cal on - off pair.")); |
---|
1134 | } |
---|
1135 | // iteration by scanno or cycle no. |
---|
1136 | TableIterator sit(tout, "SCANNO"); |
---|
1137 | TableIterator s2it(tcon, "SCANNO"); |
---|
1138 | while ( !sit.pastEnd() ) { |
---|
1139 | Table toff = sit.table(); |
---|
1140 | TableRow row(toff); |
---|
1141 | Table t = s2it.table(); |
---|
1142 | ScalarColumn<Double> outintCol(toff, "INTERVAL"); |
---|
1143 | ArrayColumn<Float> outspecCol(toff, "SPECTRA"); |
---|
1144 | ArrayColumn<Float> outtsysCol(toff, "TSYS"); |
---|
1145 | ArrayColumn<uChar> outflagCol(toff, "FLAGTRA"); |
---|
1146 | ROScalarColumn<uInt> outtcalIdCol(toff, "TCAL_ID"); |
---|
1147 | ROScalarColumn<uInt> outpolCol(toff, "POLNO"); |
---|
1148 | ROScalarColumn<Double> onintCol(t, "INTERVAL"); |
---|
1149 | ROArrayColumn<Float> onspecCol(t, "SPECTRA"); |
---|
1150 | ROArrayColumn<Float> ontsysCol(t, "TSYS"); |
---|
1151 | ROArrayColumn<uChar> onflagCol(t, "FLAGTRA"); |
---|
1152 | //ROScalarColumn<uInt> ontcalIdCol(t, "TCAL_ID"); |
---|
1153 | |
---|
1154 | for (uInt i=0; i < toff.nrow(); ++i) { |
---|
1155 | //skip these checks -> assumes the data order are the same between the cal on off pairs |
---|
1156 | // |
---|
1157 | Vector<Float> specCalon, specCaloff; |
---|
1158 | // to store scalar (mean) tsys |
---|
1159 | Vector<Float> tsysout(1); |
---|
1160 | uInt tcalId, polno; |
---|
1161 | Double offint, onint; |
---|
1162 | outpolCol.get(i, polno); |
---|
1163 | outspecCol.get(i, specCaloff); |
---|
1164 | onspecCol.get(i, specCalon); |
---|
1165 | Vector<uChar> flagCaloff, flagCalon; |
---|
1166 | outflagCol.get(i, flagCaloff); |
---|
1167 | onflagCol.get(i, flagCalon); |
---|
1168 | outtcalIdCol.get(i, tcalId); |
---|
1169 | outintCol.get(i, offint); |
---|
1170 | onintCol.get(i, onint); |
---|
1171 | // caluculate mean Tsys |
---|
1172 | uInt nchan = specCaloff.nelements(); |
---|
1173 | // percentage of edge cut off |
---|
1174 | uInt pc = 10; |
---|
1175 | uInt bchan = nchan/pc; |
---|
1176 | uInt echan = nchan-bchan; |
---|
1177 | |
---|
1178 | Slicer chansl(IPosition(1,bchan-1), IPosition(1,echan-1), IPosition(1,1),Slicer::endIsLast); |
---|
1179 | Vector<Float> testsubsp = specCaloff(chansl); |
---|
1180 | MaskedArray<Float> spoff = maskedArray( specCaloff(chansl),flagCaloff(chansl) ); |
---|
1181 | MaskedArray<Float> spon = maskedArray( specCalon(chansl),flagCalon(chansl) ); |
---|
1182 | MaskedArray<Float> spdiff = spon-spoff; |
---|
1183 | uInt noff = spoff.nelementsValid(); |
---|
1184 | //uInt non = spon.nelementsValid(); |
---|
1185 | uInt ndiff = spdiff.nelementsValid(); |
---|
1186 | Float meantsys; |
---|
1187 | |
---|
1188 | /** |
---|
1189 | Double subspec, subdiff; |
---|
1190 | uInt usednchan; |
---|
1191 | subspec = 0; |
---|
1192 | subdiff = 0; |
---|
1193 | usednchan = 0; |
---|
1194 | for(uInt k=(bchan-1); k<echan; k++) { |
---|
1195 | subspec += specCaloff[k]; |
---|
1196 | subdiff += static_cast<Double>(specCalon[k]-specCaloff[k]); |
---|
1197 | ++usednchan; |
---|
1198 | } |
---|
1199 | **/ |
---|
1200 | // get tcal if input tcal <= 0 |
---|
1201 | Float tcalUsed; |
---|
1202 | tcalUsed = tcal; |
---|
1203 | if ( tcal <= 0.0 ) { |
---|
1204 | uInt tcalRecNo = tcalIdToRecNoMap[tcalId]; |
---|
1205 | calOffTcalTable_TCALcol.get(tcalRecNo, tcalout); |
---|
1206 | // if (polno<=3) { |
---|
1207 | // tcalUsed = tcalout[polno]; |
---|
1208 | // } |
---|
1209 | // else { |
---|
1210 | // tcalUsed = tcalout[0]; |
---|
1211 | // } |
---|
1212 | if ( tcalout.size() == 1 ) |
---|
1213 | tcalUsed = tcalout[0] ; |
---|
1214 | else if ( tcalout.size() == nchan ) |
---|
1215 | tcalUsed = mean(tcalout) ; |
---|
1216 | else { |
---|
1217 | uInt ipol = polno ; |
---|
1218 | if ( ipol > 3 ) ipol = 0 ; |
---|
1219 | tcalUsed = tcalout[ipol] ; |
---|
1220 | } |
---|
1221 | } |
---|
1222 | |
---|
1223 | Float meanoff; |
---|
1224 | Float meandiff; |
---|
1225 | if (noff && ndiff) { |
---|
1226 | //Debug |
---|
1227 | //if(noff!=ndiff) cerr<<"noff and ndiff is not equal"<<endl; |
---|
1228 | //LogIO os( LogOrigin( "STMath", "dototalpower()", WHERE ) ) ; |
---|
1229 | //if(noff!=ndiff) os<<"noff and ndiff is not equal"<<LogIO::POST; |
---|
1230 | meanoff = sum(spoff)/noff; |
---|
1231 | meandiff = sum(spdiff)/ndiff; |
---|
1232 | meantsys= (meanoff/meandiff )*tcalUsed + tcalUsed/2; |
---|
1233 | } |
---|
1234 | else { |
---|
1235 | meantsys=1; |
---|
1236 | } |
---|
1237 | |
---|
1238 | tsysout[0] = Float(meantsys); |
---|
1239 | MaskedArray<Float> mcaloff = maskedArray(specCaloff, flagCaloff); |
---|
1240 | MaskedArray<Float> mcalon = maskedArray(specCalon, flagCalon); |
---|
1241 | MaskedArray<Float> sig = Float(0.5) * (mcaloff + mcalon); |
---|
1242 | //uInt ncaloff = mcaloff.nelementsValid(); |
---|
1243 | //uInt ncalon = mcalon.nelementsValid(); |
---|
1244 | |
---|
1245 | outintCol.put(i, offint+onint); |
---|
1246 | outspecCol.put(i, sig.getArray()); |
---|
1247 | outflagCol.put(i, flagsFromMA(sig)); |
---|
1248 | outtsysCol.put(i, tsysout); |
---|
1249 | } |
---|
1250 | ++sit; |
---|
1251 | ++s2it; |
---|
1252 | } |
---|
1253 | return out; |
---|
1254 | } |
---|
1255 | |
---|
1256 | //dosigref - migrated from GBT IDL's dosigref.pro, do calibration of position switch |
---|
1257 | // observatiions. |
---|
1258 | // input: sig and ref scantables, and an optional boxcar smoothing width(default width=0, |
---|
1259 | // no smoothing). |
---|
1260 | // output: resultant scantable [= (sig-ref/ref)*tsys] |
---|
1261 | CountedPtr< Scantable > STMath::dosigref( const CountedPtr < Scantable >& sig, |
---|
1262 | const CountedPtr < Scantable >& ref, |
---|
1263 | int smoothref, |
---|
1264 | casa::Float tsysv, |
---|
1265 | casa::Float tau ) |
---|
1266 | { |
---|
1267 | LogIO os( casa::LogOrigin( "STMath", "dosigref()")); |
---|
1268 | if ( ! ref->conformant(*sig) ) { |
---|
1269 | throw(AipsError("'sig' and 'ref' scantables are not conformant.")); |
---|
1270 | } |
---|
1271 | setInsitu(false); |
---|
1272 | CountedPtr< Scantable > out = getScantable(sig, false); |
---|
1273 | CountedPtr< Scantable > smref; |
---|
1274 | if ( smoothref > 1 ) { |
---|
1275 | float fsmoothref = static_cast<float>(smoothref); |
---|
1276 | std::string inkernel = "boxcar"; |
---|
1277 | smref = smooth(ref, inkernel, fsmoothref ); |
---|
1278 | ostringstream oss; |
---|
1279 | os <<"Applied smoothing of "<<fsmoothref<<" on the reference." |
---|
1280 | << LogIO::POST; |
---|
1281 | } |
---|
1282 | else { |
---|
1283 | smref = ref; |
---|
1284 | } |
---|
1285 | Table& tout = out->table(); |
---|
1286 | const Table& tref = smref->table(); |
---|
1287 | if ( tout.nrow() != tref.nrow() ) { |
---|
1288 | throw(AipsError("Mismatch in number of rows to form on-source and reference pair.")); |
---|
1289 | } |
---|
1290 | // iteration by scanno? or cycle no. |
---|
1291 | TableIterator sit(tout, "SCANNO"); |
---|
1292 | TableIterator s2it(tref, "SCANNO"); |
---|
1293 | while ( !sit.pastEnd() ) { |
---|
1294 | Table ton = sit.table(); |
---|
1295 | Table t = s2it.table(); |
---|
1296 | ScalarColumn<Double> outintCol(ton, "INTERVAL"); |
---|
1297 | ArrayColumn<Float> outspecCol(ton, "SPECTRA"); |
---|
1298 | ArrayColumn<Float> outtsysCol(ton, "TSYS"); |
---|
1299 | ArrayColumn<uChar> outflagCol(ton, "FLAGTRA"); |
---|
1300 | ArrayColumn<Float> refspecCol(t, "SPECTRA"); |
---|
1301 | ROScalarColumn<Double> refintCol(t, "INTERVAL"); |
---|
1302 | ROArrayColumn<Float> reftsysCol(t, "TSYS"); |
---|
1303 | ArrayColumn<uChar> refflagCol(t, "FLAGTRA"); |
---|
1304 | ROScalarColumn<Float> refelevCol(t, "ELEVATION"); |
---|
1305 | for (uInt i=0; i < ton.nrow(); ++i) { |
---|
1306 | |
---|
1307 | Double onint, refint; |
---|
1308 | Vector<Float> specon, specref; |
---|
1309 | // to store scalar (mean) tsys |
---|
1310 | Vector<Float> tsysref; |
---|
1311 | outintCol.get(i, onint); |
---|
1312 | refintCol.get(i, refint); |
---|
1313 | outspecCol.get(i, specon); |
---|
1314 | refspecCol.get(i, specref); |
---|
1315 | Vector<uChar> flagref, flagon; |
---|
1316 | outflagCol.get(i, flagon); |
---|
1317 | refflagCol.get(i, flagref); |
---|
1318 | reftsysCol.get(i, tsysref); |
---|
1319 | |
---|
1320 | Float tsysrefscalar; |
---|
1321 | if ( tsysv > 0.0 ) { |
---|
1322 | ostringstream oss; |
---|
1323 | Float elev; |
---|
1324 | refelevCol.get(i, elev); |
---|
1325 | os << "user specified Tsys = " << tsysv; |
---|
1326 | // do recalc elevation if EL = 0 |
---|
1327 | if ( elev == 0 ) { |
---|
1328 | throw(AipsError("EL=0, elevation data is missing.")); |
---|
1329 | } else { |
---|
1330 | if ( tau <= 0.0 ) { |
---|
1331 | throw(AipsError("Valid tau is not supplied.")); |
---|
1332 | } else { |
---|
1333 | tsysrefscalar = tsysv * exp(tau/elev); |
---|
1334 | } |
---|
1335 | } |
---|
1336 | os << ", corrected (for El) tsys= "<<tsysrefscalar; |
---|
1337 | } |
---|
1338 | else { |
---|
1339 | tsysrefscalar = tsysref[0]; |
---|
1340 | } |
---|
1341 | //get quotient spectrum |
---|
1342 | MaskedArray<Float> mref = maskedArray(specref, flagref); |
---|
1343 | MaskedArray<Float> mon = maskedArray(specon, flagon); |
---|
1344 | MaskedArray<Float> specres = tsysrefscalar*((mon - mref)/mref); |
---|
1345 | Double resint = onint*refint*smoothref/(onint+refint*smoothref); |
---|
1346 | |
---|
1347 | //Debug |
---|
1348 | //cerr<<"Tsys used="<<tsysrefscalar<<endl; |
---|
1349 | //LogIO os( LogOrigin( "STMath", "dosigref", WHERE ) ) ; |
---|
1350 | //os<<"Tsys used="<<tsysrefscalar<<LogIO::POST; |
---|
1351 | // fill the result, replay signal tsys by reference tsys |
---|
1352 | outintCol.put(i, resint); |
---|
1353 | outspecCol.put(i, specres.getArray()); |
---|
1354 | outflagCol.put(i, flagsFromMA(specres)); |
---|
1355 | outtsysCol.put(i, tsysref); |
---|
1356 | } |
---|
1357 | ++sit; |
---|
1358 | ++s2it; |
---|
1359 | } |
---|
1360 | |
---|
1361 | out->setFluxUnit("K"); |
---|
1362 | |
---|
1363 | return out; |
---|
1364 | } |
---|
1365 | |
---|
1366 | CountedPtr< Scantable > STMath::donod(const casa::CountedPtr<Scantable>& s, |
---|
1367 | const std::vector<int>& scans, |
---|
1368 | int smoothref, |
---|
1369 | casa::Float tsysv, |
---|
1370 | casa::Float tau, |
---|
1371 | casa::Float tcal ) |
---|
1372 | |
---|
1373 | { |
---|
1374 | setInsitu(false); |
---|
1375 | LogIO os( casa::LogOrigin( "STMath", "donod()")); |
---|
1376 | STSelector sel; |
---|
1377 | std::vector<int> scan1, scan2, beams, types; |
---|
1378 | std::vector< vector<int> > scanpair; |
---|
1379 | //std::vector<string> calstate; |
---|
1380 | std::vector<int> calstate; |
---|
1381 | String msg; |
---|
1382 | |
---|
1383 | CountedPtr< Scantable > s1b1on, s1b1off, s1b2on, s1b2off; |
---|
1384 | CountedPtr< Scantable > s2b1on, s2b1off, s2b2on, s2b2off; |
---|
1385 | |
---|
1386 | std::vector< CountedPtr< Scantable > > sctables; |
---|
1387 | sctables.push_back(s1b1on); |
---|
1388 | sctables.push_back(s1b1off); |
---|
1389 | sctables.push_back(s1b2on); |
---|
1390 | sctables.push_back(s1b2off); |
---|
1391 | sctables.push_back(s2b1on); |
---|
1392 | sctables.push_back(s2b1off); |
---|
1393 | sctables.push_back(s2b2on); |
---|
1394 | sctables.push_back(s2b2off); |
---|
1395 | |
---|
1396 | //check scanlist |
---|
1397 | int n=s->checkScanInfo(scans); |
---|
1398 | if (n==1) { |
---|
1399 | throw(AipsError("Incorrect scan pairs. ")); |
---|
1400 | } |
---|
1401 | |
---|
1402 | // Assume scans contain only a pair of consecutive scan numbers. |
---|
1403 | // It is assumed that first beam, b1, is on target. |
---|
1404 | // There is no check if the first beam is on or not. |
---|
1405 | if ( scans.size()==1 ) { |
---|
1406 | scan1.push_back(scans[0]); |
---|
1407 | scan2.push_back(scans[0]+1); |
---|
1408 | } else if ( scans.size()==2 ) { |
---|
1409 | scan1.push_back(scans[0]); |
---|
1410 | scan2.push_back(scans[1]); |
---|
1411 | } else { |
---|
1412 | if ( scans.size()%2 == 0 ) { |
---|
1413 | for (uInt i=0; i<scans.size(); i++) { |
---|
1414 | if (i%2 == 0) { |
---|
1415 | scan1.push_back(scans[i]); |
---|
1416 | } |
---|
1417 | else { |
---|
1418 | scan2.push_back(scans[i]); |
---|
1419 | } |
---|
1420 | } |
---|
1421 | } else { |
---|
1422 | throw(AipsError("Odd numbers of scans, cannot form pairs.")); |
---|
1423 | } |
---|
1424 | } |
---|
1425 | scanpair.push_back(scan1); |
---|
1426 | scanpair.push_back(scan2); |
---|
1427 | //calstate.push_back("*calon"); |
---|
1428 | //calstate.push_back("*[^calon]"); |
---|
1429 | calstate.push_back(SrcType::NODCAL); |
---|
1430 | calstate.push_back(SrcType::NOD); |
---|
1431 | CountedPtr< Scantable > ws = getScantable(s, false); |
---|
1432 | uInt l=0; |
---|
1433 | while ( l < sctables.size() ) { |
---|
1434 | for (uInt i=0; i < 2; i++) { |
---|
1435 | for (uInt j=0; j < 2; j++) { |
---|
1436 | for (uInt k=0; k < 2; k++) { |
---|
1437 | sel.reset(); |
---|
1438 | sel.setScans(scanpair[i]); |
---|
1439 | //sel.setName(calstate[k]); |
---|
1440 | types.clear(); |
---|
1441 | types.push_back(calstate[k]); |
---|
1442 | sel.setTypes(types); |
---|
1443 | beams.clear(); |
---|
1444 | beams.push_back(j); |
---|
1445 | sel.setBeams(beams); |
---|
1446 | ws->setSelection(sel); |
---|
1447 | sctables[l]= getScantable(ws, false); |
---|
1448 | l++; |
---|
1449 | } |
---|
1450 | } |
---|
1451 | } |
---|
1452 | } |
---|
1453 | |
---|
1454 | // replace here by splitData or getData functionality |
---|
1455 | CountedPtr< Scantable > sig1; |
---|
1456 | CountedPtr< Scantable > ref1; |
---|
1457 | CountedPtr< Scantable > sig2; |
---|
1458 | CountedPtr< Scantable > ref2; |
---|
1459 | CountedPtr< Scantable > calb1; |
---|
1460 | CountedPtr< Scantable > calb2; |
---|
1461 | |
---|
1462 | msg=String("Processing dototalpower for subset of the data"); |
---|
1463 | os << msg << LogIO::POST; |
---|
1464 | // Debug for IRC CS data |
---|
1465 | //float tcal1=7.0; |
---|
1466 | //float tcal2=4.0; |
---|
1467 | sig1 = dototalpower(sctables[0], sctables[1], tcal=tcal); |
---|
1468 | ref1 = dototalpower(sctables[2], sctables[3], tcal=tcal); |
---|
1469 | ref2 = dototalpower(sctables[4], sctables[5], tcal=tcal); |
---|
1470 | sig2 = dototalpower(sctables[6], sctables[7], tcal=tcal); |
---|
1471 | |
---|
1472 | // correction of user-specified tsys for elevation here |
---|
1473 | |
---|
1474 | // dosigref calibration |
---|
1475 | msg=String("Processing dosigref for subset of the data"); |
---|
1476 | os << msg << endl; |
---|
1477 | calb1=dosigref(sig1,ref2,smoothref,tsysv,tau); |
---|
1478 | calb2=dosigref(sig2,ref1,smoothref,tsysv,tau); |
---|
1479 | |
---|
1480 | // iteration by scanno or cycle no. |
---|
1481 | Table& tcalb1 = calb1->table(); |
---|
1482 | Table& tcalb2 = calb2->table(); |
---|
1483 | TableIterator sit(tcalb1, "SCANNO"); |
---|
1484 | TableIterator s2it(tcalb2, "SCANNO"); |
---|
1485 | while ( !sit.pastEnd() ) { |
---|
1486 | Table t1 = sit.table(); |
---|
1487 | Table t2= s2it.table(); |
---|
1488 | ArrayColumn<Float> outspecCol(t1, "SPECTRA"); |
---|
1489 | ArrayColumn<Float> outtsysCol(t1, "TSYS"); |
---|
1490 | ArrayColumn<uChar> outflagCol(t1, "FLAGTRA"); |
---|
1491 | ScalarColumn<Double> outintCol(t1, "INTERVAL"); |
---|
1492 | ArrayColumn<Float> t2specCol(t2, "SPECTRA"); |
---|
1493 | ROArrayColumn<Float> t2tsysCol(t2, "TSYS"); |
---|
1494 | ArrayColumn<uChar> t2flagCol(t2, "FLAGTRA"); |
---|
1495 | ROScalarColumn<Double> t2intCol(t2, "INTERVAL"); |
---|
1496 | for (uInt i=0; i < t1.nrow(); ++i) { |
---|
1497 | Vector<Float> spec1, spec2; |
---|
1498 | // to store scalar (mean) tsys |
---|
1499 | Vector<Float> tsys1, tsys2; |
---|
1500 | Vector<uChar> flag1, flag2; |
---|
1501 | Double tint1, tint2; |
---|
1502 | outspecCol.get(i, spec1); |
---|
1503 | t2specCol.get(i, spec2); |
---|
1504 | outflagCol.get(i, flag1); |
---|
1505 | t2flagCol.get(i, flag2); |
---|
1506 | outtsysCol.get(i, tsys1); |
---|
1507 | t2tsysCol.get(i, tsys2); |
---|
1508 | outintCol.get(i, tint1); |
---|
1509 | t2intCol.get(i, tint2); |
---|
1510 | // average |
---|
1511 | // assume scalar tsys for weights |
---|
1512 | Float wt1, wt2, tsyssq1, tsyssq2; |
---|
1513 | tsyssq1 = tsys1[0]*tsys1[0]; |
---|
1514 | tsyssq2 = tsys2[0]*tsys2[0]; |
---|
1515 | wt1 = Float(tint1)/tsyssq1; |
---|
1516 | wt2 = Float(tint2)/tsyssq2; |
---|
1517 | Float invsumwt=1/(wt1+wt2); |
---|
1518 | MaskedArray<Float> mspec1 = maskedArray(spec1, flag1); |
---|
1519 | MaskedArray<Float> mspec2 = maskedArray(spec2, flag2); |
---|
1520 | MaskedArray<Float> avspec = invsumwt * (wt1*mspec1 + wt2*mspec2); |
---|
1521 | //Array<Float> avtsys = Float(0.5) * (tsys1 + tsys2); |
---|
1522 | // cerr<< "Tsys1="<<tsys1<<" Tsys2="<<tsys2<<endl; |
---|
1523 | // LogIO os( LogOrigin( "STMath", "donod", WHERE ) ) ; |
---|
1524 | // os<< "Tsys1="<<tsys1<<" Tsys2="<<tsys2<<LogIO::POST; |
---|
1525 | tsys1[0] = sqrt(tsyssq1 + tsyssq2); |
---|
1526 | Array<Float> avtsys = tsys1; |
---|
1527 | |
---|
1528 | outspecCol.put(i, avspec.getArray()); |
---|
1529 | outflagCol.put(i, flagsFromMA(avspec)); |
---|
1530 | outtsysCol.put(i, avtsys); |
---|
1531 | } |
---|
1532 | ++sit; |
---|
1533 | ++s2it; |
---|
1534 | } |
---|
1535 | |
---|
1536 | calb1->setFluxUnit("K"); |
---|
1537 | |
---|
1538 | return calb1; |
---|
1539 | } |
---|
1540 | |
---|
1541 | //GBTIDL version of frequency switched data calibration |
---|
1542 | CountedPtr< Scantable > STMath::dofs( const CountedPtr< Scantable >& s, |
---|
1543 | const std::vector<int>& scans, |
---|
1544 | int smoothref, |
---|
1545 | casa::Float tsysv, |
---|
1546 | casa::Float tau, |
---|
1547 | casa::Float tcal ) |
---|
1548 | { |
---|
1549 | |
---|
1550 | |
---|
1551 | (void) scans; //currently unused |
---|
1552 | STSelector sel; |
---|
1553 | CountedPtr< Scantable > ws = getScantable(s, false); |
---|
1554 | CountedPtr< Scantable > sig, sigwcal, ref, refwcal; |
---|
1555 | CountedPtr< Scantable > calsig, calref, out, out1, out2; |
---|
1556 | Bool nofold=False; |
---|
1557 | vector<int> types ; |
---|
1558 | |
---|
1559 | //split the data |
---|
1560 | //sel.setName("*_fs"); |
---|
1561 | types.push_back( SrcType::FSON ) ; |
---|
1562 | sel.setTypes( types ) ; |
---|
1563 | ws->setSelection(sel); |
---|
1564 | sig = getScantable(ws,false); |
---|
1565 | sel.reset(); |
---|
1566 | types.clear() ; |
---|
1567 | //sel.setName("*_fs_calon"); |
---|
1568 | types.push_back( SrcType::FONCAL ) ; |
---|
1569 | sel.setTypes( types ) ; |
---|
1570 | ws->setSelection(sel); |
---|
1571 | sigwcal = getScantable(ws,false); |
---|
1572 | sel.reset(); |
---|
1573 | types.clear() ; |
---|
1574 | //sel.setName("*_fsr"); |
---|
1575 | types.push_back( SrcType::FSOFF ) ; |
---|
1576 | sel.setTypes( types ) ; |
---|
1577 | ws->setSelection(sel); |
---|
1578 | ref = getScantable(ws,false); |
---|
1579 | sel.reset(); |
---|
1580 | types.clear() ; |
---|
1581 | //sel.setName("*_fsr_calon"); |
---|
1582 | types.push_back( SrcType::FOFFCAL ) ; |
---|
1583 | sel.setTypes( types ) ; |
---|
1584 | ws->setSelection(sel); |
---|
1585 | refwcal = getScantable(ws,false); |
---|
1586 | sel.reset() ; |
---|
1587 | types.clear() ; |
---|
1588 | |
---|
1589 | calsig = dototalpower(sigwcal, sig, tcal=tcal); |
---|
1590 | calref = dototalpower(refwcal, ref, tcal=tcal); |
---|
1591 | |
---|
1592 | out1=dosigref(calsig,calref,smoothref,tsysv,tau); |
---|
1593 | out2=dosigref(calref,calsig,smoothref,tsysv,tau); |
---|
1594 | |
---|
1595 | Table& tabout1=out1->table(); |
---|
1596 | Table& tabout2=out2->table(); |
---|
1597 | ROScalarColumn<uInt> freqidCol1(tabout1, "FREQ_ID"); |
---|
1598 | ScalarColumn<uInt> freqidCol2(tabout2, "FREQ_ID"); |
---|
1599 | ROArrayColumn<Float> specCol(tabout2, "SPECTRA"); |
---|
1600 | Vector<Float> spec; specCol.get(0, spec); |
---|
1601 | uInt nchan = spec.nelements(); |
---|
1602 | uInt freqid1; freqidCol1.get(0,freqid1); |
---|
1603 | uInt freqid2; freqidCol2.get(0,freqid2); |
---|
1604 | Double rp1, rp2, rv1, rv2, inc1, inc2; |
---|
1605 | out1->frequencies().getEntry(rp1, rv1, inc1, freqid1); |
---|
1606 | out2->frequencies().getEntry(rp2, rv2, inc2, freqid2); |
---|
1607 | //cerr << out1->frequencies().table().nrow() << " " << out2->frequencies().table().nrow() << endl ; |
---|
1608 | //LogIO os( LogOrigin( "STMath", "dofs()", WHERE ) ) ; |
---|
1609 | //os << out1->frequencies().table().nrow() << " " << out2->frequencies().table().nrow() << LogIO::POST ; |
---|
1610 | if (rp1==rp2) { |
---|
1611 | Double foffset = rv1 - rv2; |
---|
1612 | uInt choffset = static_cast<uInt>(foffset/abs(inc2)); |
---|
1613 | if (choffset >= nchan) { |
---|
1614 | //cerr<<"out-band frequency switching, no folding"<<endl; |
---|
1615 | LogIO os( LogOrigin( "STMath", "dofs()", WHERE ) ) ; |
---|
1616 | os<<"out-band frequency switching, no folding"<<LogIO::POST; |
---|
1617 | nofold = True; |
---|
1618 | } |
---|
1619 | } |
---|
1620 | |
---|
1621 | if (nofold) { |
---|
1622 | std::vector< CountedPtr< Scantable > > tabs; |
---|
1623 | tabs.push_back(out1); |
---|
1624 | tabs.push_back(out2); |
---|
1625 | out = merge(tabs); |
---|
1626 | } |
---|
1627 | else { |
---|
1628 | //out = out1; |
---|
1629 | Double choffset = ( rv1 - rv2 ) / inc2 ; |
---|
1630 | out = dofold( out1, out2, choffset ) ; |
---|
1631 | } |
---|
1632 | |
---|
1633 | out->setFluxUnit("K"); |
---|
1634 | |
---|
1635 | return out; |
---|
1636 | } |
---|
1637 | |
---|
1638 | CountedPtr<Scantable> STMath::dofold( const CountedPtr<Scantable> &sig, |
---|
1639 | const CountedPtr<Scantable> &ref, |
---|
1640 | Double choffset, |
---|
1641 | Double choffset2 ) |
---|
1642 | { |
---|
1643 | LogIO os( LogOrigin( "STMath", "dofold", WHERE ) ) ; |
---|
1644 | os << "choffset=" << choffset << " choffset2=" << choffset2 << LogIO::POST ; |
---|
1645 | |
---|
1646 | // output scantable |
---|
1647 | CountedPtr<Scantable> out = getScantable( sig, false ) ; |
---|
1648 | |
---|
1649 | // separate choffset to integer part and decimal part |
---|
1650 | Int ioffset = (Int)choffset ; |
---|
1651 | Double doffset = choffset - ioffset ; |
---|
1652 | Int ioffset2 = (Int)choffset2 ; |
---|
1653 | Double doffset2 = choffset2 - ioffset2 ; |
---|
1654 | os << "ioffset=" << ioffset << " doffset=" << doffset << LogIO::POST ; |
---|
1655 | os << "ioffset2=" << ioffset2 << " doffset2=" << doffset2 << LogIO::POST ; |
---|
1656 | |
---|
1657 | // get column |
---|
1658 | ROArrayColumn<Float> specCol1( sig->table(), "SPECTRA" ) ; |
---|
1659 | ROArrayColumn<Float> specCol2( ref->table(), "SPECTRA" ) ; |
---|
1660 | ROArrayColumn<Float> tsysCol1( sig->table(), "TSYS" ) ; |
---|
1661 | ROArrayColumn<Float> tsysCol2( ref->table(), "TSYS" ) ; |
---|
1662 | ROArrayColumn<uChar> flagCol1( sig->table(), "FLAGTRA" ) ; |
---|
1663 | ROArrayColumn<uChar> flagCol2( ref->table(), "FLAGTRA" ) ; |
---|
1664 | ROScalarColumn<Double> mjdCol1( sig->table(), "TIME" ) ; |
---|
1665 | ROScalarColumn<Double> mjdCol2( ref->table(), "TIME" ) ; |
---|
1666 | ROScalarColumn<Double> intervalCol1( sig->table(), "INTERVAL" ) ; |
---|
1667 | ROScalarColumn<Double> intervalCol2( ref->table(), "INTERVAL" ) ; |
---|
1668 | |
---|
1669 | // check |
---|
1670 | if ( ioffset == 0 ) { |
---|
1671 | LogIO os( LogOrigin( "STMath", "dofold()", WHERE ) ) ; |
---|
1672 | os << "channel offset is zero, no folding" << LogIO::POST ; |
---|
1673 | return out ; |
---|
1674 | } |
---|
1675 | int nchan = ref->nchan() ; |
---|
1676 | if ( abs(ioffset) >= nchan ) { |
---|
1677 | LogIO os( LogOrigin( "STMath", "dofold()", WHERE ) ) ; |
---|
1678 | os << "out-band frequency switching, no folding" << LogIO::POST ; |
---|
1679 | return out ; |
---|
1680 | } |
---|
1681 | |
---|
1682 | // attach column for output scantable |
---|
1683 | ArrayColumn<Float> specColOut( out->table(), "SPECTRA" ) ; |
---|
1684 | ArrayColumn<uChar> flagColOut( out->table(), "FLAGTRA" ) ; |
---|
1685 | ArrayColumn<Float> tsysColOut( out->table(), "TSYS" ) ; |
---|
1686 | ScalarColumn<Double> mjdColOut( out->table(), "TIME" ) ; |
---|
1687 | ScalarColumn<Double> intervalColOut( out->table(), "INTERVAL" ) ; |
---|
1688 | ScalarColumn<uInt> fidColOut( out->table(), "FREQ_ID" ) ; |
---|
1689 | |
---|
1690 | // for each row |
---|
1691 | // assume that the data order are same between sig and ref |
---|
1692 | RowAccumulator acc( asap::W_TINTSYS ) ; |
---|
1693 | for ( int i = 0 ; i < sig->nrow() ; i++ ) { |
---|
1694 | // get values |
---|
1695 | Vector<Float> spsig ; |
---|
1696 | specCol1.get( i, spsig ) ; |
---|
1697 | Vector<Float> spref ; |
---|
1698 | specCol2.get( i, spref ) ; |
---|
1699 | Vector<Float> tsyssig ; |
---|
1700 | tsysCol1.get( i, tsyssig ) ; |
---|
1701 | Vector<Float> tsysref ; |
---|
1702 | tsysCol2.get( i, tsysref ) ; |
---|
1703 | Vector<uChar> flagsig ; |
---|
1704 | flagCol1.get( i, flagsig ) ; |
---|
1705 | Vector<uChar> flagref ; |
---|
1706 | flagCol2.get( i, flagref ) ; |
---|
1707 | Double timesig ; |
---|
1708 | mjdCol1.get( i, timesig ) ; |
---|
1709 | Double timeref ; |
---|
1710 | mjdCol2.get( i, timeref ) ; |
---|
1711 | Double intsig ; |
---|
1712 | intervalCol1.get( i, intsig ) ; |
---|
1713 | Double intref ; |
---|
1714 | intervalCol2.get( i, intref ) ; |
---|
1715 | |
---|
1716 | // shift reference spectra |
---|
1717 | int refchan = spref.nelements() ; |
---|
1718 | Vector<Float> sspref( spref.nelements() ) ; |
---|
1719 | Vector<Float> stsysref( tsysref.nelements() ) ; |
---|
1720 | Vector<uChar> sflagref( flagref.nelements() ) ; |
---|
1721 | if ( ioffset > 0 ) { |
---|
1722 | // SPECTRA and FLAGTRA |
---|
1723 | for ( int j = 0 ; j < refchan-ioffset ; j++ ) { |
---|
1724 | sspref[j] = spref[j+ioffset] ; |
---|
1725 | sflagref[j] = flagref[j+ioffset] ; |
---|
1726 | } |
---|
1727 | for ( int j = refchan-ioffset ; j < refchan ; j++ ) { |
---|
1728 | sspref[j] = spref[j-refchan+ioffset] ; |
---|
1729 | sflagref[j] = flagref[j-refchan+ioffset] ; |
---|
1730 | } |
---|
1731 | spref = sspref.copy() ; |
---|
1732 | flagref = sflagref.copy() ; |
---|
1733 | for ( int j = 0 ; j < refchan - 1 ; j++ ) { |
---|
1734 | sspref[j] = doffset * spref[j+1] + ( 1.0 - doffset ) * spref[j] ; |
---|
1735 | sflagref[j] = flagref[j+1] + flagref[j] ; |
---|
1736 | } |
---|
1737 | sspref[refchan-1] = doffset * spref[0] + ( 1.0 - doffset ) * spref[refchan-1] ; |
---|
1738 | sflagref[refchan-1] = flagref[0] + flagref[refchan-1] ; |
---|
1739 | |
---|
1740 | // TSYS |
---|
1741 | if ( spref.nelements() == tsysref.nelements() ) { |
---|
1742 | for ( int j = 0 ; j < refchan-ioffset ; j++ ) { |
---|
1743 | stsysref[j] = tsysref[j+ioffset] ; |
---|
1744 | } |
---|
1745 | for ( int j = refchan-ioffset ; j < refchan ; j++ ) { |
---|
1746 | stsysref[j] = tsysref[j-refchan+ioffset] ; |
---|
1747 | } |
---|
1748 | tsysref = stsysref.copy() ; |
---|
1749 | for ( int j = 0 ; j < refchan - 1 ; j++ ) { |
---|
1750 | stsysref[j] = doffset * tsysref[j+1] + ( 1.0 - doffset ) * tsysref[j] ; |
---|
1751 | } |
---|
1752 | stsysref[refchan-1] = doffset * tsysref[0] + ( 1.0 - doffset ) * tsysref[refchan-1] ; |
---|
1753 | } |
---|
1754 | } |
---|
1755 | else { |
---|
1756 | // SPECTRA and FLAGTRA |
---|
1757 | for ( int j = 0 ; j < abs(ioffset) ; j++ ) { |
---|
1758 | sspref[j] = spref[refchan+ioffset+j] ; |
---|
1759 | sflagref[j] = flagref[refchan+ioffset+j] ; |
---|
1760 | } |
---|
1761 | for ( int j = abs(ioffset) ; j < refchan ; j++ ) { |
---|
1762 | sspref[j] = spref[j+ioffset] ; |
---|
1763 | sflagref[j] = flagref[j+ioffset] ; |
---|
1764 | } |
---|
1765 | spref = sspref.copy() ; |
---|
1766 | flagref = sflagref.copy() ; |
---|
1767 | sspref[0] = doffset * spref[refchan-1] + ( 1.0 - doffset ) * spref[0] ; |
---|
1768 | sflagref[0] = flagref[0] + flagref[refchan-1] ; |
---|
1769 | for ( int j = 1 ; j < refchan ; j++ ) { |
---|
1770 | sspref[j] = doffset * spref[j-1] + ( 1.0 - doffset ) * spref[j] ; |
---|
1771 | sflagref[j] = flagref[j-1] + flagref[j] ; |
---|
1772 | } |
---|
1773 | // TSYS |
---|
1774 | if ( spref.nelements() == tsysref.nelements() ) { |
---|
1775 | for ( int j = 0 ; j < abs(ioffset) ; j++ ) { |
---|
1776 | stsysref[j] = tsysref[refchan+ioffset+j] ; |
---|
1777 | } |
---|
1778 | for ( int j = abs(ioffset) ; j < refchan ; j++ ) { |
---|
1779 | stsysref[j] = tsysref[j+ioffset] ; |
---|
1780 | } |
---|
1781 | tsysref = stsysref.copy() ; |
---|
1782 | stsysref[0] = doffset * tsysref[refchan-1] + ( 1.0 - doffset ) * tsysref[0] ; |
---|
1783 | for ( int j = 1 ; j < refchan ; j++ ) { |
---|
1784 | stsysref[j] = doffset * tsysref[j-1] + ( 1.0 - doffset ) * tsysref[j] ; |
---|
1785 | } |
---|
1786 | } |
---|
1787 | } |
---|
1788 | |
---|
1789 | // shift signal spectra if necessary (only for APEX?) |
---|
1790 | if ( choffset2 != 0.0 ) { |
---|
1791 | int sigchan = spsig.nelements() ; |
---|
1792 | Vector<Float> sspsig( spsig.nelements() ) ; |
---|
1793 | Vector<Float> stsyssig( tsyssig.nelements() ) ; |
---|
1794 | Vector<uChar> sflagsig( flagsig.nelements() ) ; |
---|
1795 | if ( ioffset2 > 0 ) { |
---|
1796 | // SPECTRA and FLAGTRA |
---|
1797 | for ( int j = 0 ; j < sigchan-ioffset2 ; j++ ) { |
---|
1798 | sspsig[j] = spsig[j+ioffset2] ; |
---|
1799 | sflagsig[j] = flagsig[j+ioffset2] ; |
---|
1800 | } |
---|
1801 | for ( int j = sigchan-ioffset2 ; j < sigchan ; j++ ) { |
---|
1802 | sspsig[j] = spsig[j-sigchan+ioffset2] ; |
---|
1803 | sflagsig[j] = flagsig[j-sigchan+ioffset2] ; |
---|
1804 | } |
---|
1805 | spsig = sspsig.copy() ; |
---|
1806 | flagsig = sflagsig.copy() ; |
---|
1807 | for ( int j = 0 ; j < sigchan - 1 ; j++ ) { |
---|
1808 | sspsig[j] = doffset2 * spsig[j+1] + ( 1.0 - doffset2 ) * spsig[j] ; |
---|
1809 | sflagsig[j] = flagsig[j+1] || flagsig[j] ; |
---|
1810 | } |
---|
1811 | sspsig[sigchan-1] = doffset2 * spsig[0] + ( 1.0 - doffset2 ) * spsig[sigchan-1] ; |
---|
1812 | sflagsig[sigchan-1] = flagsig[0] || flagsig[sigchan-1] ; |
---|
1813 | // TSTS |
---|
1814 | if ( spsig.nelements() == tsyssig.nelements() ) { |
---|
1815 | for ( int j = 0 ; j < sigchan-ioffset2 ; j++ ) { |
---|
1816 | stsyssig[j] = tsyssig[j+ioffset2] ; |
---|
1817 | } |
---|
1818 | for ( int j = sigchan-ioffset2 ; j < sigchan ; j++ ) { |
---|
1819 | stsyssig[j] = tsyssig[j-sigchan+ioffset2] ; |
---|
1820 | } |
---|
1821 | tsyssig = stsyssig.copy() ; |
---|
1822 | for ( int j = 0 ; j < sigchan - 1 ; j++ ) { |
---|
1823 | stsyssig[j] = doffset2 * tsyssig[j+1] + ( 1.0 - doffset2 ) * tsyssig[j] ; |
---|
1824 | } |
---|
1825 | stsyssig[sigchan-1] = doffset2 * tsyssig[0] + ( 1.0 - doffset2 ) * tsyssig[sigchan-1] ; |
---|
1826 | } |
---|
1827 | } |
---|
1828 | else { |
---|
1829 | // SPECTRA and FLAGTRA |
---|
1830 | for ( int j = 0 ; j < abs(ioffset2) ; j++ ) { |
---|
1831 | sspsig[j] = spsig[sigchan+ioffset2+j] ; |
---|
1832 | sflagsig[j] = flagsig[sigchan+ioffset2+j] ; |
---|
1833 | } |
---|
1834 | for ( int j = abs(ioffset2) ; j < sigchan ; j++ ) { |
---|
1835 | sspsig[j] = spsig[j+ioffset2] ; |
---|
1836 | sflagsig[j] = flagsig[j+ioffset2] ; |
---|
1837 | } |
---|
1838 | spsig = sspsig.copy() ; |
---|
1839 | flagsig = sflagsig.copy() ; |
---|
1840 | sspsig[0] = doffset2 * spsig[sigchan-1] + ( 1.0 - doffset2 ) * spsig[0] ; |
---|
1841 | sflagsig[0] = flagsig[0] + flagsig[sigchan-1] ; |
---|
1842 | for ( int j = 1 ; j < sigchan ; j++ ) { |
---|
1843 | sspsig[j] = doffset2 * spsig[j-1] + ( 1.0 - doffset2 ) * spsig[j] ; |
---|
1844 | sflagsig[j] = flagsig[j-1] + flagsig[j] ; |
---|
1845 | } |
---|
1846 | // TSYS |
---|
1847 | if ( spsig.nelements() == tsyssig.nelements() ) { |
---|
1848 | for ( int j = 0 ; j < abs(ioffset2) ; j++ ) { |
---|
1849 | stsyssig[j] = tsyssig[sigchan+ioffset2+j] ; |
---|
1850 | } |
---|
1851 | for ( int j = abs(ioffset2) ; j < sigchan ; j++ ) { |
---|
1852 | stsyssig[j] = tsyssig[j+ioffset2] ; |
---|
1853 | } |
---|
1854 | tsyssig = stsyssig.copy() ; |
---|
1855 | stsyssig[0] = doffset2 * tsyssig[sigchan-1] + ( 1.0 - doffset2 ) * tsyssig[0] ; |
---|
1856 | for ( int j = 1 ; j < sigchan ; j++ ) { |
---|
1857 | stsyssig[j] = doffset2 * tsyssig[j-1] + ( 1.0 - doffset2 ) * tsyssig[j] ; |
---|
1858 | } |
---|
1859 | } |
---|
1860 | } |
---|
1861 | } |
---|
1862 | |
---|
1863 | // folding |
---|
1864 | acc.add( spsig, !flagsig, tsyssig, intsig, timesig ) ; |
---|
1865 | acc.add( sspref, !sflagref, stsysref, intref, timeref ) ; |
---|
1866 | |
---|
1867 | // put result |
---|
1868 | specColOut.put( i, acc.getSpectrum() ) ; |
---|
1869 | const Vector<Bool> &msk = acc.getMask() ; |
---|
1870 | Vector<uChar> flg( msk.shape() ) ; |
---|
1871 | convertArray( flg, !msk ) ; |
---|
1872 | flagColOut.put( i, flg ) ; |
---|
1873 | tsysColOut.put( i, acc.getTsys() ) ; |
---|
1874 | intervalColOut.put( i, acc.getInterval() ) ; |
---|
1875 | mjdColOut.put( i, acc.getTime() ) ; |
---|
1876 | // change FREQ_ID to unshifted IF setting (only for APEX?) |
---|
1877 | if ( choffset2 != 0.0 ) { |
---|
1878 | uInt freqid = fidColOut( 0 ) ; // assume single-IF data |
---|
1879 | double refpix, refval, increment ; |
---|
1880 | out->frequencies().getEntry( refpix, refval, increment, freqid ) ; |
---|
1881 | refval -= choffset * increment ; |
---|
1882 | uInt newfreqid = out->frequencies().addEntry( refpix, refval, increment ) ; |
---|
1883 | Vector<uInt> freqids = fidColOut.getColumn() ; |
---|
1884 | for ( uInt j = 0 ; j < freqids.nelements() ; j++ ) { |
---|
1885 | if ( freqids[j] == freqid ) |
---|
1886 | freqids[j] = newfreqid ; |
---|
1887 | } |
---|
1888 | fidColOut.putColumn( freqids ) ; |
---|
1889 | } |
---|
1890 | |
---|
1891 | acc.reset() ; |
---|
1892 | } |
---|
1893 | |
---|
1894 | return out ; |
---|
1895 | } |
---|
1896 | |
---|
1897 | |
---|
1898 | CountedPtr< Scantable > STMath::freqSwitch( const CountedPtr< Scantable >& in ) |
---|
1899 | { |
---|
1900 | // make copy or reference |
---|
1901 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
1902 | Table& tout = out->table(); |
---|
1903 | Block<String> cols(4); |
---|
1904 | cols[0] = String("SCANNO"); |
---|
1905 | cols[1] = String("CYCLENO"); |
---|
1906 | cols[2] = String("BEAMNO"); |
---|
1907 | cols[3] = String("POLNO"); |
---|
1908 | TableIterator iter(tout, cols); |
---|
1909 | while (!iter.pastEnd()) { |
---|
1910 | Table subt = iter.table(); |
---|
1911 | // this should leave us with two rows for the two IFs....if not ignore |
---|
1912 | if (subt.nrow() != 2 ) { |
---|
1913 | continue; |
---|
1914 | } |
---|
1915 | ArrayColumn<Float> specCol(subt, "SPECTRA"); |
---|
1916 | ArrayColumn<Float> tsysCol(subt, "TSYS"); |
---|
1917 | ArrayColumn<uChar> flagCol(subt, "FLAGTRA"); |
---|
1918 | Vector<Float> onspec,offspec, ontsys, offtsys; |
---|
1919 | Vector<uChar> onflag, offflag; |
---|
1920 | tsysCol.get(0, ontsys); tsysCol.get(1, offtsys); |
---|
1921 | specCol.get(0, onspec); specCol.get(1, offspec); |
---|
1922 | flagCol.get(0, onflag); flagCol.get(1, offflag); |
---|
1923 | MaskedArray<Float> on = maskedArray(onspec, onflag); |
---|
1924 | MaskedArray<Float> off = maskedArray(offspec, offflag); |
---|
1925 | MaskedArray<Float> oncopy = on.copy(); |
---|
1926 | |
---|
1927 | on /= off; on -= 1.0f; |
---|
1928 | on *= ontsys[0]; |
---|
1929 | off /= oncopy; off -= 1.0f; |
---|
1930 | off *= offtsys[0]; |
---|
1931 | specCol.put(0, on.getArray()); |
---|
1932 | const Vector<Bool>& m0 = on.getMask(); |
---|
1933 | Vector<uChar> flags0(m0.shape()); |
---|
1934 | convertArray(flags0, !m0); |
---|
1935 | flagCol.put(0, flags0); |
---|
1936 | |
---|
1937 | specCol.put(1, off.getArray()); |
---|
1938 | const Vector<Bool>& m1 = off.getMask(); |
---|
1939 | Vector<uChar> flags1(m1.shape()); |
---|
1940 | convertArray(flags1, !m1); |
---|
1941 | flagCol.put(1, flags1); |
---|
1942 | ++iter; |
---|
1943 | } |
---|
1944 | |
---|
1945 | return out; |
---|
1946 | } |
---|
1947 | |
---|
1948 | std::vector< float > STMath::statistic( const CountedPtr< Scantable > & in, |
---|
1949 | const std::vector< bool > & mask, |
---|
1950 | const std::string& which ) |
---|
1951 | { |
---|
1952 | |
---|
1953 | Vector<Bool> m(mask); |
---|
1954 | const Table& tab = in->table(); |
---|
1955 | ROArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
1956 | ROArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
1957 | std::vector<float> out; |
---|
1958 | for (uInt i=0; i < tab.nrow(); ++i ) { |
---|
1959 | Vector<Float> spec; specCol.get(i, spec); |
---|
1960 | Vector<uChar> flag; flagCol.get(i, flag); |
---|
1961 | MaskedArray<Float> ma = maskedArray(spec, flag); |
---|
1962 | float outstat = 0.0; |
---|
1963 | if ( spec.nelements() == m.nelements() ) { |
---|
1964 | outstat = mathutil::statistics(which, ma(m)); |
---|
1965 | } else { |
---|
1966 | outstat = mathutil::statistics(which, ma); |
---|
1967 | } |
---|
1968 | out.push_back(outstat); |
---|
1969 | } |
---|
1970 | return out; |
---|
1971 | } |
---|
1972 | |
---|
1973 | std::vector< float > STMath::statisticRow( const CountedPtr< Scantable > & in, |
---|
1974 | const std::vector< bool > & mask, |
---|
1975 | const std::string& which, |
---|
1976 | int row ) |
---|
1977 | { |
---|
1978 | |
---|
1979 | Vector<Bool> m(mask); |
---|
1980 | const Table& tab = in->table(); |
---|
1981 | ROArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
1982 | ROArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
1983 | std::vector<float> out; |
---|
1984 | |
---|
1985 | Vector<Float> spec; specCol.get(row, spec); |
---|
1986 | Vector<uChar> flag; flagCol.get(row, flag); |
---|
1987 | MaskedArray<Float> ma = maskedArray(spec, flag); |
---|
1988 | float outstat = 0.0; |
---|
1989 | if ( spec.nelements() == m.nelements() ) { |
---|
1990 | outstat = mathutil::statistics(which, ma(m)); |
---|
1991 | } else { |
---|
1992 | outstat = mathutil::statistics(which, ma); |
---|
1993 | } |
---|
1994 | out.push_back(outstat); |
---|
1995 | |
---|
1996 | return out; |
---|
1997 | } |
---|
1998 | |
---|
1999 | std::vector< int > STMath::minMaxChan( const CountedPtr< Scantable > & in, |
---|
2000 | const std::vector< bool > & mask, |
---|
2001 | const std::string& which ) |
---|
2002 | { |
---|
2003 | |
---|
2004 | Vector<Bool> m(mask); |
---|
2005 | const Table& tab = in->table(); |
---|
2006 | ROArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2007 | ROArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2008 | std::vector<int> out; |
---|
2009 | for (uInt i=0; i < tab.nrow(); ++i ) { |
---|
2010 | Vector<Float> spec; specCol.get(i, spec); |
---|
2011 | Vector<uChar> flag; flagCol.get(i, flag); |
---|
2012 | MaskedArray<Float> ma = maskedArray(spec, flag); |
---|
2013 | if (ma.ndim() != 1) { |
---|
2014 | throw (ArrayError( |
---|
2015 | "std::vector<int> STMath::minMaxChan(" |
---|
2016 | "ContedPtr<Scantable> &in, std::vector<bool> &mask, " |
---|
2017 | " std::string &which)" |
---|
2018 | " - MaskedArray is not 1D")); |
---|
2019 | } |
---|
2020 | IPosition outpos(1,0); |
---|
2021 | if ( spec.nelements() == m.nelements() ) { |
---|
2022 | outpos = mathutil::minMaxPos(which, ma(m)); |
---|
2023 | } else { |
---|
2024 | outpos = mathutil::minMaxPos(which, ma); |
---|
2025 | } |
---|
2026 | out.push_back(outpos[0]); |
---|
2027 | } |
---|
2028 | return out; |
---|
2029 | } |
---|
2030 | |
---|
2031 | CountedPtr< Scantable > STMath::bin( const CountedPtr< Scantable > & in, |
---|
2032 | int width ) |
---|
2033 | { |
---|
2034 | if ( !in->getSelection().empty() ) throw(AipsError("Can't bin subset of the data.")); |
---|
2035 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2036 | Table& tout = out->table(); |
---|
2037 | out->frequencies().rescale(width, "BIN"); |
---|
2038 | ArrayColumn<Float> specCol(tout, "SPECTRA"); |
---|
2039 | ArrayColumn<uChar> flagCol(tout, "FLAGTRA"); |
---|
2040 | ArrayColumn<Float> tsysCol(tout, "TSYS"); |
---|
2041 | |
---|
2042 | for (uInt i=0; i < tout.nrow(); ++i ) { |
---|
2043 | MaskedArray<Float> main = maskedArray(specCol(i), flagCol(i)); |
---|
2044 | MaskedArray<Float> maout; |
---|
2045 | LatticeUtilities::bin(maout, main, 0, Int(width)); |
---|
2046 | specCol.put(i, maout.getArray()); |
---|
2047 | flagCol.put(i, flagsFromMA(maout)); |
---|
2048 | if (tsysCol(i).nelements() == specCol(i).nelements()) { |
---|
2049 | MaskedArray<Float> matsysin = maskedArray(tsysCol(i), flagCol(i)); |
---|
2050 | MaskedArray<Float> matsysout; |
---|
2051 | LatticeUtilities::bin(matsysout, matsysin, 0, Int(width)); |
---|
2052 | tsysCol.put(i, matsysout.getArray()); |
---|
2053 | } |
---|
2054 | // take only the first binned spectrum's length for the deprecated |
---|
2055 | // global header item nChan |
---|
2056 | if (i==0) tout.rwKeywordSet().define(String("nChan"), |
---|
2057 | Int(maout.getArray().nelements())); |
---|
2058 | } |
---|
2059 | return out; |
---|
2060 | } |
---|
2061 | |
---|
2062 | CountedPtr< Scantable > STMath::resample( const CountedPtr< Scantable >& in, |
---|
2063 | const std::string& method, |
---|
2064 | float width ) |
---|
2065 | // |
---|
2066 | // Should add the possibility of width being specified in km/s. This means |
---|
2067 | // that for each freqID (SpectralCoordinate) we will need to convert to an |
---|
2068 | // average channel width (say at the reference pixel). Then we would need |
---|
2069 | // to be careful to make sure each spectrum (of different freqID) |
---|
2070 | // is the same length. |
---|
2071 | // |
---|
2072 | { |
---|
2073 | //InterpolateArray1D<Double,Float>::InterpolationMethod interp; |
---|
2074 | Int interpMethod(stringToIMethod(method)); |
---|
2075 | |
---|
2076 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2077 | Table& tout = out->table(); |
---|
2078 | |
---|
2079 | // Resample SpectralCoordinates (one per freqID) |
---|
2080 | out->frequencies().rescale(width, "RESAMPLE"); |
---|
2081 | TableIterator iter(tout, "IFNO"); |
---|
2082 | TableRow row(tout); |
---|
2083 | while ( !iter.pastEnd() ) { |
---|
2084 | Table tab = iter.table(); |
---|
2085 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2086 | //ArrayColumn<Float> tsysCol(tout, "TSYS"); |
---|
2087 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2088 | Vector<Float> spec; |
---|
2089 | Vector<uChar> flag; |
---|
2090 | specCol.get(0,spec); // the number of channels should be constant per IF |
---|
2091 | uInt nChanIn = spec.nelements(); |
---|
2092 | Vector<Float> xIn(nChanIn); indgen(xIn); |
---|
2093 | Int fac = Int(nChanIn/width); |
---|
2094 | Vector<Float> xOut(fac+10); // 10 to be safe - resize later |
---|
2095 | uInt k = 0; |
---|
2096 | Float x = 0.0; |
---|
2097 | while (x < Float(nChanIn) ) { |
---|
2098 | xOut(k) = x; |
---|
2099 | k++; |
---|
2100 | x += width; |
---|
2101 | } |
---|
2102 | uInt nChanOut = k; |
---|
2103 | xOut.resize(nChanOut, True); |
---|
2104 | // process all rows for this IFNO |
---|
2105 | Vector<Float> specOut; |
---|
2106 | Vector<Bool> maskOut; |
---|
2107 | Vector<uChar> flagOut; |
---|
2108 | for (uInt i=0; i < tab.nrow(); ++i) { |
---|
2109 | specCol.get(i, spec); |
---|
2110 | flagCol.get(i, flag); |
---|
2111 | Vector<Bool> mask(flag.nelements()); |
---|
2112 | convertArray(mask, flag); |
---|
2113 | |
---|
2114 | IPosition shapeIn(spec.shape()); |
---|
2115 | //sh.nchan = nChanOut; |
---|
2116 | InterpolateArray1D<Float,Float>::interpolate(specOut, maskOut, xOut, |
---|
2117 | xIn, spec, mask, |
---|
2118 | interpMethod, True, True); |
---|
2119 | /// @todo do the same for channel based Tsys |
---|
2120 | flagOut.resize(maskOut.nelements()); |
---|
2121 | convertArray(flagOut, maskOut); |
---|
2122 | specCol.put(i, specOut); |
---|
2123 | flagCol.put(i, flagOut); |
---|
2124 | } |
---|
2125 | ++iter; |
---|
2126 | } |
---|
2127 | |
---|
2128 | return out; |
---|
2129 | } |
---|
2130 | |
---|
2131 | STMath::imethod STMath::stringToIMethod(const std::string& in) |
---|
2132 | { |
---|
2133 | static STMath::imap lookup; |
---|
2134 | |
---|
2135 | // initialize the lookup table if necessary |
---|
2136 | if ( lookup.empty() ) { |
---|
2137 | lookup["nearest"] = InterpolateArray1D<Double,Float>::nearestNeighbour; |
---|
2138 | lookup["linear"] = InterpolateArray1D<Double,Float>::linear; |
---|
2139 | lookup["cubic"] = InterpolateArray1D<Double,Float>::cubic; |
---|
2140 | lookup["spline"] = InterpolateArray1D<Double,Float>::spline; |
---|
2141 | } |
---|
2142 | |
---|
2143 | STMath::imap::const_iterator iter = lookup.find(in); |
---|
2144 | |
---|
2145 | if ( lookup.end() == iter ) { |
---|
2146 | std::string message = in; |
---|
2147 | message += " is not a valid interpolation mode"; |
---|
2148 | throw(AipsError(message)); |
---|
2149 | } |
---|
2150 | return iter->second; |
---|
2151 | } |
---|
2152 | |
---|
2153 | WeightType STMath::stringToWeight(const std::string& in) |
---|
2154 | { |
---|
2155 | static std::map<std::string, WeightType> lookup; |
---|
2156 | |
---|
2157 | // initialize the lookup table if necessary |
---|
2158 | if ( lookup.empty() ) { |
---|
2159 | lookup["NONE"] = asap::W_NONE; |
---|
2160 | lookup["TINT"] = asap::W_TINT; |
---|
2161 | lookup["TINTSYS"] = asap::W_TINTSYS; |
---|
2162 | lookup["TSYS"] = asap::W_TSYS; |
---|
2163 | lookup["VAR"] = asap::W_VAR; |
---|
2164 | } |
---|
2165 | |
---|
2166 | std::map<std::string, WeightType>::const_iterator iter = lookup.find(in); |
---|
2167 | |
---|
2168 | if ( lookup.end() == iter ) { |
---|
2169 | std::string message = in; |
---|
2170 | message += " is not a valid weighting mode"; |
---|
2171 | throw(AipsError(message)); |
---|
2172 | } |
---|
2173 | return iter->second; |
---|
2174 | } |
---|
2175 | |
---|
2176 | CountedPtr< Scantable > STMath::gainElevation( const CountedPtr< Scantable >& in, |
---|
2177 | const vector< float > & coeff, |
---|
2178 | const std::string & filename, |
---|
2179 | const std::string& method) |
---|
2180 | { |
---|
2181 | LogIO os( LogOrigin( "STMath", "gainElevation", WHERE ) ) ; |
---|
2182 | // Get elevation data from Scantable and convert to degrees |
---|
2183 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2184 | Table& tab = out->table(); |
---|
2185 | ROScalarColumn<Float> elev(tab, "ELEVATION"); |
---|
2186 | Vector<Float> x = elev.getColumn(); |
---|
2187 | x *= Float(180 / C::pi); // Degrees |
---|
2188 | |
---|
2189 | Vector<Float> coeffs(coeff); |
---|
2190 | const uInt nc = coeffs.nelements(); |
---|
2191 | if ( filename.length() > 0 && nc > 0 ) { |
---|
2192 | throw(AipsError("You must choose either polynomial coefficients or an ascii file, not both")); |
---|
2193 | } |
---|
2194 | |
---|
2195 | // Correct |
---|
2196 | if ( nc > 0 || filename.length() == 0 ) { |
---|
2197 | // Find instrument |
---|
2198 | Bool throwit = True; |
---|
2199 | Instrument inst = |
---|
2200 | STAttr::convertInstrument(tab.keywordSet().asString("AntennaName"), |
---|
2201 | throwit); |
---|
2202 | |
---|
2203 | // Set polynomial |
---|
2204 | Polynomial<Float>* ppoly = 0; |
---|
2205 | Vector<Float> coeff; |
---|
2206 | String msg; |
---|
2207 | if ( nc > 0 ) { |
---|
2208 | ppoly = new Polynomial<Float>(nc-1); |
---|
2209 | coeff = coeffs; |
---|
2210 | msg = String("user"); |
---|
2211 | } else { |
---|
2212 | STAttr sdAttr; |
---|
2213 | coeff = sdAttr.gainElevationPoly(inst); |
---|
2214 | ppoly = new Polynomial<Float>(coeff.nelements()-1); |
---|
2215 | msg = String("built in"); |
---|
2216 | } |
---|
2217 | |
---|
2218 | if ( coeff.nelements() > 0 ) { |
---|
2219 | ppoly->setCoefficients(coeff); |
---|
2220 | } else { |
---|
2221 | delete ppoly; |
---|
2222 | throw(AipsError("There is no known gain-elevation polynomial known for this instrument")); |
---|
2223 | } |
---|
2224 | os << "Making polynomial correction with " << msg << " coefficients:" << endl; |
---|
2225 | os << " " << coeff << LogIO::POST; |
---|
2226 | const uInt nrow = tab.nrow(); |
---|
2227 | Vector<Float> factor(nrow); |
---|
2228 | for ( uInt i=0; i < nrow; ++i ) { |
---|
2229 | factor[i] = 1.0 / (*ppoly)(x[i]); |
---|
2230 | } |
---|
2231 | delete ppoly; |
---|
2232 | scaleByVector(tab, factor, true); |
---|
2233 | |
---|
2234 | } else { |
---|
2235 | // Read and correct |
---|
2236 | os << "Making correction from ascii Table" << LogIO::POST; |
---|
2237 | scaleFromAsciiTable(tab, filename, method, x, true); |
---|
2238 | } |
---|
2239 | return out; |
---|
2240 | } |
---|
2241 | |
---|
2242 | void STMath::scaleFromAsciiTable(Table& in, const std::string& filename, |
---|
2243 | const std::string& method, |
---|
2244 | const Vector<Float>& xout, bool dotsys) |
---|
2245 | { |
---|
2246 | |
---|
2247 | // Read gain-elevation ascii file data into a Table. |
---|
2248 | |
---|
2249 | String formatString; |
---|
2250 | Table tbl = readAsciiTable(formatString, Table::Memory, filename, "", "", False); |
---|
2251 | scaleFromTable(in, tbl, method, xout, dotsys); |
---|
2252 | } |
---|
2253 | |
---|
2254 | void STMath::scaleFromTable(Table& in, |
---|
2255 | const Table& table, |
---|
2256 | const std::string& method, |
---|
2257 | const Vector<Float>& xout, bool dotsys) |
---|
2258 | { |
---|
2259 | |
---|
2260 | ROScalarColumn<Float> geElCol(table, "ELEVATION"); |
---|
2261 | ROScalarColumn<Float> geFacCol(table, "FACTOR"); |
---|
2262 | Vector<Float> xin = geElCol.getColumn(); |
---|
2263 | Vector<Float> yin = geFacCol.getColumn(); |
---|
2264 | Vector<Bool> maskin(xin.nelements(),True); |
---|
2265 | |
---|
2266 | // Interpolate (and extrapolate) with desired method |
---|
2267 | |
---|
2268 | InterpolateArray1D<Double,Float>::InterpolationMethod interp = stringToIMethod(method); |
---|
2269 | |
---|
2270 | Vector<Float> yout; |
---|
2271 | Vector<Bool> maskout; |
---|
2272 | InterpolateArray1D<Float,Float>::interpolate(yout, maskout, xout, |
---|
2273 | xin, yin, maskin, interp, |
---|
2274 | True, True); |
---|
2275 | |
---|
2276 | scaleByVector(in, Float(1.0)/yout, dotsys); |
---|
2277 | } |
---|
2278 | |
---|
2279 | void STMath::scaleByVector( Table& in, |
---|
2280 | const Vector< Float >& factor, |
---|
2281 | bool dotsys ) |
---|
2282 | { |
---|
2283 | uInt nrow = in.nrow(); |
---|
2284 | if ( factor.nelements() != nrow ) { |
---|
2285 | throw(AipsError("factors.nelements() != table.nelements()")); |
---|
2286 | } |
---|
2287 | ArrayColumn<Float> specCol(in, "SPECTRA"); |
---|
2288 | ArrayColumn<uChar> flagCol(in, "FLAGTRA"); |
---|
2289 | ArrayColumn<Float> tsysCol(in, "TSYS"); |
---|
2290 | for (uInt i=0; i < nrow; ++i) { |
---|
2291 | MaskedArray<Float> ma = maskedArray(specCol(i), flagCol(i)); |
---|
2292 | ma *= factor[i]; |
---|
2293 | specCol.put(i, ma.getArray()); |
---|
2294 | flagCol.put(i, flagsFromMA(ma)); |
---|
2295 | if ( dotsys ) { |
---|
2296 | Vector<Float> tsys = tsysCol(i); |
---|
2297 | tsys *= factor[i]; |
---|
2298 | tsysCol.put(i,tsys); |
---|
2299 | } |
---|
2300 | } |
---|
2301 | } |
---|
2302 | |
---|
2303 | CountedPtr< Scantable > STMath::convertFlux( const CountedPtr< Scantable >& in, |
---|
2304 | float d, float etaap, |
---|
2305 | float jyperk ) |
---|
2306 | { |
---|
2307 | LogIO os( LogOrigin( "STMath", "convertFlux", WHERE ) ) ; |
---|
2308 | |
---|
2309 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2310 | Table& tab = in->table(); |
---|
2311 | Table& outtab = out->table(); |
---|
2312 | Unit fluxUnit(tab.keywordSet().asString("FluxUnit")); |
---|
2313 | Unit K(String("K")); |
---|
2314 | Unit JY(String("Jy")); |
---|
2315 | |
---|
2316 | bool tokelvin = true; |
---|
2317 | Double cfac = 1.0; |
---|
2318 | |
---|
2319 | if ( fluxUnit == JY ) { |
---|
2320 | os << "Converting to K" << LogIO::POST; |
---|
2321 | Quantum<Double> t(1.0,fluxUnit); |
---|
2322 | Quantum<Double> t2 = t.get(JY); |
---|
2323 | cfac = (t2 / t).getValue(); // value to Jy |
---|
2324 | |
---|
2325 | tokelvin = true; |
---|
2326 | out->setFluxUnit("K"); |
---|
2327 | } else if ( fluxUnit == K ) { |
---|
2328 | os << "Converting to Jy" << LogIO::POST; |
---|
2329 | Quantum<Double> t(1.0,fluxUnit); |
---|
2330 | Quantum<Double> t2 = t.get(K); |
---|
2331 | cfac = (t2 / t).getValue(); // value to K |
---|
2332 | |
---|
2333 | tokelvin = false; |
---|
2334 | out->setFluxUnit("Jy"); |
---|
2335 | } else { |
---|
2336 | throw(AipsError("Unrecognized brightness units in Table - must be consistent with Jy or K")); |
---|
2337 | } |
---|
2338 | // Make sure input values are converted to either Jy or K first... |
---|
2339 | Float factor = cfac; |
---|
2340 | |
---|
2341 | // Select method |
---|
2342 | if (jyperk > 0.0) { |
---|
2343 | factor *= jyperk; |
---|
2344 | if ( tokelvin ) factor = 1.0 / jyperk; |
---|
2345 | os << "Jy/K = " << jyperk << LogIO::POST; |
---|
2346 | Vector<Float> factors(outtab.nrow(), factor); |
---|
2347 | scaleByVector(outtab,factors, false); |
---|
2348 | } else if ( etaap > 0.0) { |
---|
2349 | if (d < 0) { |
---|
2350 | Instrument inst = |
---|
2351 | STAttr::convertInstrument(tab.keywordSet().asString("AntennaName"), |
---|
2352 | True); |
---|
2353 | STAttr sda; |
---|
2354 | d = sda.diameter(inst); |
---|
2355 | } |
---|
2356 | jyperk = STAttr::findJyPerK(etaap, d); |
---|
2357 | os << "Jy/K = " << jyperk << LogIO::POST; |
---|
2358 | factor *= jyperk; |
---|
2359 | if ( tokelvin ) { |
---|
2360 | factor = 1.0 / factor; |
---|
2361 | } |
---|
2362 | Vector<Float> factors(outtab.nrow(), factor); |
---|
2363 | scaleByVector(outtab, factors, False); |
---|
2364 | } else { |
---|
2365 | |
---|
2366 | // OK now we must deal with automatic look up of values. |
---|
2367 | // We must also deal with the fact that the factors need |
---|
2368 | // to be computed per IF and may be different and may |
---|
2369 | // change per integration. |
---|
2370 | |
---|
2371 | os <<"Looking up conversion factors" << LogIO::POST; |
---|
2372 | convertBrightnessUnits(out, tokelvin, cfac); |
---|
2373 | } |
---|
2374 | |
---|
2375 | return out; |
---|
2376 | } |
---|
2377 | |
---|
2378 | void STMath::convertBrightnessUnits( CountedPtr<Scantable>& in, |
---|
2379 | bool tokelvin, float cfac ) |
---|
2380 | { |
---|
2381 | Table& table = in->table(); |
---|
2382 | Instrument inst = |
---|
2383 | STAttr::convertInstrument(table.keywordSet().asString("AntennaName"), True); |
---|
2384 | TableIterator iter(table, "FREQ_ID"); |
---|
2385 | STFrequencies stfreqs = in->frequencies(); |
---|
2386 | STAttr sdAtt; |
---|
2387 | while (!iter.pastEnd()) { |
---|
2388 | Table tab = iter.table(); |
---|
2389 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2390 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2391 | ROScalarColumn<uInt> freqidCol(tab, "FREQ_ID"); |
---|
2392 | MEpoch::ROScalarColumn timeCol(tab, "TIME"); |
---|
2393 | |
---|
2394 | uInt freqid; freqidCol.get(0, freqid); |
---|
2395 | Vector<Float> tmpspec; specCol.get(0, tmpspec); |
---|
2396 | // STAttr.JyPerK has a Vector interface... change sometime. |
---|
2397 | Vector<Float> freqs(1,stfreqs.getRefFreq(freqid, tmpspec.nelements())); |
---|
2398 | for ( uInt i=0; i<tab.nrow(); ++i) { |
---|
2399 | Float jyperk = (sdAtt.JyPerK(inst, timeCol(i), freqs))[0]; |
---|
2400 | Float factor = cfac * jyperk; |
---|
2401 | if ( tokelvin ) factor = Float(1.0) / factor; |
---|
2402 | MaskedArray<Float> ma = maskedArray(specCol(i), flagCol(i)); |
---|
2403 | ma *= factor; |
---|
2404 | specCol.put(i, ma.getArray()); |
---|
2405 | flagCol.put(i, flagsFromMA(ma)); |
---|
2406 | } |
---|
2407 | ++iter; |
---|
2408 | } |
---|
2409 | } |
---|
2410 | |
---|
2411 | CountedPtr< Scantable > STMath::opacity( const CountedPtr< Scantable > & in, |
---|
2412 | const std::vector<float>& tau ) |
---|
2413 | { |
---|
2414 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2415 | |
---|
2416 | Table outtab = out->table(); |
---|
2417 | |
---|
2418 | const Int ntau = uInt(tau.size()); |
---|
2419 | std::vector<float>::const_iterator tauit = tau.begin(); |
---|
2420 | AlwaysAssert((ntau == 1 || ntau == in->nif() || ntau == in->nif() * in->npol()), |
---|
2421 | AipsError); |
---|
2422 | TableIterator iiter(outtab, "IFNO"); |
---|
2423 | while ( !iiter.pastEnd() ) { |
---|
2424 | Table itab = iiter.table(); |
---|
2425 | TableIterator piter(itab, "POLNO"); |
---|
2426 | while ( !piter.pastEnd() ) { |
---|
2427 | Table tab = piter.table(); |
---|
2428 | ROScalarColumn<Float> elev(tab, "ELEVATION"); |
---|
2429 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2430 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2431 | ArrayColumn<Float> tsysCol(tab, "TSYS"); |
---|
2432 | for ( uInt i=0; i<tab.nrow(); ++i) { |
---|
2433 | Float zdist = Float(C::pi_2) - elev(i); |
---|
2434 | Float factor = exp(*tauit/cos(zdist)); |
---|
2435 | MaskedArray<Float> ma = maskedArray(specCol(i), flagCol(i)); |
---|
2436 | ma *= factor; |
---|
2437 | specCol.put(i, ma.getArray()); |
---|
2438 | flagCol.put(i, flagsFromMA(ma)); |
---|
2439 | Vector<Float> tsys; |
---|
2440 | tsysCol.get(i, tsys); |
---|
2441 | tsys *= factor; |
---|
2442 | tsysCol.put(i, tsys); |
---|
2443 | } |
---|
2444 | if (ntau == in->nif()*in->npol() ) { |
---|
2445 | tauit++; |
---|
2446 | } |
---|
2447 | piter++; |
---|
2448 | } |
---|
2449 | if (ntau >= in->nif() ) { |
---|
2450 | tauit++; |
---|
2451 | } |
---|
2452 | iiter++; |
---|
2453 | } |
---|
2454 | return out; |
---|
2455 | } |
---|
2456 | |
---|
2457 | CountedPtr< Scantable > STMath::smoothOther( const CountedPtr< Scantable >& in, |
---|
2458 | const std::string& kernel, |
---|
2459 | float width, int order) |
---|
2460 | { |
---|
2461 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2462 | Table table = out->table(); |
---|
2463 | |
---|
2464 | TableIterator iter(table, "IFNO"); |
---|
2465 | while (!iter.pastEnd()) { |
---|
2466 | Table tab = iter.table(); |
---|
2467 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2468 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2469 | Vector<Float> spec; |
---|
2470 | Vector<uChar> flag; |
---|
2471 | for (uInt i = 0; i < tab.nrow(); ++i) { |
---|
2472 | specCol.get(i, spec); |
---|
2473 | flagCol.get(i, flag); |
---|
2474 | Vector<Bool> mask(flag.nelements()); |
---|
2475 | convertArray(mask, flag); |
---|
2476 | Vector<Float> specout; |
---|
2477 | Vector<Bool> maskout; |
---|
2478 | if (kernel == "hanning") { |
---|
2479 | mathutil::hanning(specout, maskout, spec, !mask); |
---|
2480 | } else if (kernel == "rmedian") { |
---|
2481 | mathutil::runningMedian(specout, maskout, spec , mask, width); |
---|
2482 | } else if (kernel == "poly") { |
---|
2483 | mathutil::polyfit(specout, maskout, spec, !mask, width, order); |
---|
2484 | } |
---|
2485 | |
---|
2486 | for (uInt j = 0; j < flag.nelements(); ++j) { |
---|
2487 | uChar userFlag = 1 << 7; |
---|
2488 | if (maskout[j]==True) userFlag = 0 << 7; |
---|
2489 | flag(j) = userFlag; |
---|
2490 | } |
---|
2491 | |
---|
2492 | flagCol.put(i, flag); |
---|
2493 | specCol.put(i, specout); |
---|
2494 | } |
---|
2495 | ++iter; |
---|
2496 | } |
---|
2497 | return out; |
---|
2498 | } |
---|
2499 | |
---|
2500 | CountedPtr< Scantable > STMath::smooth( const CountedPtr< Scantable >& in, |
---|
2501 | const std::string& kernel, float width, |
---|
2502 | int order) |
---|
2503 | { |
---|
2504 | if (kernel == "rmedian" || kernel == "hanning" || kernel == "poly") { |
---|
2505 | return smoothOther(in, kernel, width, order); |
---|
2506 | } |
---|
2507 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2508 | Table& table = out->table(); |
---|
2509 | VectorKernel::KernelTypes type = VectorKernel::toKernelType(kernel); |
---|
2510 | // same IFNO should have same no of channels |
---|
2511 | // this saves overhead |
---|
2512 | TableIterator iter(table, "IFNO"); |
---|
2513 | while (!iter.pastEnd()) { |
---|
2514 | Table tab = iter.table(); |
---|
2515 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2516 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2517 | Vector<Float> spec = specCol( 0 ); |
---|
2518 | uInt nchan = spec.nelements(); |
---|
2519 | Vector<Float> kvec = VectorKernel::make(type, width, nchan, True, False); |
---|
2520 | Convolver<Float> conv(kvec, IPosition(1,nchan)); |
---|
2521 | Vector<uChar> flag; |
---|
2522 | Vector<Bool> mask(nchan); |
---|
2523 | for ( uInt i=0; i<tab.nrow(); ++i) { |
---|
2524 | specCol.get(i, spec); |
---|
2525 | flagCol.get(i, flag); |
---|
2526 | convertArray(mask, flag); |
---|
2527 | Vector<Float> specout; |
---|
2528 | //mathutil::replaceMaskByZero(specout, mask); |
---|
2529 | mathutil::replaceMaskByZero(spec, !mask); |
---|
2530 | //std::vector<bool> vmask; |
---|
2531 | //(!mask).tovector(vmask); |
---|
2532 | //mathutil::doZeroOrderInterpolation(spec, vmask); |
---|
2533 | conv.linearConv(specout, spec); |
---|
2534 | specCol.put(i, specout); |
---|
2535 | } |
---|
2536 | ++iter; |
---|
2537 | } |
---|
2538 | return out; |
---|
2539 | } |
---|
2540 | |
---|
2541 | CountedPtr< Scantable > |
---|
2542 | STMath::merge( const std::vector< CountedPtr < Scantable > >& in ) |
---|
2543 | { |
---|
2544 | if ( in.size() < 2 ) { |
---|
2545 | throw(AipsError("Need at least two scantables to perform a merge.")); |
---|
2546 | } |
---|
2547 | std::vector<CountedPtr < Scantable > >::const_iterator it = in.begin(); |
---|
2548 | bool insitu = insitu_; |
---|
2549 | setInsitu(false); |
---|
2550 | CountedPtr< Scantable > out = getScantable(*it, false); |
---|
2551 | setInsitu(insitu); |
---|
2552 | Table& tout = out->table(); |
---|
2553 | ScalarColumn<uInt> freqidcol(tout,"FREQ_ID"), molidcol(tout, "MOLECULE_ID"); |
---|
2554 | ScalarColumn<uInt> scannocol(tout,"SCANNO"), focusidcol(tout,"FOCUS_ID"); |
---|
2555 | // Renumber SCANNO to be 0-based |
---|
2556 | Vector<uInt> scannos = scannocol.getColumn(); |
---|
2557 | uInt offset = min(scannos); |
---|
2558 | scannos -= offset; |
---|
2559 | scannocol.putColumn(scannos); |
---|
2560 | uInt newscanno = max(scannos)+1; |
---|
2561 | ++it; |
---|
2562 | while ( it != in.end() ){ |
---|
2563 | if ( ! (*it)->conformant(*out) ) { |
---|
2564 | // non conformant. |
---|
2565 | LogIO os( LogOrigin( "STMath", "merge()", WHERE ) ) ; |
---|
2566 | os << LogIO::SEVERE << "Can't merge scantables as header informations (any one of AntennaName, Equinox, and FluxUnit) differ." << LogIO::EXCEPTION ; |
---|
2567 | } |
---|
2568 | out->appendToHistoryTable((*it)->history()); |
---|
2569 | const Table& tab = (*it)->table(); |
---|
2570 | |
---|
2571 | Block<String> cols(3); |
---|
2572 | cols[0] = String("FREQ_ID"); |
---|
2573 | cols[1] = String("MOLECULE_ID"); |
---|
2574 | cols[2] = String("FOCUS_ID"); |
---|
2575 | |
---|
2576 | TableIterator scanit(tab, "SCANNO"); |
---|
2577 | while (!scanit.pastEnd()) { |
---|
2578 | ScalarColumn<uInt> thescannocol(scanit.table(),"SCANNO"); |
---|
2579 | Vector<uInt> thescannos(thescannocol.nrow(),newscanno); |
---|
2580 | thescannocol.putColumn(thescannos); |
---|
2581 | TableIterator subit(scanit.table(), cols); |
---|
2582 | while ( !subit.pastEnd() ) { |
---|
2583 | uInt nrow = tout.nrow(); |
---|
2584 | Table thetab = subit.table(); |
---|
2585 | ROTableRow row(thetab); |
---|
2586 | Vector<uInt> thecolvals(thetab.nrow()); |
---|
2587 | ScalarColumn<uInt> thefreqidcol(thetab,"FREQ_ID"); |
---|
2588 | ScalarColumn<uInt> themolidcol(thetab, "MOLECULE_ID"); |
---|
2589 | ScalarColumn<uInt> thefocusidcol(thetab,"FOCUS_ID"); |
---|
2590 | // The selected subset of table should have |
---|
2591 | // the equal FREQ_ID, MOLECULE_ID, and FOCUS_ID values. |
---|
2592 | const TableRecord& rec = row.get(0); |
---|
2593 | // Set the proper FREQ_ID |
---|
2594 | Double rv,rp,inc; |
---|
2595 | (*it)->frequencies().getEntry(rp, rv, inc, rec.asuInt("FREQ_ID")); |
---|
2596 | uInt id; |
---|
2597 | id = out->frequencies().addEntry(rp, rv, inc); |
---|
2598 | thecolvals = id; |
---|
2599 | thefreqidcol.putColumn(thecolvals); |
---|
2600 | // Set the proper MOLECULE_ID |
---|
2601 | Vector<String> name,fname;Vector<Double> rf; |
---|
2602 | (*it)->molecules().getEntry(rf, name, fname, rec.asuInt("MOLECULE_ID")); |
---|
2603 | id = out->molecules().addEntry(rf, name, fname); |
---|
2604 | thecolvals = id; |
---|
2605 | themolidcol.putColumn(thecolvals); |
---|
2606 | // Set the proper FOCUS_ID |
---|
2607 | Float fpa,frot,fax,ftan,fhand,fmount,fuser, fxy, fxyp; |
---|
2608 | (*it)->focus().getEntry(fpa, fax, ftan, frot, fhand, fmount,fuser, |
---|
2609 | fxy, fxyp, rec.asuInt("FOCUS_ID")); |
---|
2610 | id = out->focus().addEntry(fpa, fax, ftan, frot, fhand, fmount,fuser, |
---|
2611 | fxy, fxyp); |
---|
2612 | thecolvals = id; |
---|
2613 | thefocusidcol.putColumn(thecolvals); |
---|
2614 | |
---|
2615 | tout.addRow(thetab.nrow()); |
---|
2616 | TableCopy::copyRows(tout, thetab, nrow, 0, thetab.nrow()); |
---|
2617 | |
---|
2618 | ++subit; |
---|
2619 | } |
---|
2620 | ++newscanno; |
---|
2621 | ++scanit; |
---|
2622 | } |
---|
2623 | ++it; |
---|
2624 | } |
---|
2625 | return out; |
---|
2626 | } |
---|
2627 | |
---|
2628 | CountedPtr< Scantable > |
---|
2629 | STMath::invertPhase( const CountedPtr < Scantable >& in ) |
---|
2630 | { |
---|
2631 | return applyToPol(in, &STPol::invertPhase, Float(0.0)); |
---|
2632 | } |
---|
2633 | |
---|
2634 | CountedPtr< Scantable > |
---|
2635 | STMath::rotateXYPhase( const CountedPtr < Scantable >& in, float phase ) |
---|
2636 | { |
---|
2637 | return applyToPol(in, &STPol::rotatePhase, Float(phase)); |
---|
2638 | } |
---|
2639 | |
---|
2640 | CountedPtr< Scantable > |
---|
2641 | STMath::rotateLinPolPhase( const CountedPtr < Scantable >& in, float phase ) |
---|
2642 | { |
---|
2643 | return applyToPol(in, &STPol::rotateLinPolPhase, Float(phase)); |
---|
2644 | } |
---|
2645 | |
---|
2646 | CountedPtr< Scantable > STMath::applyToPol( const CountedPtr<Scantable>& in, |
---|
2647 | STPol::polOperation fptr, |
---|
2648 | Float phase ) |
---|
2649 | { |
---|
2650 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2651 | Table& tout = out->table(); |
---|
2652 | Block<String> cols(4); |
---|
2653 | cols[0] = String("SCANNO"); |
---|
2654 | cols[1] = String("BEAMNO"); |
---|
2655 | cols[2] = String("IFNO"); |
---|
2656 | cols[3] = String("CYCLENO"); |
---|
2657 | TableIterator iter(tout, cols); |
---|
2658 | CountedPtr<STPol> stpol = STPol::getPolClass(out->factories_, |
---|
2659 | out->getPolType() ); |
---|
2660 | while (!iter.pastEnd()) { |
---|
2661 | Table t = iter.table(); |
---|
2662 | ArrayColumn<Float> speccol(t, "SPECTRA"); |
---|
2663 | ScalarColumn<uInt> focidcol(t, "FOCUS_ID"); |
---|
2664 | Matrix<Float> pols(speccol.getColumn()); |
---|
2665 | try { |
---|
2666 | stpol->setSpectra(pols); |
---|
2667 | Float fang,fhand; |
---|
2668 | fang = in->focusTable_.getTotalAngle(focidcol(0)); |
---|
2669 | fhand = in->focusTable_.getFeedHand(focidcol(0)); |
---|
2670 | stpol->setPhaseCorrections(fang, fhand); |
---|
2671 | // use a member function pointer in STPol. This only works on |
---|
2672 | // the STPol pointer itself, not the Counted Pointer so |
---|
2673 | // derefernce it. |
---|
2674 | (&(*(stpol))->*fptr)(phase); |
---|
2675 | speccol.putColumn(stpol->getSpectra()); |
---|
2676 | } catch (AipsError& e) { |
---|
2677 | //delete stpol;stpol=0; |
---|
2678 | throw(e); |
---|
2679 | } |
---|
2680 | ++iter; |
---|
2681 | } |
---|
2682 | //delete stpol;stpol=0; |
---|
2683 | return out; |
---|
2684 | } |
---|
2685 | |
---|
2686 | CountedPtr< Scantable > |
---|
2687 | STMath::swapPolarisations( const CountedPtr< Scantable > & in ) |
---|
2688 | { |
---|
2689 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2690 | Table& tout = out->table(); |
---|
2691 | Table t0 = tout(tout.col("POLNO") == 0); |
---|
2692 | Table t1 = tout(tout.col("POLNO") == 1); |
---|
2693 | if ( t0.nrow() != t1.nrow() ) |
---|
2694 | throw(AipsError("Inconsistent number of polarisations")); |
---|
2695 | ArrayColumn<Float> speccol0(t0, "SPECTRA"); |
---|
2696 | ArrayColumn<uChar> flagcol0(t0, "FLAGTRA"); |
---|
2697 | ArrayColumn<Float> speccol1(t1, "SPECTRA"); |
---|
2698 | ArrayColumn<uChar> flagcol1(t1, "FLAGTRA"); |
---|
2699 | Matrix<Float> s0 = speccol0.getColumn(); |
---|
2700 | Matrix<uChar> f0 = flagcol0.getColumn(); |
---|
2701 | speccol0.putColumn(speccol1.getColumn()); |
---|
2702 | flagcol0.putColumn(flagcol1.getColumn()); |
---|
2703 | speccol1.putColumn(s0); |
---|
2704 | flagcol1.putColumn(f0); |
---|
2705 | return out; |
---|
2706 | } |
---|
2707 | |
---|
2708 | CountedPtr< Scantable > |
---|
2709 | STMath::averagePolarisations( const CountedPtr< Scantable > & in, |
---|
2710 | const std::vector<bool>& mask, |
---|
2711 | const std::string& weight ) |
---|
2712 | { |
---|
2713 | if (in->npol() < 2 ) |
---|
2714 | throw(AipsError("averagePolarisations can only be applied to two or more" |
---|
2715 | "polarisations")); |
---|
2716 | bool insitu = insitu_; |
---|
2717 | setInsitu(false); |
---|
2718 | CountedPtr< Scantable > pols = getScantable(in, true); |
---|
2719 | setInsitu(insitu); |
---|
2720 | Table& tout = pols->table(); |
---|
2721 | std::string taql = "SELECT FROM $1 WHERE POLNO IN [0,1]"; |
---|
2722 | Table tab = tableCommand(taql, in->table()); |
---|
2723 | if (tab.nrow() == 0 ) |
---|
2724 | throw(AipsError("Could not find any rows with POLNO==0 and POLNO==1")); |
---|
2725 | TableCopy::copyRows(tout, tab); |
---|
2726 | TableVector<uInt> vec(tout, "POLNO"); |
---|
2727 | vec = 0; |
---|
2728 | pols->table_.rwKeywordSet().define("nPol", Int(1)); |
---|
2729 | pols->table_.rwKeywordSet().define("POLTYPE", String("stokes")); |
---|
2730 | //pols->table_.rwKeywordSet().define("POLTYPE", in->getPolType()); |
---|
2731 | std::vector<CountedPtr<Scantable> > vpols; |
---|
2732 | vpols.push_back(pols); |
---|
2733 | CountedPtr< Scantable > out = average(vpols, mask, weight, "SCAN"); |
---|
2734 | return out; |
---|
2735 | } |
---|
2736 | |
---|
2737 | CountedPtr< Scantable > |
---|
2738 | STMath::averageBeams( const CountedPtr< Scantable > & in, |
---|
2739 | const std::vector<bool>& mask, |
---|
2740 | const std::string& weight ) |
---|
2741 | { |
---|
2742 | bool insitu = insitu_; |
---|
2743 | setInsitu(false); |
---|
2744 | CountedPtr< Scantable > beams = getScantable(in, false); |
---|
2745 | setInsitu(insitu); |
---|
2746 | Table& tout = beams->table(); |
---|
2747 | // give all rows the same BEAMNO |
---|
2748 | TableVector<uInt> vec(tout, "BEAMNO"); |
---|
2749 | vec = 0; |
---|
2750 | beams->table_.rwKeywordSet().define("nBeam", Int(1)); |
---|
2751 | std::vector<CountedPtr<Scantable> > vbeams; |
---|
2752 | vbeams.push_back(beams); |
---|
2753 | CountedPtr< Scantable > out = average(vbeams, mask, weight, "SCAN"); |
---|
2754 | return out; |
---|
2755 | } |
---|
2756 | |
---|
2757 | |
---|
2758 | CountedPtr< Scantable > |
---|
2759 | asap::STMath::frequencyAlign( const CountedPtr< Scantable > & in, |
---|
2760 | const std::string & refTime, |
---|
2761 | const std::string & method) |
---|
2762 | { |
---|
2763 | LogIO os( casa::LogOrigin("STMath", "frequencyAlign()", WHERE)); |
---|
2764 | // clone as this is not working insitu |
---|
2765 | bool insitu = insitu_; |
---|
2766 | setInsitu(false); |
---|
2767 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
2768 | setInsitu(insitu); |
---|
2769 | Table& tout = out->table(); |
---|
2770 | // Get reference Epoch to time of first row or given String |
---|
2771 | Unit DAY(String("d")); |
---|
2772 | MEpoch::Ref epochRef(in->getTimeReference()); |
---|
2773 | MEpoch refEpoch; |
---|
2774 | if (refTime.length()>0) { |
---|
2775 | Quantum<Double> qt; |
---|
2776 | if (MVTime::read(qt,refTime)) { |
---|
2777 | MVEpoch mv(qt); |
---|
2778 | refEpoch = MEpoch(mv, epochRef); |
---|
2779 | } else { |
---|
2780 | throw(AipsError("Invalid format for Epoch string")); |
---|
2781 | } |
---|
2782 | } else { |
---|
2783 | refEpoch = in->timeCol_(0); |
---|
2784 | } |
---|
2785 | MPosition refPos = in->getAntennaPosition(); |
---|
2786 | |
---|
2787 | InterpolateArray1D<Double,Float>::InterpolationMethod interp = stringToIMethod(method); |
---|
2788 | /* |
---|
2789 | // Comment from MV. |
---|
2790 | // the following code has been commented out because different FREQ_IDs have to be aligned together even |
---|
2791 | // if the frame doesn't change. So far, lack of this check didn't cause any problems. |
---|
2792 | // test if user frame is different to base frame |
---|
2793 | if ( in->frequencies().getFrameString(true) |
---|
2794 | == in->frequencies().getFrameString(false) ) { |
---|
2795 | throw(AipsError("Can't convert as no output frame has been set" |
---|
2796 | " (use set_freqframe) or it is aligned already.")); |
---|
2797 | } |
---|
2798 | */ |
---|
2799 | MFrequency::Types system = in->frequencies().getFrame(); |
---|
2800 | MVTime mvt(refEpoch.getValue()); |
---|
2801 | String epochout = mvt.string(MVTime::YMD) + String(" (") + refEpoch.getRefString() + String(")"); |
---|
2802 | os << "Aligning at reference Epoch " << epochout |
---|
2803 | << " in frame " << MFrequency::showType(system) << LogIO::POST; |
---|
2804 | // set up the iterator |
---|
2805 | Block<String> cols(4); |
---|
2806 | // select by constant direction |
---|
2807 | cols[0] = String("SRCNAME"); |
---|
2808 | cols[1] = String("BEAMNO"); |
---|
2809 | // select by IF ( no of channels varies over this ) |
---|
2810 | cols[2] = String("IFNO"); |
---|
2811 | // select by restfrequency |
---|
2812 | cols[3] = String("MOLECULE_ID"); |
---|
2813 | TableIterator iter(tout, cols); |
---|
2814 | while ( !iter.pastEnd() ) { |
---|
2815 | Table t = iter.table(); |
---|
2816 | ROScalarColumn<String> snCol(t, "SRCNAME"); |
---|
2817 | os << "Aligning to position of source '" << snCol(0) << "'" << LogIO::POST; |
---|
2818 | MDirection::ROScalarColumn dirCol(t, "DIRECTION"); |
---|
2819 | TableIterator fiter(t, "FREQ_ID"); |
---|
2820 | // determine nchan from the first row. This should work as |
---|
2821 | // we are iterating over BEAMNO and IFNO |
---|
2822 | // we should have constant direction |
---|
2823 | |
---|
2824 | ROArrayColumn<Float> sCol(t, "SPECTRA"); |
---|
2825 | const MDirection direction = dirCol(0); |
---|
2826 | const uInt nchan = sCol(0).nelements(); |
---|
2827 | |
---|
2828 | // skip operations if there is nothing to align |
---|
2829 | if (fiter.pastEnd()) { |
---|
2830 | continue; |
---|
2831 | } |
---|
2832 | |
---|
2833 | Table ftab = fiter.table(); |
---|
2834 | // align all frequency ids with respect to the first encountered id |
---|
2835 | ScalarColumn<uInt> freqidCol(ftab, "FREQ_ID"); |
---|
2836 | // get the SpectralCoordinate for the freqid, which we are iterating over |
---|
2837 | SpectralCoordinate sC = \ |
---|
2838 | in->frequencies().getSpectralCoordinate(freqidCol(0)); |
---|
2839 | FrequencyAligner<Float> fa( sC, nchan, refEpoch, |
---|
2840 | direction, refPos, system ); |
---|
2841 | // realign the SpectralCoordinate and put into the output Scantable |
---|
2842 | Vector<String> units(1); |
---|
2843 | units = String("Hz"); |
---|
2844 | Bool linear=True; |
---|
2845 | SpectralCoordinate sc2 = fa.alignedSpectralCoordinate(linear); |
---|
2846 | sc2.setWorldAxisUnits(units); |
---|
2847 | const uInt id = out->frequencies().addEntry(sc2.referencePixel()[0], |
---|
2848 | sc2.referenceValue()[0], |
---|
2849 | sc2.increment()[0]); |
---|
2850 | while ( !fiter.pastEnd() ) { |
---|
2851 | |
---|
2852 | ftab = fiter.table(); |
---|
2853 | // spectral coordinate for the current FREQ_ID |
---|
2854 | ScalarColumn<uInt> freqidCol2(ftab, "FREQ_ID"); |
---|
2855 | sC = in->frequencies().getSpectralCoordinate(freqidCol2(0)); |
---|
2856 | // create the "global" abcissa for alignment with same FREQ_ID |
---|
2857 | Vector<Double> abc(nchan); |
---|
2858 | for (uInt i=0; i<nchan; i++) { |
---|
2859 | Double w; |
---|
2860 | sC.toWorld(w,Double(i)); |
---|
2861 | abc[i] = w; |
---|
2862 | } |
---|
2863 | TableVector<uInt> tvec(ftab, "FREQ_ID"); |
---|
2864 | // assign new frequency id to all rows |
---|
2865 | tvec = id; |
---|
2866 | // cache abcissa for same time stamps, so iterate over those |
---|
2867 | TableIterator timeiter(ftab, "TIME"); |
---|
2868 | while ( !timeiter.pastEnd() ) { |
---|
2869 | Table tab = timeiter.table(); |
---|
2870 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
2871 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
2872 | MEpoch::ROScalarColumn timeCol(tab, "TIME"); |
---|
2873 | // use align abcissa cache after the first row |
---|
2874 | // these rows should be just be POLNO |
---|
2875 | bool first = true; |
---|
2876 | for (int i=0; i<int(tab.nrow()); ++i) { |
---|
2877 | // input values |
---|
2878 | Vector<uChar> flag = flagCol(i); |
---|
2879 | Vector<Bool> mask(flag.shape()); |
---|
2880 | Vector<Float> specOut, spec; |
---|
2881 | spec = specCol(i); |
---|
2882 | Vector<Bool> maskOut;Vector<uChar> flagOut; |
---|
2883 | convertArray(mask, flag); |
---|
2884 | // alignment |
---|
2885 | Bool ok = fa.align(specOut, maskOut, abc, spec, |
---|
2886 | mask, timeCol(i), !first, |
---|
2887 | interp, False); |
---|
2888 | (void) ok; // unused stop compiler nagging |
---|
2889 | // back into scantable |
---|
2890 | flagOut.resize(maskOut.nelements()); |
---|
2891 | convertArray(flagOut, maskOut); |
---|
2892 | flagCol.put(i, flagOut); |
---|
2893 | specCol.put(i, specOut); |
---|
2894 | // start abcissa caching |
---|
2895 | first = false; |
---|
2896 | } |
---|
2897 | // next timestamp |
---|
2898 | ++timeiter; |
---|
2899 | } |
---|
2900 | // next FREQ_ID |
---|
2901 | ++fiter; |
---|
2902 | } |
---|
2903 | // next aligner |
---|
2904 | ++iter; |
---|
2905 | } |
---|
2906 | // set this afterwards to ensure we are doing insitu correctly. |
---|
2907 | out->frequencies().setFrame(system, true); |
---|
2908 | return out; |
---|
2909 | } |
---|
2910 | |
---|
2911 | CountedPtr<Scantable> |
---|
2912 | asap::STMath::convertPolarisation( const CountedPtr<Scantable>& in, |
---|
2913 | const std::string & newtype ) |
---|
2914 | { |
---|
2915 | if (in->npol() != 2 && in->npol() != 4) |
---|
2916 | throw(AipsError("Can only convert two or four polarisations.")); |
---|
2917 | if ( in->getPolType() == newtype ) |
---|
2918 | throw(AipsError("No need to convert.")); |
---|
2919 | if ( ! in->selector_.empty() ) |
---|
2920 | throw(AipsError("Can only convert whole scantable. Unset the selection.")); |
---|
2921 | bool insitu = insitu_; |
---|
2922 | setInsitu(false); |
---|
2923 | CountedPtr< Scantable > out = getScantable(in, true); |
---|
2924 | setInsitu(insitu); |
---|
2925 | Table& tout = out->table(); |
---|
2926 | tout.rwKeywordSet().define("POLTYPE", String(newtype)); |
---|
2927 | |
---|
2928 | Block<String> cols(4); |
---|
2929 | cols[0] = "SCANNO"; |
---|
2930 | cols[1] = "CYCLENO"; |
---|
2931 | cols[2] = "BEAMNO"; |
---|
2932 | cols[3] = "IFNO"; |
---|
2933 | TableIterator it(in->originalTable_, cols); |
---|
2934 | String basetype = in->getPolType(); |
---|
2935 | STPol* stpol = STPol::getPolClass(in->factories_, basetype); |
---|
2936 | try { |
---|
2937 | while ( !it.pastEnd() ) { |
---|
2938 | Table tab = it.table(); |
---|
2939 | uInt row = tab.rowNumbers()[0]; |
---|
2940 | stpol->setSpectra(in->getPolMatrix(row)); |
---|
2941 | Float fang,fhand; |
---|
2942 | fang = in->focusTable_.getTotalAngle(in->mfocusidCol_(row)); |
---|
2943 | fhand = in->focusTable_.getFeedHand(in->mfocusidCol_(row)); |
---|
2944 | stpol->setPhaseCorrections(fang, fhand); |
---|
2945 | Int npolout = 0; |
---|
2946 | for (uInt i=0; i<tab.nrow(); ++i) { |
---|
2947 | Vector<Float> outvec = stpol->getSpectrum(i, newtype); |
---|
2948 | if ( outvec.nelements() > 0 ) { |
---|
2949 | tout.addRow(); |
---|
2950 | TableCopy::copyRows(tout, tab, tout.nrow()-1, 0, 1); |
---|
2951 | ArrayColumn<Float> sCol(tout,"SPECTRA"); |
---|
2952 | ScalarColumn<uInt> pCol(tout,"POLNO"); |
---|
2953 | sCol.put(tout.nrow()-1 ,outvec); |
---|
2954 | pCol.put(tout.nrow()-1 ,uInt(npolout)); |
---|
2955 | npolout++; |
---|
2956 | } |
---|
2957 | } |
---|
2958 | tout.rwKeywordSet().define("nPol", npolout); |
---|
2959 | ++it; |
---|
2960 | } |
---|
2961 | } catch (AipsError& e) { |
---|
2962 | delete stpol; |
---|
2963 | throw(e); |
---|
2964 | } |
---|
2965 | delete stpol; |
---|
2966 | return out; |
---|
2967 | } |
---|
2968 | |
---|
2969 | CountedPtr< Scantable > |
---|
2970 | asap::STMath::mxExtract( const CountedPtr< Scantable > & in, |
---|
2971 | const std::string & scantype ) |
---|
2972 | { |
---|
2973 | bool insitu = insitu_; |
---|
2974 | setInsitu(false); |
---|
2975 | CountedPtr< Scantable > out = getScantable(in, true); |
---|
2976 | setInsitu(insitu); |
---|
2977 | Table& tout = out->table(); |
---|
2978 | std::string taql = "SELECT FROM $1 WHERE BEAMNO != REFBEAMNO"; |
---|
2979 | if (scantype == "on") { |
---|
2980 | taql = "SELECT FROM $1 WHERE BEAMNO == REFBEAMNO"; |
---|
2981 | } |
---|
2982 | Table tab = tableCommand(taql, in->table()); |
---|
2983 | TableCopy::copyRows(tout, tab); |
---|
2984 | if (scantype == "on") { |
---|
2985 | // re-index SCANNO to 0 |
---|
2986 | TableVector<uInt> vec(tout, "SCANNO"); |
---|
2987 | vec = 0; |
---|
2988 | } |
---|
2989 | return out; |
---|
2990 | } |
---|
2991 | |
---|
2992 | std::vector<float> |
---|
2993 | asap::STMath::fft( const casa::CountedPtr< Scantable > & in, |
---|
2994 | const std::vector<int>& whichrow, |
---|
2995 | bool getRealImag ) |
---|
2996 | { |
---|
2997 | std::vector<float> res; |
---|
2998 | Table tab = in->table(); |
---|
2999 | std::vector<bool> mask; |
---|
3000 | |
---|
3001 | if (whichrow.size() < 1) { // for all rows (by default) |
---|
3002 | int nrow = int(tab.nrow()); |
---|
3003 | for (int i = 0; i < nrow; ++i) { |
---|
3004 | res = in->execFFT(i, mask, getRealImag); |
---|
3005 | } |
---|
3006 | } else { // for specified rows |
---|
3007 | for (uInt i = 0; i < whichrow.size(); ++i) { |
---|
3008 | res = in->execFFT(i, mask, getRealImag); |
---|
3009 | } |
---|
3010 | } |
---|
3011 | |
---|
3012 | return res; |
---|
3013 | } |
---|
3014 | |
---|
3015 | |
---|
3016 | CountedPtr<Scantable> |
---|
3017 | asap::STMath::lagFlag( const CountedPtr<Scantable>& in, |
---|
3018 | double start, double end, |
---|
3019 | const std::string& mode ) |
---|
3020 | { |
---|
3021 | CountedPtr<Scantable> out = getScantable(in, false); |
---|
3022 | Table& tout = out->table(); |
---|
3023 | TableIterator iter(tout, "FREQ_ID"); |
---|
3024 | FFTServer<Float,Complex> ffts; |
---|
3025 | |
---|
3026 | while ( !iter.pastEnd() ) { |
---|
3027 | Table tab = iter.table(); |
---|
3028 | Double rp,rv,inc; |
---|
3029 | ROTableRow row(tab); |
---|
3030 | const TableRecord& rec = row.get(0); |
---|
3031 | uInt freqid = rec.asuInt("FREQ_ID"); |
---|
3032 | out->frequencies().getEntry(rp, rv, inc, freqid); |
---|
3033 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
3034 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
3035 | |
---|
3036 | for (int i=0; i<int(tab.nrow()); ++i) { |
---|
3037 | Vector<Float> spec = specCol(i); |
---|
3038 | Vector<uChar> flag = flagCol(i); |
---|
3039 | std::vector<bool> mask; |
---|
3040 | for (uInt j = 0; j < flag.nelements(); ++j) { |
---|
3041 | mask.push_back(!(flag[j]>0)); |
---|
3042 | } |
---|
3043 | mathutil::doZeroOrderInterpolation(spec, mask); |
---|
3044 | |
---|
3045 | Vector<Complex> lags; |
---|
3046 | ffts.fft0(lags, spec); |
---|
3047 | |
---|
3048 | Int lag0(start+0.5); |
---|
3049 | Int lag1(end+0.5); |
---|
3050 | if (mode == "frequency") { |
---|
3051 | lag0 = Int(spec.nelements()*abs(inc)/(start)+0.5); |
---|
3052 | lag1 = Int(spec.nelements()*abs(inc)/(end)+0.5); |
---|
3053 | } |
---|
3054 | Int lstart = max(0, lag0); |
---|
3055 | Int lend = min(Int(lags.nelements()-1), lag1); |
---|
3056 | if (lstart == lend) { |
---|
3057 | lags[lstart] = Complex(0.0); |
---|
3058 | } else { |
---|
3059 | if (lstart > lend) { |
---|
3060 | Int tmp = lend; |
---|
3061 | lend = lstart; |
---|
3062 | lstart = tmp; |
---|
3063 | } |
---|
3064 | for (int j=lstart; j <=lend ;++j) { |
---|
3065 | lags[j] = Complex(0.0); |
---|
3066 | } |
---|
3067 | } |
---|
3068 | |
---|
3069 | ffts.fft0(spec, lags); |
---|
3070 | |
---|
3071 | specCol.put(i, spec); |
---|
3072 | } |
---|
3073 | ++iter; |
---|
3074 | } |
---|
3075 | return out; |
---|
3076 | } |
---|
3077 | |
---|
3078 | // Averaging spectra with different channel/resolution |
---|
3079 | CountedPtr<Scantable> |
---|
3080 | STMath::new_average( const std::vector<CountedPtr<Scantable> >& in, |
---|
3081 | const bool& compel, |
---|
3082 | const std::vector<bool>& mask, |
---|
3083 | const std::string& weight, |
---|
3084 | const std::string& avmode ) |
---|
3085 | throw ( casa::AipsError ) |
---|
3086 | { |
---|
3087 | LogIO os( LogOrigin( "STMath", "new_average()", WHERE ) ) ; |
---|
3088 | if ( avmode == "SCAN" && in.size() != 1 ) |
---|
3089 | throw(AipsError("Can't perform 'SCAN' averaging on multiple tables.\n" |
---|
3090 | "Use merge first.")); |
---|
3091 | |
---|
3092 | CountedPtr<Scantable> out ; // processed result |
---|
3093 | if ( compel ) { |
---|
3094 | std::vector< CountedPtr<Scantable> > newin ; // input for average process |
---|
3095 | uInt insize = in.size() ; // number of input scantables |
---|
3096 | |
---|
3097 | // setup newin |
---|
3098 | bool oldInsitu = insitu_ ; |
---|
3099 | setInsitu( false ) ; |
---|
3100 | newin.resize( insize ) ; |
---|
3101 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3102 | newin[itable] = getScantable( in[itable], false ) ; |
---|
3103 | } |
---|
3104 | setInsitu( oldInsitu ) ; |
---|
3105 | |
---|
3106 | // warning |
---|
3107 | os << "Average spectra with different spectral resolution" << LogIO::POST ; |
---|
3108 | |
---|
3109 | // temporarily set coordinfo |
---|
3110 | vector<string> oldinfo( insize ) ; |
---|
3111 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3112 | vector<string> coordinfo = in[itable]->getCoordInfo() ; |
---|
3113 | oldinfo[itable] = coordinfo[0] ; |
---|
3114 | coordinfo[0] = "Hz" ; |
---|
3115 | newin[itable]->setCoordInfo( coordinfo ) ; |
---|
3116 | } |
---|
3117 | |
---|
3118 | ostringstream oss ; |
---|
3119 | |
---|
3120 | // check IF frequency coverage |
---|
3121 | // freqid: list of FREQ_ID, which is used, in each table |
---|
3122 | // iffreq: list of minimum and maximum frequency for each FREQ_ID in |
---|
3123 | // each table |
---|
3124 | // freqid[insize][numIF] |
---|
3125 | // freqid: [[id00, id01, ...], |
---|
3126 | // [id10, id11, ...], |
---|
3127 | // ... |
---|
3128 | // [idn0, idn1, ...]] |
---|
3129 | // iffreq[insize][numIF*2] |
---|
3130 | // iffreq: [[min_id00, max_id00, min_id01, max_id01, ...], |
---|
3131 | // [min_id10, max_id10, min_id11, max_id11, ...], |
---|
3132 | // ... |
---|
3133 | // [min_idn0, max_idn0, min_idn1, max_idn1, ...]] |
---|
3134 | //os << "Check IF settings in each table" << LogIO::POST ; |
---|
3135 | vector< vector<uInt> > freqid( insize ); |
---|
3136 | vector< vector<double> > iffreq( insize ) ; |
---|
3137 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3138 | Vector<uInt> freqIds = newin[itable]->mfreqidCol_.getColumn() ; |
---|
3139 | vector<uInt> uniqueFreqId = newin[itable]->getNumbers(newin[itable]->mfreqidCol_) ; |
---|
3140 | for ( vector<uInt>::iterator i = uniqueFreqId.begin() ; |
---|
3141 | i != uniqueFreqId.end() ; i++ ) { |
---|
3142 | //os << "itable = " << itable << ": IF " << id << " is included in the list" << LogIO::POST ; |
---|
3143 | uInt target = 0 ; |
---|
3144 | while ( freqIds[target] != *i ) |
---|
3145 | target++ ; |
---|
3146 | vector<double> abcissa = newin[itable]->getAbcissa( target ) ; |
---|
3147 | freqid[itable].push_back( *i ) ; |
---|
3148 | double incr = abs( abcissa[1] - abcissa[0] ) ; |
---|
3149 | iffreq[itable].push_back( (*min_element(abcissa.begin(),abcissa.end()))-0.5*incr ) ; |
---|
3150 | iffreq[itable].push_back( (*max_element(abcissa.begin(),abcissa.end()))+0.5*incr ) ; |
---|
3151 | } |
---|
3152 | } |
---|
3153 | |
---|
3154 | // debug |
---|
3155 | // os << "IF settings summary:" << endl ; |
---|
3156 | // for ( uInt i = 0 ; i < freqid.size() ; i++ ) { |
---|
3157 | // os << " Table" << i << endl ; |
---|
3158 | // for ( uInt j = 0 ; j < freqid[i].size() ; j++ ) { |
---|
3159 | // os << " id = " << freqid[i][j] << " (min,max) = (" << iffreq[i][2*j] << "," << iffreq[i][2*j+1] << ")" << endl ; |
---|
3160 | // } |
---|
3161 | // } |
---|
3162 | // os << endl ; |
---|
3163 | // os.post() ; |
---|
3164 | |
---|
3165 | // IF grouping based on their frequency coverage |
---|
3166 | // ifgrp: number of member in each IF group |
---|
3167 | // ifgrp[numgrp] |
---|
3168 | // ifgrp: [n0, n1, ...] |
---|
3169 | //os << "IF grouping based on their frequency coverage" << LogIO::POST ; |
---|
3170 | |
---|
3171 | // parameter for IF grouping |
---|
3172 | // groupmode = OR retrieve all region |
---|
3173 | // AND only retrieve overlaped region |
---|
3174 | //string groupmode = "AND" ; |
---|
3175 | string groupmode = "OR" ; |
---|
3176 | uInt sizecr = 0 ; |
---|
3177 | if ( groupmode == "AND" ) |
---|
3178 | sizecr = 1 ; |
---|
3179 | else if ( groupmode == "OR" ) |
---|
3180 | sizecr = 0 ; |
---|
3181 | |
---|
3182 | vector<double> sortedfreq ; |
---|
3183 | for ( uInt i = 0 ; i < iffreq.size() ; i++ ) { |
---|
3184 | for ( uInt j = 0 ; j < iffreq[i].size() ; j++ ) { |
---|
3185 | if ( count( sortedfreq.begin(), sortedfreq.end(), iffreq[i][j] ) == 0 ) |
---|
3186 | sortedfreq.push_back( iffreq[i][j] ) ; |
---|
3187 | } |
---|
3188 | } |
---|
3189 | sort( sortedfreq.begin(), sortedfreq.end() ) ; |
---|
3190 | vector<uInt> ifgrp( sortedfreq.size()-1, 0 ) ; |
---|
3191 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3192 | for ( uInt iif = 0 ; iif < freqid[itable].size() ; iif++ ) { |
---|
3193 | double range0 = iffreq[itable][2*iif] ; |
---|
3194 | double range1 = iffreq[itable][2*iif+1] ; |
---|
3195 | for ( uInt j = 0 ; j < sortedfreq.size()-1 ; j++ ) { |
---|
3196 | double fmin = max( range0, sortedfreq[j] ) ; |
---|
3197 | double fmax = min( range1, sortedfreq[j+1] ) ; |
---|
3198 | if ( fmin < fmax ) { |
---|
3199 | ifgrp[j]++ ; |
---|
3200 | } |
---|
3201 | } |
---|
3202 | } |
---|
3203 | } |
---|
3204 | |
---|
3205 | // Grouping continuous IF groups (without frequency gap) |
---|
3206 | // freqgrp: list of IF group indexes in each frequency group |
---|
3207 | // freqgrp[numgrp][nummember] |
---|
3208 | // freqgrp: [[ifgrp00, ifgrp01, ifgrp02, ...], |
---|
3209 | // [ifgrp10, ifgrp11, ifgrp12, ...], |
---|
3210 | // ... |
---|
3211 | // [ifgrpn0, ifgrpn1, ifgrpn2, ...]] |
---|
3212 | // grprange[2*numgrp] |
---|
3213 | // grprange: [fmin0,fmax0,fmin1,fmax1,...] |
---|
3214 | vector< vector<uInt> > freqgrp ; |
---|
3215 | vector<double> grprange ; |
---|
3216 | vector<uInt> grpedge ; |
---|
3217 | for ( uInt igrp = 0 ; igrp < ifgrp.size() ; igrp++ ) { |
---|
3218 | if ( ifgrp[igrp] <= sizecr ) { |
---|
3219 | grpedge.push_back( igrp ) ; |
---|
3220 | } |
---|
3221 | } |
---|
3222 | grpedge.push_back( ifgrp.size() ) ; |
---|
3223 | uInt itmp = 0 ; |
---|
3224 | for ( uInt i = 0 ; i < grpedge.size() ; i++ ) { |
---|
3225 | int n = grpedge[i] - itmp ; |
---|
3226 | if ( n > 0 ) { |
---|
3227 | vector<uInt> members( n ) ; |
---|
3228 | for ( int j = 0 ; j < n ; j++ ) { |
---|
3229 | members[j] = itmp+j ; |
---|
3230 | } |
---|
3231 | freqgrp.push_back( members ) ; |
---|
3232 | grprange.push_back( sortedfreq[itmp] ) ; |
---|
3233 | grprange.push_back( sortedfreq[grpedge[i]] ) ; |
---|
3234 | } |
---|
3235 | itmp += n + 1 ; |
---|
3236 | } |
---|
3237 | |
---|
3238 | // print frequency group |
---|
3239 | oss.str("") ; |
---|
3240 | oss << "Frequency Group summary: " << endl ; |
---|
3241 | oss << " GROUP_ID: [FREQ_MIN, FREQ_MAX]" << endl ; |
---|
3242 | for ( uInt i = 0 ; i < freqgrp.size() ; i++ ) { |
---|
3243 | oss << " GROUP " << setw( 2 ) << i << ": [" << grprange[2*i] << "," << grprange[2*i+1] << "]" ; |
---|
3244 | oss << endl ; |
---|
3245 | } |
---|
3246 | oss << endl ; |
---|
3247 | os << oss.str() << LogIO::POST ; |
---|
3248 | |
---|
3249 | // groups: list of frequency group index whose frequency range overlaps |
---|
3250 | // with that of each table and IF |
---|
3251 | // groups[numtable][numIF] |
---|
3252 | // groups: [[grpx, grpy,...], |
---|
3253 | // [grpa, grpb,...], |
---|
3254 | // ... |
---|
3255 | // [grpk, grpm,...]] |
---|
3256 | vector< vector<uInt> > groups( insize ) ; |
---|
3257 | for ( uInt i = 0 ; i < insize ; i++ ) { |
---|
3258 | groups[i].resize( freqid[i].size() ) ; |
---|
3259 | } |
---|
3260 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3261 | for ( uInt ifreq = 0 ; ifreq < freqid[itable].size() ; ifreq++ ) { |
---|
3262 | double minf = iffreq[itable][2*ifreq] ; |
---|
3263 | uInt groupid ; |
---|
3264 | for ( uInt igrp = 0 ; igrp < freqgrp.size() ; igrp++ ) { |
---|
3265 | vector<uInt> memberlist = freqgrp[igrp] ; |
---|
3266 | if ( (minf >= grprange[2*igrp]) && (minf <= grprange[2*igrp+1]) ) { |
---|
3267 | groupid = igrp ; |
---|
3268 | break ; |
---|
3269 | } |
---|
3270 | } |
---|
3271 | groups[itable][ifreq] = groupid ; |
---|
3272 | } |
---|
3273 | } |
---|
3274 | |
---|
3275 | |
---|
3276 | // print membership |
---|
3277 | oss.str("") ; |
---|
3278 | for ( uInt i = 0 ; i < insize ; i++ ) { |
---|
3279 | oss << "Table " << i << endl ; |
---|
3280 | for ( uInt j = 0 ; j < groups[i].size() ; j++ ) { |
---|
3281 | oss << " FREQ_ID " << setw( 2 ) << freqid[i][j] << ": " ; |
---|
3282 | oss << setw( 2 ) << groups[i][j] ; |
---|
3283 | oss << endl ; |
---|
3284 | } |
---|
3285 | } |
---|
3286 | os << oss.str() << LogIO::POST ; |
---|
3287 | |
---|
3288 | // reset SCANNO and IFNO/FREQ_ID: IF is reset by the result of sortation |
---|
3289 | //os << "All IF number is set to IF group index" << LogIO::POST ; |
---|
3290 | // reset SCANNO only when avmode != "SCAN" |
---|
3291 | if ( avmode != "SCAN" ) { |
---|
3292 | os << "All scan number is set to 0" << LogIO::POST ; |
---|
3293 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3294 | uInt nrow = newin[itable]->nrow() ; |
---|
3295 | Vector<uInt> resetScan( nrow, 0 ) ; |
---|
3296 | newin[itable]->scanCol_.putColumn( resetScan ) ; |
---|
3297 | } |
---|
3298 | } |
---|
3299 | |
---|
3300 | // reset spectra and flagtra: align spectral resolution |
---|
3301 | //os << "Align spectral resolution" << LogIO::POST ; |
---|
3302 | // gmaxdnu: the coarsest frequency resolution in the frequency group |
---|
3303 | // gminfreq: lower frequency edge of the frequency group |
---|
3304 | // gnchan: number of channels for the frequency group |
---|
3305 | vector<double> gmaxdnu( freqgrp.size(), 0.0 ) ; |
---|
3306 | vector<double> gminfreq( freqgrp.size() ) ; |
---|
3307 | vector<double> gnchan( freqgrp.size() ) ; |
---|
3308 | for ( uInt i = 0 ; i < insize ; i++ ) { |
---|
3309 | vector<uInt> members = groups[i] ; |
---|
3310 | for ( uInt j = 0 ; j < members.size() ; j++ ) { |
---|
3311 | uInt groupid = members[j] ; |
---|
3312 | Double rp,rv,ic ; |
---|
3313 | newin[i]->frequencies().getEntry( rp, rv, ic, j ) ; |
---|
3314 | if ( abs(ic) > abs(gmaxdnu[groupid]) ) |
---|
3315 | gmaxdnu[groupid] = ic ; |
---|
3316 | } |
---|
3317 | } |
---|
3318 | for ( uInt igrp = 0 ; igrp < freqgrp.size() ; igrp++ ) { |
---|
3319 | gminfreq[igrp] = grprange[2*igrp] ; |
---|
3320 | double maxfreq = grprange[2*igrp+1] ; |
---|
3321 | gnchan[igrp] = (int)(abs((maxfreq-gminfreq[igrp])/gmaxdnu[igrp])+0.9) ; |
---|
3322 | } |
---|
3323 | |
---|
3324 | // regrid spectral data and update frequency info |
---|
3325 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3326 | Vector<uInt> oldFreqId = newin[itable]->mfreqidCol_.getColumn() ; |
---|
3327 | Vector<uInt> newFreqId( oldFreqId.nelements() ) ; |
---|
3328 | |
---|
3329 | // update MAIN |
---|
3330 | for ( uInt irow = 0 ; irow < newin[itable]->nrow() ; irow++ ) { |
---|
3331 | uInt groupid = groups[itable][oldFreqId[irow]] ; |
---|
3332 | newFreqId[irow] = groupid ; |
---|
3333 | newin[itable]->regridChannel( gnchan[groupid], |
---|
3334 | gmaxdnu[groupid], |
---|
3335 | gminfreq[groupid], |
---|
3336 | irow ) ; |
---|
3337 | } |
---|
3338 | newin[itable]->mfreqidCol_.putColumn( newFreqId ) ; |
---|
3339 | newin[itable]->ifCol_.putColumn( newFreqId ) ; |
---|
3340 | |
---|
3341 | // update FREQUENCIES |
---|
3342 | Table tab = newin[itable]->frequencies().table() ; |
---|
3343 | ScalarColumn<uInt> fIdCol( tab, "ID" ) ; |
---|
3344 | ScalarColumn<Double> fRefPixCol( tab, "REFPIX" ) ; |
---|
3345 | ScalarColumn<Double> fRefValCol( tab, "REFVAL" ) ; |
---|
3346 | ScalarColumn<Double> fIncrCol( tab, "INCREMENT" ) ; |
---|
3347 | if ( freqgrp.size() > tab.nrow() ) { |
---|
3348 | tab.addRow( freqgrp.size()-tab.nrow() ) ; |
---|
3349 | } |
---|
3350 | for ( uInt irow = 0 ; irow < freqgrp.size() ; irow++ ) { |
---|
3351 | Double refval = gminfreq[irow] + 0.5 * abs(gmaxdnu[irow]) ; |
---|
3352 | Double refpix = (gmaxdnu[irow] > 0.0) ? 0 : gnchan[irow]-1 ; |
---|
3353 | Double increment = gmaxdnu[irow] ; |
---|
3354 | fIdCol.put( irow, irow ) ; |
---|
3355 | fRefPixCol.put( irow, refpix ) ; |
---|
3356 | fRefValCol.put( irow, refval ) ; |
---|
3357 | fIncrCol.put( irow, increment ) ; |
---|
3358 | } |
---|
3359 | } |
---|
3360 | |
---|
3361 | // set back coordinfo |
---|
3362 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
3363 | vector<string> coordinfo = newin[itable]->getCoordInfo() ; |
---|
3364 | coordinfo[0] = oldinfo[itable] ; |
---|
3365 | newin[itable]->setCoordInfo( coordinfo ) ; |
---|
3366 | } |
---|
3367 | |
---|
3368 | // average |
---|
3369 | out = average( newin, mask, weight, avmode ) ; |
---|
3370 | } |
---|
3371 | else { |
---|
3372 | // simple average |
---|
3373 | out = average( in, mask, weight, avmode ) ; |
---|
3374 | } |
---|
3375 | |
---|
3376 | return out; |
---|
3377 | } |
---|
3378 | |
---|
3379 | CountedPtr<Scantable> STMath::cwcal( const CountedPtr<Scantable>& s, |
---|
3380 | const String calmode, |
---|
3381 | const String antname ) |
---|
3382 | { |
---|
3383 | // frequency switch |
---|
3384 | if ( calmode == "fs" ) { |
---|
3385 | return cwcalfs( s, antname ) ; |
---|
3386 | } |
---|
3387 | else { |
---|
3388 | vector<bool> masks = s->getMask( 0 ) ; |
---|
3389 | vector<int> types ; |
---|
3390 | |
---|
3391 | // save original table selection |
---|
3392 | Table torg = s->table_ ; |
---|
3393 | |
---|
3394 | // sky scan |
---|
3395 | bool insitu = insitu_ ; |
---|
3396 | insitu_ = false ; |
---|
3397 | // share calibration scans before average with out |
---|
3398 | CountedPtr<Scantable> out = getScantable( s, true ) ; |
---|
3399 | insitu_ = insitu ; |
---|
3400 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::SKY ) ; |
---|
3401 | out->attach() ; |
---|
3402 | CountedPtr<Scantable> asky = averageWithinSession( out, |
---|
3403 | masks, |
---|
3404 | "TINT" ) ; |
---|
3405 | // hot scan |
---|
3406 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::HOT ) ; |
---|
3407 | out->attach() ; |
---|
3408 | CountedPtr<Scantable> ahot = averageWithinSession( out, |
---|
3409 | masks, |
---|
3410 | "TINT" ) ; |
---|
3411 | // cold scan |
---|
3412 | CountedPtr<Scantable> acold ; |
---|
3413 | // out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::COLD ) ; |
---|
3414 | // out->attach() ; |
---|
3415 | // CountedPtr<Scantable> acold = averageWithinSession( out, |
---|
3416 | // masks, |
---|
3417 | // "TINT" ) ; |
---|
3418 | |
---|
3419 | // off scan |
---|
3420 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::PSOFF ) ; |
---|
3421 | out->attach() ; |
---|
3422 | CountedPtr<Scantable> aoff = averageWithinSession( out, |
---|
3423 | masks, |
---|
3424 | "TINT" ) ; |
---|
3425 | |
---|
3426 | // on scan |
---|
3427 | s->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::PSON ) ; |
---|
3428 | s->attach() ; |
---|
3429 | out->table_ = out->originalTable_ ; |
---|
3430 | out->attach() ; |
---|
3431 | out->table().addRow( s->nrow() ) ; |
---|
3432 | copyRows( out->table(), s->table(), 0, 0, s->nrow(), False, True, False ) ; |
---|
3433 | |
---|
3434 | // process each on scan |
---|
3435 | STSelector sel ; |
---|
3436 | vector<string> cols( 3 ) ; |
---|
3437 | cols[0] = "BEAMNO" ; |
---|
3438 | cols[1] = "POLNO" ; |
---|
3439 | cols[2] = "IFNO" ; |
---|
3440 | STIdxIter *iter = new STIdxIterAcc( out, cols ) ; |
---|
3441 | while ( !iter->pastEnd() ) { |
---|
3442 | Vector<uInt> ids = iter->current() ; |
---|
3443 | stringstream ss ; |
---|
3444 | ss << "SELECT FROM $1 WHERE " |
---|
3445 | << "BEAMNO==" << ids[0] << "&&" |
---|
3446 | << "POLNO==" << ids[1] << "&&" |
---|
3447 | << "IFNO==" << ids[2] ; |
---|
3448 | //cout << "TaQL string: " << ss.str() << endl ; |
---|
3449 | sel.setTaQL( ss.str() ) ; |
---|
3450 | aoff->setSelection( sel ) ; |
---|
3451 | ahot->setSelection( sel ) ; |
---|
3452 | asky->setSelection( sel ) ; |
---|
3453 | Vector<uInt> rows = iter->getRows( SHARE ) ; |
---|
3454 | // out should be an exact copy of s except that SPECTRA column is empty |
---|
3455 | calibrateCW( out, s, aoff, asky, ahot, acold, rows, antname ) ; |
---|
3456 | aoff->unsetSelection() ; |
---|
3457 | ahot->unsetSelection() ; |
---|
3458 | asky->unsetSelection() ; |
---|
3459 | sel.reset() ; |
---|
3460 | iter->next() ; |
---|
3461 | } |
---|
3462 | delete iter ; |
---|
3463 | s->table_ = torg ; |
---|
3464 | s->attach() ; |
---|
3465 | |
---|
3466 | // flux unit |
---|
3467 | out->setFluxUnit( "K" ) ; |
---|
3468 | |
---|
3469 | return out ; |
---|
3470 | } |
---|
3471 | } |
---|
3472 | |
---|
3473 | CountedPtr<Scantable> STMath::almacal( const CountedPtr<Scantable>& s, |
---|
3474 | const String calmode ) |
---|
3475 | { |
---|
3476 | // frequency switch |
---|
3477 | if ( calmode == "fs" ) { |
---|
3478 | return almacalfs( s ) ; |
---|
3479 | } |
---|
3480 | else { |
---|
3481 | // double t0, t1 ; |
---|
3482 | // t0 = mathutil::gettimeofday_sec() ; |
---|
3483 | vector<bool> masks = s->getMask( 0 ) ; |
---|
3484 | |
---|
3485 | // save original table selection |
---|
3486 | Table torg = s->table_ ; |
---|
3487 | |
---|
3488 | // off scan |
---|
3489 | // TODO 2010/01/08 TN |
---|
3490 | // Grouping by time should be needed before averaging. |
---|
3491 | // Each group must have own unique SCANNO (should be renumbered). |
---|
3492 | // See PIPELINE/SDCalibration.py |
---|
3493 | bool insitu = insitu_ ; |
---|
3494 | insitu_ = false ; |
---|
3495 | // share off scan before average with out |
---|
3496 | CountedPtr<Scantable> out = getScantable( s, true ) ; |
---|
3497 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::PSOFF ) ; |
---|
3498 | out->attach() ; |
---|
3499 | insitu_ = insitu ; |
---|
3500 | CountedPtr<Scantable> aoff = averageWithinSession( out, |
---|
3501 | masks, |
---|
3502 | "TINT" ) ; |
---|
3503 | |
---|
3504 | // on scan |
---|
3505 | // t0 = mathutil::gettimeofday_sec() ; |
---|
3506 | s->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::PSON ) ; |
---|
3507 | s->attach() ; |
---|
3508 | out->table_ = out->originalTable_ ; |
---|
3509 | out->attach() ; |
---|
3510 | out->table().addRow( s->nrow() ) ; |
---|
3511 | copyRows( out->table(), s->table(), 0, 0, s->nrow(), False ) ; |
---|
3512 | // t1 = mathutil::gettimeofday_sec() ; |
---|
3513 | // cout << "elapsed time for preparing output table: " << t1-t0 << " sec" << endl ; |
---|
3514 | |
---|
3515 | // process each on scan |
---|
3516 | // t0 = mathutil::gettimeofday_sec() ; |
---|
3517 | |
---|
3518 | // using STIdxIterAcc |
---|
3519 | vector<string> cols( 3 ) ; |
---|
3520 | cols[0] = "BEAMNO" ; |
---|
3521 | cols[1] = "POLNO" ; |
---|
3522 | cols[2] = "IFNO" ; |
---|
3523 | STIdxIter *iter = new STIdxIterAcc( out, cols ) ; |
---|
3524 | STSelector sel ; |
---|
3525 | while ( !iter->pastEnd() ) { |
---|
3526 | Vector<uInt> ids = iter->current() ; |
---|
3527 | stringstream ss ; |
---|
3528 | ss << "SELECT FROM $1 WHERE " |
---|
3529 | << "BEAMNO==" << ids[0] << "&&" |
---|
3530 | << "POLNO==" << ids[1] << "&&" |
---|
3531 | << "IFNO==" << ids[2] ; |
---|
3532 | //cout << "TaQL string: " << ss.str() << endl ; |
---|
3533 | sel.setTaQL( ss.str() ) ; |
---|
3534 | aoff->setSelection( sel ) ; |
---|
3535 | Vector<uInt> rows = iter->getRows( SHARE ) ; |
---|
3536 | // out should be an exact copy of s except that SPECTRA column is empty |
---|
3537 | calibrateALMA( out, s, aoff, rows ) ; |
---|
3538 | aoff->unsetSelection() ; |
---|
3539 | sel.reset() ; |
---|
3540 | iter->next() ; |
---|
3541 | } |
---|
3542 | delete iter ; |
---|
3543 | s->table_ = torg ; |
---|
3544 | s->attach() ; |
---|
3545 | |
---|
3546 | // t1 = mathutil::gettimeofday_sec() ; |
---|
3547 | // cout << "elapsed time for calibration: " << t1-t0 << " sec" << endl ; |
---|
3548 | |
---|
3549 | // flux unit |
---|
3550 | out->setFluxUnit( "K" ) ; |
---|
3551 | |
---|
3552 | return out ; |
---|
3553 | } |
---|
3554 | } |
---|
3555 | |
---|
3556 | CountedPtr<Scantable> STMath::cwcalfs( const CountedPtr<Scantable>& s, |
---|
3557 | const String antname ) |
---|
3558 | { |
---|
3559 | vector<int> types ; |
---|
3560 | |
---|
3561 | // APEX calibration mode |
---|
3562 | int apexcalmode = 1 ; |
---|
3563 | |
---|
3564 | if ( antname.find( "APEX" ) != string::npos ) { |
---|
3565 | // check if off scan exists or not |
---|
3566 | STSelector sel = STSelector() ; |
---|
3567 | //sel.setName( offstr1 ) ; |
---|
3568 | types.push_back( SrcType::FLOOFF ) ; |
---|
3569 | sel.setTypes( types ) ; |
---|
3570 | try { |
---|
3571 | s->setSelection( sel ) ; |
---|
3572 | } |
---|
3573 | catch ( AipsError &e ) { |
---|
3574 | apexcalmode = 0 ; |
---|
3575 | } |
---|
3576 | sel.reset() ; |
---|
3577 | } |
---|
3578 | s->unsetSelection() ; |
---|
3579 | types.clear() ; |
---|
3580 | |
---|
3581 | vector<bool> masks = s->getMask( 0 ) ; |
---|
3582 | CountedPtr<Scantable> ssig, sref ; |
---|
3583 | //CountedPtr<Scantable> out ; |
---|
3584 | bool insitu = insitu_ ; |
---|
3585 | insitu_ = False ; |
---|
3586 | CountedPtr<Scantable> out = getScantable( s, true ) ; |
---|
3587 | insitu_ = insitu ; |
---|
3588 | |
---|
3589 | if ( antname.find( "APEX" ) != string::npos ) { |
---|
3590 | // APEX calibration |
---|
3591 | // sky scan |
---|
3592 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FLOSKY ) ; |
---|
3593 | out->attach() ; |
---|
3594 | CountedPtr<Scantable> askylo = averageWithinSession( out, |
---|
3595 | masks, |
---|
3596 | "TINT" ) ; |
---|
3597 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FHISKY ) ; |
---|
3598 | out->attach() ; |
---|
3599 | CountedPtr<Scantable> askyhi = averageWithinSession( out, |
---|
3600 | masks, |
---|
3601 | "TINT" ) ; |
---|
3602 | |
---|
3603 | // hot scan |
---|
3604 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FLOHOT ) ; |
---|
3605 | out->attach() ; |
---|
3606 | CountedPtr<Scantable> ahotlo = averageWithinSession( out, |
---|
3607 | masks, |
---|
3608 | "TINT" ) ; |
---|
3609 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FHIHOT ) ; |
---|
3610 | out->attach() ; |
---|
3611 | CountedPtr<Scantable> ahothi = averageWithinSession( out, |
---|
3612 | masks, |
---|
3613 | "TINT" ) ; |
---|
3614 | |
---|
3615 | // cold scan |
---|
3616 | CountedPtr<Scantable> acoldlo, acoldhi ; |
---|
3617 | // out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FLOCOLD ) ; |
---|
3618 | // out->attach() ; |
---|
3619 | // CountedPtr<Scantable> acoldlo = averageWithinSession( out, |
---|
3620 | // masks, |
---|
3621 | // "TINT" ) ; |
---|
3622 | // out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FHICOLD ) ; |
---|
3623 | // out->attach() ; |
---|
3624 | // CountedPtr<Scantable> acoldhi = averageWithinSession( out, |
---|
3625 | // masks, |
---|
3626 | // "TINT" ) ; |
---|
3627 | |
---|
3628 | // ref scan |
---|
3629 | insitu_ = false ; |
---|
3630 | sref = getScantable( s, true ) ; |
---|
3631 | CountedPtr<Scantable> rref = getScantable( s, true ) ; |
---|
3632 | insitu_ = insitu ; |
---|
3633 | rref->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FSLO ) ; |
---|
3634 | rref->attach() ; |
---|
3635 | copyRows( sref->table_, rref->table_, 0, 0, rref->nrow(), False, True, False ) ; |
---|
3636 | |
---|
3637 | // sig scan |
---|
3638 | insitu_ = false ; |
---|
3639 | ssig = getScantable( s, true ) ; |
---|
3640 | CountedPtr<Scantable> rsig = getScantable( s, true ) ; |
---|
3641 | insitu_ = insitu ; |
---|
3642 | rsig->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FSHI ) ; |
---|
3643 | rsig->attach() ; |
---|
3644 | copyRows( ssig->table_, rsig->table_, 0, 0, rsig->nrow(), False, True, False ) ; |
---|
3645 | |
---|
3646 | if ( apexcalmode == 0 ) { |
---|
3647 | // using STIdxIterAcc |
---|
3648 | vector<string> cols( 3 ) ; |
---|
3649 | cols[0] = "BEAMNO" ; |
---|
3650 | cols[1] = "POLNO" ; |
---|
3651 | cols[2] = "IFNO" ; |
---|
3652 | STIdxIter *iter = new STIdxIterAcc( ssig, cols ) ; |
---|
3653 | STSelector sel ; |
---|
3654 | vector< CountedPtr<Scantable> > on( 2 ) ; |
---|
3655 | on[0] = rsig ; |
---|
3656 | on[1] = rref ; |
---|
3657 | vector< CountedPtr<Scantable> > sky( 2 ) ; |
---|
3658 | sky[0] = askylo ; |
---|
3659 | sky[1] = askyhi ; |
---|
3660 | vector< CountedPtr<Scantable> > hot( 2 ) ; |
---|
3661 | hot[0] = ahotlo ; |
---|
3662 | hot[1] = ahothi ; |
---|
3663 | vector< CountedPtr<Scantable> > cold( 2 ) ; |
---|
3664 | while ( !iter->pastEnd() ) { |
---|
3665 | Vector<uInt> ids = iter->current() ; |
---|
3666 | stringstream ss ; |
---|
3667 | ss << "SELECT FROM $1 WHERE " |
---|
3668 | << "BEAMNO==" << ids[0] << "&&" |
---|
3669 | << "POLNO==" << ids[1] << "&&" |
---|
3670 | << "IFNO==" << ids[2] ; |
---|
3671 | //cout << "TaQL string: " << ss.str() << endl ; |
---|
3672 | sel.setTaQL( ss.str() ) ; |
---|
3673 | sky[0]->setSelection( sel ) ; |
---|
3674 | sky[1]->setSelection( sel ) ; |
---|
3675 | hot[0]->setSelection( sel ) ; |
---|
3676 | hot[1]->setSelection( sel ) ; |
---|
3677 | Vector<uInt> rows = iter->getRows( SHARE ) ; |
---|
3678 | calibrateAPEXFS( ssig, sref, on, sky, hot, cold, rows ) ; |
---|
3679 | sky[0]->unsetSelection() ; |
---|
3680 | sky[1]->unsetSelection() ; |
---|
3681 | hot[0]->unsetSelection() ; |
---|
3682 | hot[1]->unsetSelection() ; |
---|
3683 | sel.reset() ; |
---|
3684 | iter->next() ; |
---|
3685 | } |
---|
3686 | delete iter ; |
---|
3687 | |
---|
3688 | } |
---|
3689 | else if ( apexcalmode == 1 ) { |
---|
3690 | // APEX fs data with off scan |
---|
3691 | // off scan |
---|
3692 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FLOOFF ) ; |
---|
3693 | out->attach() ; |
---|
3694 | CountedPtr<Scantable> aofflo = averageWithinSession( out, |
---|
3695 | masks, |
---|
3696 | "TINT" ) ; |
---|
3697 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::FHIOFF ) ; |
---|
3698 | out->attach() ; |
---|
3699 | CountedPtr<Scantable> aoffhi = averageWithinSession( out, |
---|
3700 | masks, |
---|
3701 | "TINT" ) ; |
---|
3702 | |
---|
3703 | // process each sig and ref scan |
---|
3704 | // STSelector sel ; |
---|
3705 | vector<string> cols( 3 ) ; |
---|
3706 | cols[0] = "BEAMNO" ; |
---|
3707 | cols[1] = "POLNO" ; |
---|
3708 | cols[2] = "IFNO" ; |
---|
3709 | STIdxIter *iter = new STIdxIterAcc( ssig, cols ) ; |
---|
3710 | STSelector sel ; |
---|
3711 | while ( !iter->pastEnd() ) { |
---|
3712 | Vector<uInt> ids = iter->current() ; |
---|
3713 | stringstream ss ; |
---|
3714 | ss << "SELECT FROM $1 WHERE " |
---|
3715 | << "BEAMNO==" << ids[0] << "&&" |
---|
3716 | << "POLNO==" << ids[1] << "&&" |
---|
3717 | << "IFNO==" << ids[2] ; |
---|
3718 | //cout << "TaQL string: " << ss.str() << endl ; |
---|
3719 | sel.setTaQL( ss.str() ) ; |
---|
3720 | aofflo->setSelection( sel ) ; |
---|
3721 | ahotlo->setSelection( sel ) ; |
---|
3722 | askylo->setSelection( sel ) ; |
---|
3723 | Vector<uInt> rows = iter->getRows( SHARE ) ; |
---|
3724 | calibrateCW( ssig, rsig, aofflo, askylo, ahotlo, acoldlo, rows, antname ) ; |
---|
3725 | aofflo->unsetSelection() ; |
---|
3726 | ahotlo->unsetSelection() ; |
---|
3727 | askylo->unsetSelection() ; |
---|
3728 | sel.reset() ; |
---|
3729 | iter->next() ; |
---|
3730 | } |
---|
3731 | delete iter ; |
---|
3732 | iter = new STIdxIterAcc( sref, cols ) ; |
---|
3733 | while ( !iter->pastEnd() ) { |
---|
3734 | Vector<uInt> ids = iter->current() ; |
---|
3735 | stringstream ss ; |
---|
3736 | ss << "SELECT FROM $1 WHERE " |
---|
3737 | << "BEAMNO==" << ids[0] << "&&" |
---|
3738 | << "POLNO==" << ids[1] << "&&" |
---|
3739 | << "IFNO==" << ids[2] ; |
---|
3740 | //cout << "TaQL string: " << ss.str() << endl ; |
---|
3741 | sel.setTaQL( ss.str() ) ; |
---|
3742 | aoffhi->setSelection( sel ) ; |
---|
3743 | ahothi->setSelection( sel ) ; |
---|
3744 | askyhi->setSelection( sel ) ; |
---|
3745 | Vector<uInt> rows = iter->getRows( SHARE ) ; |
---|
3746 | calibrateCW( sref, rref, aoffhi, askyhi, ahothi, acoldhi, rows, antname ) ; |
---|
3747 | aoffhi->unsetSelection() ; |
---|
3748 | ahothi->unsetSelection() ; |
---|
3749 | askyhi->unsetSelection() ; |
---|
3750 | sel.reset() ; |
---|
3751 | iter->next() ; |
---|
3752 | } |
---|
3753 | delete iter ; |
---|
3754 | } |
---|
3755 | } |
---|
3756 | else { |
---|
3757 | // non-APEX fs data |
---|
3758 | // sky scan |
---|
3759 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::SKY ) ; |
---|
3760 | out->attach() ; |
---|
3761 | CountedPtr<Scantable> asky = averageWithinSession( out, |
---|
3762 | masks, |
---|
3763 | "TINT" ) ; |
---|
3764 | STSelector sel = STSelector() ; |
---|
3765 | |
---|
3766 | // hot scan |
---|
3767 | out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::HOT ) ; |
---|
3768 | out->attach() ; |
---|
3769 | CountedPtr<Scantable> ahot = averageWithinSession( out, |
---|
3770 | masks, |
---|
3771 | "TINT" ) ; |
---|
3772 | |
---|
3773 | // cold scan |
---|
3774 | CountedPtr<Scantable> acold ; |
---|
3775 | // out->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::COLD ) ; |
---|
3776 | // out->attach() ; |
---|
3777 | // CountedPtr<Scantable> acold = averageWithinSession( out, |
---|
3778 | // masks, |
---|
3779 | // "TINT" ) ; |
---|
3780 | |
---|
3781 | // ref scan |
---|
3782 | bool insitu = insitu_ ; |
---|
3783 | insitu_ = false ; |
---|
3784 | sref = getScantable( s, true ) ; |
---|
3785 | CountedPtr<Scantable> rref = getScantable( s, true ) ; |
---|
3786 | insitu_ = insitu ; |
---|
3787 | rref->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::PSOFF ) ; |
---|
3788 | rref->attach() ; |
---|
3789 | copyRows( sref->table_, rref->table_, 0, 0, rref->nrow(), False, True, False ) ; |
---|
3790 | |
---|
3791 | // sig scan |
---|
3792 | insitu_ = false ; |
---|
3793 | ssig = getScantable( s, true ) ; |
---|
3794 | CountedPtr<Scantable> rsig = getScantable( s, true ) ; |
---|
3795 | insitu_ = insitu ; |
---|
3796 | rsig->table_ = s->table_( s->table_.col("SRCTYPE") == (Int)SrcType::PSON ) ; |
---|
3797 | rsig->attach() ; |
---|
3798 | copyRows( ssig->table_, rsig->table_, 0, 0, rsig->nrow(), False, True, False ) ; |
---|
3799 | |
---|
3800 | // process each sig and ref scan |
---|
3801 | vector<string> cols( 3 ) ; |
---|
3802 | cols[0] = "BEAMNO" ; |
---|
3803 | cols[1] = "POLNO" ; |
---|
3804 | cols[2] = "IFNO" ; |
---|
3805 | STIdxIter *iter = new STIdxIterAcc( ssig, cols ) ; |
---|
3806 | while ( !iter->pastEnd() ) { |
---|
3807 | Vector<uInt> ids = iter->current() ; |
---|
3808 | stringstream ss ; |
---|
3809 | ss << "SELECT FROM $1 WHERE " |
---|
3810 | << "BEAMNO==" << ids[0] << "&&" |
---|
3811 | << "POLNO==" << ids[1] << "&&" |
---|
3812 | << "IFNO==" << ids[2] ; |
---|
3813 | //cout << "TaQL string: " << ss.str() << endl ; |
---|
3814 | sel.setTaQL( ss.str() ) ; |
---|
3815 | ahot->setSelection( sel ) ; |
---|
3816 | asky->setSelection( sel ) ; |
---|
3817 | Vector<uInt> rows = iter->getRows( SHARE ) ; |
---|
3818 | // out should be an exact copy of s except that SPECTRA column is empty |
---|
3819 | calibrateFS( ssig, sref, rsig, rref, asky, ahot, acold, rows ) ; |
---|
3820 | ahot->unsetSelection() ; |
---|
3821 | asky->unsetSelection() ; |
---|
3822 | sel.reset() ; |
---|
3823 | iter->next() ; |
---|
3824 | } |
---|
3825 | delete iter ; |
---|
3826 | } |
---|
3827 | |
---|
3828 | // do folding if necessary |
---|
3829 | Table sigtab = ssig->table() ; |
---|
3830 | Table reftab = sref->table() ; |
---|
3831 | ScalarColumn<uInt> reffidCol ; |
---|
3832 | Int nchan = (Int)ssig->nchan() ; |
---|
3833 | reffidCol.attach( reftab, "FREQ_ID" ) ; |
---|
3834 | Vector<uInt> sfids = ssig->mfreqidCol_.getColumn() ; |
---|
3835 | Vector<uInt> rfids = sref->mfreqidCol_.getColumn() ; |
---|
3836 | vector<uInt> sfids_unique ; |
---|
3837 | vector<uInt> rfids_unique ; |
---|
3838 | vector<uInt> sifno_unique ; |
---|
3839 | vector<uInt> rifno_unique ; |
---|
3840 | for ( uInt i = 0 ; i < sfids.nelements() ; i++ ) { |
---|
3841 | if ( count( sfids_unique.begin(), sfids_unique.end(), sfids[i] ) == 0 ) { |
---|
3842 | sfids_unique.push_back( sfids[i] ) ; |
---|
3843 | sifno_unique.push_back( ssig->getIF( i ) ) ; |
---|
3844 | } |
---|
3845 | if ( count( rfids_unique.begin(), rfids_unique.end(), rfids[i] ) == 0 ) { |
---|
3846 | rfids_unique.push_back( rfids[i] ) ; |
---|
3847 | rifno_unique.push_back( sref->getIF( i ) ) ; |
---|
3848 | } |
---|
3849 | } |
---|
3850 | double refpix_sig, refval_sig, increment_sig ; |
---|
3851 | double refpix_ref, refval_ref, increment_ref ; |
---|
3852 | vector< CountedPtr<Scantable> > tmp( sfids_unique.size() ) ; |
---|
3853 | for ( uInt i = 0 ; i < sfids_unique.size() ; i++ ) { |
---|
3854 | ssig->frequencies().getEntry( refpix_sig, refval_sig, increment_sig, sfids_unique[i] ) ; |
---|
3855 | sref->frequencies().getEntry( refpix_ref, refval_ref, increment_ref, rfids_unique[i] ) ; |
---|
3856 | if ( refpix_sig == refpix_ref ) { |
---|
3857 | double foffset = refval_ref - refval_sig ; |
---|
3858 | int choffset = static_cast<int>(foffset/increment_sig) ; |
---|
3859 | double doffset = foffset / increment_sig ; |
---|
3860 | if ( abs(choffset) >= nchan ) { |
---|
3861 | LogIO os( LogOrigin( "STMath", "cwcalfs", WHERE ) ) ; |
---|
3862 | os << "FREQ_ID=[" << sfids_unique[i] << "," << rfids_unique[i] << "]: out-band frequency switching, no folding" << LogIO::POST ; |
---|
3863 | os << "Just return signal data" << LogIO::POST ; |
---|
3864 | //std::vector< CountedPtr<Scantable> > tabs ; |
---|
3865 | //tabs.push_back( ssig ) ; |
---|
3866 | //tabs.push_back( sref ) ; |
---|
3867 | //out = merge( tabs ) ; |
---|
3868 | tmp[i] = ssig ; |
---|
3869 | } |
---|
3870 | else { |
---|
3871 | STSelector sel = STSelector() ; |
---|
3872 | vector<int> v( 1, sifno_unique[i] ) ; |
---|
3873 | sel.setIFs( v ) ; |
---|
3874 | ssig->setSelection( sel ) ; |
---|
3875 | sel.reset() ; |
---|
3876 | v[0] = rifno_unique[i] ; |
---|
3877 | sel.setIFs( v ) ; |
---|
3878 | sref->setSelection( sel ) ; |
---|
3879 | sel.reset() ; |
---|
3880 | if ( antname.find( "APEX" ) != string::npos ) { |
---|
3881 | tmp[i] = dofold( ssig, sref, 0.5*doffset, -0.5*doffset ) ; |
---|
3882 | //tmp[i] = dofold( ssig, sref, doffset ) ; |
---|
3883 | } |
---|
3884 | else { |
---|
3885 | tmp[i] = dofold( ssig, sref, doffset ) ; |
---|
3886 | } |
---|
3887 | ssig->unsetSelection() ; |
---|
3888 | sref->unsetSelection() ; |
---|
3889 | } |
---|
3890 | } |
---|
3891 | } |
---|
3892 | |
---|
3893 | if ( tmp.size() > 1 ) { |
---|
3894 | out = merge( tmp ) ; |
---|
3895 | } |
---|
3896 | else { |
---|
3897 | out = tmp[0] ; |
---|
3898 | } |
---|
3899 | |
---|
3900 | // flux unit |
---|
3901 | out->setFluxUnit( "K" ) ; |
---|
3902 | |
---|
3903 | return out ; |
---|
3904 | } |
---|
3905 | |
---|
3906 | CountedPtr<Scantable> STMath::almacalfs( const CountedPtr<Scantable>& s ) |
---|
3907 | { |
---|
3908 | (void) s; //currently unused |
---|
3909 | CountedPtr<Scantable> out ; |
---|
3910 | |
---|
3911 | return out ; |
---|
3912 | } |
---|
3913 | |
---|
3914 | Vector<Float> STMath::getSpectrumFromTime( double reftime, |
---|
3915 | const Vector<Double> &timeVec, |
---|
3916 | const vector<int> &idx, |
---|
3917 | const Matrix<Float>& spectra, |
---|
3918 | string mode ) |
---|
3919 | { |
---|
3920 | LogIO os( LogOrigin( "STMath", "getSpectrumFromTime", WHERE ) ) ; |
---|
3921 | Vector<Float> sp ; |
---|
3922 | uInt ncol = spectra.ncolumn() ; |
---|
3923 | |
---|
3924 | if ( ncol == 0 ) { |
---|
3925 | os << LogIO::SEVERE << "No spectra in the input scantable. Return empty spectrum." << LogIO::POST ; |
---|
3926 | return sp ; |
---|
3927 | } |
---|
3928 | else if ( ncol == 1 ) { |
---|
3929 | //os << "use row " << 0 << " (scanno = " << s->getScan( 0 ) << ")" << LogIO::POST ; |
---|
3930 | sp.reference( spectra.column( 0 ) ) ; |
---|
3931 | return sp ; |
---|
3932 | } |
---|
3933 | else { |
---|
3934 | if ( mode == "before" ) { |
---|
3935 | int id = -1 ; |
---|
3936 | if ( idx[0] != -1 ) { |
---|
3937 | id = idx[0] ; |
---|
3938 | } |
---|
3939 | else if ( idx[1] != -1 ) { |
---|
3940 | os << LogIO::WARN << "Failed to find a scan before reftime. return a spectrum just after the reftime." << LogIO::POST ; |
---|
3941 | id = idx[1] ; |
---|
3942 | } |
---|
3943 | //os << "use row " << id << " (scanno = " << s->getScan( id ) << ")" << LogIO::POST ; |
---|
3944 | sp.reference( spectra.column( id ) ) ; |
---|
3945 | } |
---|
3946 | else if ( mode == "after" ) { |
---|
3947 | int id = -1 ; |
---|
3948 | if ( idx[1] != -1 ) { |
---|
3949 | id = idx[1] ; |
---|
3950 | } |
---|
3951 | else if ( idx[0] != -1 ) { |
---|
3952 | os << LogIO::WARN << "Failed to find a scan after reftime. return a spectrum just before the reftime." << LogIO::POST ; |
---|
3953 | id = idx[1] ; |
---|
3954 | } |
---|
3955 | //os << "use row " << id << " (scanno = " << s->getScan( id ) << ")" << LogIO::POST ; |
---|
3956 | sp.reference( spectra.column( id ) ) ; |
---|
3957 | } |
---|
3958 | else if ( mode == "nearest" ) { |
---|
3959 | int id = -1 ; |
---|
3960 | if ( idx[0] == -1 ) { |
---|
3961 | id = idx[1] ; |
---|
3962 | } |
---|
3963 | else if ( idx[1] == -1 ) { |
---|
3964 | id = idx[0] ; |
---|
3965 | } |
---|
3966 | else if ( idx[0] == idx[1] ) { |
---|
3967 | id = idx[0] ; |
---|
3968 | } |
---|
3969 | else { |
---|
3970 | double t0 = timeVec[idx[0]] ; |
---|
3971 | double t1 = timeVec[idx[1]] ; |
---|
3972 | double tref = reftime ; |
---|
3973 | if ( abs( t0 - tref ) > abs( t1 - tref ) ) { |
---|
3974 | id = idx[1] ; |
---|
3975 | } |
---|
3976 | else { |
---|
3977 | id = idx[0] ; |
---|
3978 | } |
---|
3979 | } |
---|
3980 | //os << "use row " << id << " (scanno = " << s->getScan( id ) << ")" << LogIO::POST ; |
---|
3981 | sp.reference( spectra.column( id ) ) ; |
---|
3982 | } |
---|
3983 | else if ( mode == "linear" ) { |
---|
3984 | if ( idx[0] == -1 ) { |
---|
3985 | // use after |
---|
3986 | os << LogIO::WARN << "Failed to interpolate. return a spectrum just after the reftime." << LogIO::POST ; |
---|
3987 | int id = idx[1] ; |
---|
3988 | //os << "use row " << id << " (scanno = " << s->getScan( id ) << ")" << LogIO::POST ; |
---|
3989 | sp.reference( spectra.column( id ) ) ; |
---|
3990 | } |
---|
3991 | else if ( idx[1] == -1 ) { |
---|
3992 | // use before |
---|
3993 | os << LogIO::WARN << "Failed to interpolate. return a spectrum just before the reftime." << LogIO::POST ; |
---|
3994 | int id = idx[0] ; |
---|
3995 | //os << "use row " << id << " (scanno = " << s->getScan( id ) << ")" << LogIO::POST ; |
---|
3996 | sp.reference( spectra.column( id ) ) ; |
---|
3997 | } |
---|
3998 | else if ( idx[0] == idx[1] ) { |
---|
3999 | // use before |
---|
4000 | //os << "No need to interporate." << LogIO::POST ; |
---|
4001 | int id = idx[0] ; |
---|
4002 | //os << "use row " << id << " (scanno = " << s->getScan( id ) << ")" << LogIO::POST ; |
---|
4003 | sp.reference( spectra.column( id ) ) ; |
---|
4004 | } |
---|
4005 | else { |
---|
4006 | // do interpolation |
---|
4007 | //os << "interpolate between " << idx[0] << " and " << idx[1] << " (scanno: " << s->getScan( idx[0] ) << ", " << s->getScan( idx[1] ) << ")" << LogIO::POST ; |
---|
4008 | double t0 = timeVec[idx[0]] ; |
---|
4009 | double t1 = timeVec[idx[1]] ; |
---|
4010 | double tref = reftime ; |
---|
4011 | sp = spectra.column( idx[0] ).copy() ; |
---|
4012 | Vector<Float> sp1( spectra.column( idx[1] ) ) ; |
---|
4013 | double tfactor = ( tref - t0 ) / ( t1 - t0 ) ; |
---|
4014 | for ( unsigned int i = 0 ; i < sp.size() ; i++ ) { |
---|
4015 | sp[i] = ( sp1[i] - sp[i] ) * tfactor + sp[i] ; |
---|
4016 | } |
---|
4017 | } |
---|
4018 | } |
---|
4019 | else { |
---|
4020 | os << LogIO::SEVERE << "Unknown mode" << LogIO::POST ; |
---|
4021 | } |
---|
4022 | return sp ; |
---|
4023 | } |
---|
4024 | } |
---|
4025 | |
---|
4026 | vector<int> STMath::getRowIdFromTime( double reftime, const Vector<Double> &t ) |
---|
4027 | { |
---|
4028 | // double reft = reftime ; |
---|
4029 | double dtmin = 1.0e100 ; |
---|
4030 | double dtmax = -1.0e100 ; |
---|
4031 | // vector<double> dt ; |
---|
4032 | int just_before = -1 ; |
---|
4033 | int just_after = -1 ; |
---|
4034 | Vector<Double> dt = t - reftime ; |
---|
4035 | for ( unsigned int i = 0 ; i < dt.size() ; i++ ) { |
---|
4036 | if ( dt[i] > 0.0 ) { |
---|
4037 | // after reftime |
---|
4038 | if ( dt[i] < dtmin ) { |
---|
4039 | just_after = i ; |
---|
4040 | dtmin = dt[i] ; |
---|
4041 | } |
---|
4042 | } |
---|
4043 | else if ( dt[i] < 0.0 ) { |
---|
4044 | // before reftime |
---|
4045 | if ( dt[i] > dtmax ) { |
---|
4046 | just_before = i ; |
---|
4047 | dtmax = dt[i] ; |
---|
4048 | } |
---|
4049 | } |
---|
4050 | else { |
---|
4051 | // just a reftime |
---|
4052 | just_before = i ; |
---|
4053 | just_after = i ; |
---|
4054 | dtmax = 0 ; |
---|
4055 | dtmin = 0 ; |
---|
4056 | break ; |
---|
4057 | } |
---|
4058 | } |
---|
4059 | |
---|
4060 | vector<int> v(2) ; |
---|
4061 | v[0] = just_before ; |
---|
4062 | v[1] = just_after ; |
---|
4063 | |
---|
4064 | return v ; |
---|
4065 | } |
---|
4066 | |
---|
4067 | Vector<Float> STMath::getTcalFromTime( double reftime, |
---|
4068 | const Vector<Double> &timeVec, |
---|
4069 | const vector<int> &idx, |
---|
4070 | const CountedPtr<Scantable>& s, |
---|
4071 | string mode ) |
---|
4072 | { |
---|
4073 | LogIO os( LogOrigin( "STMath", "getTcalFromTime", WHERE ) ) ; |
---|
4074 | STTcal tcalTable = s->tcal() ; |
---|
4075 | String time ; |
---|
4076 | Vector<Float> tcalval ; |
---|
4077 | if ( s->nrow() == 0 ) { |
---|
4078 | os << LogIO::SEVERE << "No row in the input scantable. Return empty tcal." << LogIO::POST ; |
---|
4079 | return tcalval ; |
---|
4080 | } |
---|
4081 | else if ( s->nrow() == 1 ) { |
---|
4082 | uInt tcalid = s->getTcalId( 0 ) ; |
---|
4083 | //os << "use row " << 0 << " (tcalid = " << tcalid << ")" << LogIO::POST ; |
---|
4084 | tcalTable.getEntry( time, tcalval, tcalid ) ; |
---|
4085 | return tcalval ; |
---|
4086 | } |
---|
4087 | else { |
---|
4088 | if ( mode == "before" ) { |
---|
4089 | int id = -1 ; |
---|
4090 | if ( idx[0] != -1 ) { |
---|
4091 | id = idx[0] ; |
---|
4092 | } |
---|
4093 | else if ( idx[1] != -1 ) { |
---|
4094 | os << LogIO::WARN << "Failed to find a scan before reftime. return a spectrum just after the reftime." << LogIO::POST ; |
---|
4095 | id = idx[1] ; |
---|
4096 | } |
---|
4097 | uInt tcalid = s->getTcalId( id ) ; |
---|
4098 | //os << "use row " << id << " (tcalid = " << tcalid << ")" << LogIO::POST ; |
---|
4099 | tcalTable.getEntry( time, tcalval, tcalid ) ; |
---|
4100 | } |
---|
4101 | else if ( mode == "after" ) { |
---|
4102 | int id = -1 ; |
---|
4103 | if ( idx[1] != -1 ) { |
---|
4104 | id = idx[1] ; |
---|
4105 | } |
---|
4106 | else if ( idx[0] != -1 ) { |
---|
4107 | os << LogIO::WARN << "Failed to find a scan after reftime. return a spectrum just before the reftime." << LogIO::POST ; |
---|
4108 | id = idx[1] ; |
---|
4109 | } |
---|
4110 | uInt tcalid = s->getTcalId( id ) ; |
---|
4111 | //os << "use row " << id << " (tcalid = " << tcalid << ")" << LogIO::POST ; |
---|
4112 | tcalTable.getEntry( time, tcalval, tcalid ) ; |
---|
4113 | } |
---|
4114 | else if ( mode == "nearest" ) { |
---|
4115 | int id = -1 ; |
---|
4116 | if ( idx[0] == -1 ) { |
---|
4117 | id = idx[1] ; |
---|
4118 | } |
---|
4119 | else if ( idx[1] == -1 ) { |
---|
4120 | id = idx[0] ; |
---|
4121 | } |
---|
4122 | else if ( idx[0] == idx[1] ) { |
---|
4123 | id = idx[0] ; |
---|
4124 | } |
---|
4125 | else { |
---|
4126 | double t0 = timeVec[idx[0]] ; |
---|
4127 | double t1 = timeVec[idx[1]] ; |
---|
4128 | if ( abs( t0 - reftime ) > abs( t1 - reftime ) ) { |
---|
4129 | id = idx[1] ; |
---|
4130 | } |
---|
4131 | else { |
---|
4132 | id = idx[0] ; |
---|
4133 | } |
---|
4134 | } |
---|
4135 | uInt tcalid = s->getTcalId( id ) ; |
---|
4136 | //os << "use row " << id << " (tcalid = " << tcalid << ")" << LogIO::POST ; |
---|
4137 | tcalTable.getEntry( time, tcalval, tcalid ) ; |
---|
4138 | } |
---|
4139 | else if ( mode == "linear" ) { |
---|
4140 | if ( idx[0] == -1 ) { |
---|
4141 | // use after |
---|
4142 | os << LogIO::WARN << "Failed to interpolate. return a spectrum just after the reftime." << LogIO::POST ; |
---|
4143 | int id = idx[1] ; |
---|
4144 | uInt tcalid = s->getTcalId( id ) ; |
---|
4145 | //os << "use row " << id << " (tcalid = " << tcalid << ")" << LogIO::POST ; |
---|
4146 | tcalTable.getEntry( time, tcalval, tcalid ) ; |
---|
4147 | } |
---|
4148 | else if ( idx[1] == -1 ) { |
---|
4149 | // use before |
---|
4150 | os << LogIO::WARN << "Failed to interpolate. return a spectrum just before the reftime." << LogIO::POST ; |
---|
4151 | int id = idx[0] ; |
---|
4152 | uInt tcalid = s->getTcalId( id ) ; |
---|
4153 | //os << "use row " << id << " (tcalid = " << tcalid << ")" << LogIO::POST ; |
---|
4154 | tcalTable.getEntry( time, tcalval, tcalid ) ; |
---|
4155 | } |
---|
4156 | else if ( idx[0] == idx[1] ) { |
---|
4157 | // use before |
---|
4158 | //os << "No need to interporate." << LogIO::POST ; |
---|
4159 | int id = idx[0] ; |
---|
4160 | uInt tcalid = s->getTcalId( id ) ; |
---|
4161 | //os << "use row " << id << " (tcalid = " << tcalid << ")" << LogIO::POST ; |
---|
4162 | tcalTable.getEntry( time, tcalval, tcalid ) ; |
---|
4163 | } |
---|
4164 | else { |
---|
4165 | // do interpolation |
---|
4166 | //os << "interpolate between " << idx[0] << " and " << idx[1] << " (scanno: " << s->getScan( idx[0] ) << ", " << s->getScan( idx[1] ) << ")" << LogIO::POST ; |
---|
4167 | double t0 = timeVec[idx[0]] ; |
---|
4168 | double t1 = timeVec[idx[1]] ; |
---|
4169 | Vector<Float> tcal0 ; |
---|
4170 | uInt tcalid0 = s->getTcalId( idx[0] ) ; |
---|
4171 | uInt tcalid1 = s->getTcalId( idx[1] ) ; |
---|
4172 | tcalTable.getEntry( time, tcal0, tcalid0 ) ; |
---|
4173 | tcalTable.getEntry( time, tcalval, tcalid1 ) ; |
---|
4174 | double tfactor = (reftime - t0) / (t1 - t0) ; |
---|
4175 | for ( unsigned int i = 0 ; i < tcal0.size() ; i++ ) { |
---|
4176 | tcalval[i] = ( tcalval[i] - tcal0[i] ) * tfactor + tcal0[i] ; |
---|
4177 | } |
---|
4178 | } |
---|
4179 | } |
---|
4180 | else { |
---|
4181 | os << LogIO::SEVERE << "Unknown mode" << LogIO::POST ; |
---|
4182 | } |
---|
4183 | return tcalval ; |
---|
4184 | } |
---|
4185 | } |
---|
4186 | |
---|
4187 | Vector<Float> STMath::getTsysFromTime( double reftime, |
---|
4188 | const Vector<Double> &timeVec, |
---|
4189 | const vector<int> &idx, |
---|
4190 | const CountedPtr<Scantable> &s, |
---|
4191 | string mode ) |
---|
4192 | { |
---|
4193 | LogIO os( LogOrigin( "STMath", "getTsysFromTime", WHERE ) ) ; |
---|
4194 | ArrayColumn<Float> tsysCol ; |
---|
4195 | tsysCol.attach( s->table(), "TSYS" ) ; |
---|
4196 | Vector<Float> tsysval ; |
---|
4197 | if ( s->nrow() == 0 ) { |
---|
4198 | os << LogIO::SEVERE << "No row in the input scantable. Return empty tsys." << LogIO::POST ; |
---|
4199 | return tsysval ; |
---|
4200 | } |
---|
4201 | else if ( s->nrow() == 1 ) { |
---|
4202 | //os << "use row " << 0 << LogIO::POST ; |
---|
4203 | tsysval = tsysCol( 0 ) ; |
---|
4204 | return tsysval ; |
---|
4205 | } |
---|
4206 | else { |
---|
4207 | if ( mode == "before" ) { |
---|
4208 | int id = -1 ; |
---|
4209 | if ( idx[0] != -1 ) { |
---|
4210 | id = idx[0] ; |
---|
4211 | } |
---|
4212 | else if ( idx[1] != -1 ) { |
---|
4213 | os << LogIO::WARN << "Failed to find a scan before reftime. return a spectrum just after the reftime." << LogIO::POST ; |
---|
4214 | id = idx[1] ; |
---|
4215 | } |
---|
4216 | //os << "use row " << id << LogIO::POST ; |
---|
4217 | tsysval = tsysCol( id ) ; |
---|
4218 | } |
---|
4219 | else if ( mode == "after" ) { |
---|
4220 | int id = -1 ; |
---|
4221 | if ( idx[1] != -1 ) { |
---|
4222 | id = idx[1] ; |
---|
4223 | } |
---|
4224 | else if ( idx[0] != -1 ) { |
---|
4225 | os << LogIO::WARN << "Failed to find a scan after reftime. return a spectrum just before the reftime." << LogIO::POST ; |
---|
4226 | id = idx[1] ; |
---|
4227 | } |
---|
4228 | //os << "use row " << id << LogIO::POST ; |
---|
4229 | tsysval = tsysCol( id ) ; |
---|
4230 | } |
---|
4231 | else if ( mode == "nearest" ) { |
---|
4232 | int id = -1 ; |
---|
4233 | if ( idx[0] == -1 ) { |
---|
4234 | id = idx[1] ; |
---|
4235 | } |
---|
4236 | else if ( idx[1] == -1 ) { |
---|
4237 | id = idx[0] ; |
---|
4238 | } |
---|
4239 | else if ( idx[0] == idx[1] ) { |
---|
4240 | id = idx[0] ; |
---|
4241 | } |
---|
4242 | else { |
---|
4243 | double t0 = timeVec[idx[0]] ; |
---|
4244 | double t1 = timeVec[idx[1]] ; |
---|
4245 | if ( abs( t0 - reftime ) > abs( t1 - reftime ) ) { |
---|
4246 | id = idx[1] ; |
---|
4247 | } |
---|
4248 | else { |
---|
4249 | id = idx[0] ; |
---|
4250 | } |
---|
4251 | } |
---|
4252 | //os << "use row " << id << LogIO::POST ; |
---|
4253 | tsysval = tsysCol( id ) ; |
---|
4254 | } |
---|
4255 | else if ( mode == "linear" ) { |
---|
4256 | if ( idx[0] == -1 ) { |
---|
4257 | // use after |
---|
4258 | os << LogIO::WARN << "Failed to interpolate. return a spectrum just after the reftime." << LogIO::POST ; |
---|
4259 | int id = idx[1] ; |
---|
4260 | //os << "use row " << id << LogIO::POST ; |
---|
4261 | tsysval = tsysCol( id ) ; |
---|
4262 | } |
---|
4263 | else if ( idx[1] == -1 ) { |
---|
4264 | // use before |
---|
4265 | os << LogIO::WARN << "Failed to interpolate. return a spectrum just before the reftime." << LogIO::POST ; |
---|
4266 | int id = idx[0] ; |
---|
4267 | //os << "use row " << id << LogIO::POST ; |
---|
4268 | tsysval = tsysCol( id ) ; |
---|
4269 | } |
---|
4270 | else if ( idx[0] == idx[1] ) { |
---|
4271 | // use before |
---|
4272 | //os << "No need to interporate." << LogIO::POST ; |
---|
4273 | int id = idx[0] ; |
---|
4274 | //os << "use row " << id << LogIO::POST ; |
---|
4275 | tsysval = tsysCol( id ) ; |
---|
4276 | } |
---|
4277 | else { |
---|
4278 | // do interpolation |
---|
4279 | //os << "interpolate between " << idx[0] << " and " << idx[1] << " (scanno: " << s->getScan( idx[0] ) << ", " << s->getScan( idx[1] ) << ")" << LogIO::POST ; |
---|
4280 | double t0 = timeVec[idx[0]] ; |
---|
4281 | double t1 = timeVec[idx[1]] ; |
---|
4282 | Vector<Float> tsys0 ; |
---|
4283 | tsys0 = tsysCol( idx[0] ) ; |
---|
4284 | tsysval = tsysCol( idx[1] ) ; |
---|
4285 | double tfactor = (reftime - t0) / (t1 - t0) ; |
---|
4286 | for ( unsigned int i = 0 ; i < tsys0.size() ; i++ ) { |
---|
4287 | tsysval[i] = ( tsysval[i] - tsys0[i] ) * tfactor + tsys0[i] ; |
---|
4288 | } |
---|
4289 | } |
---|
4290 | } |
---|
4291 | else { |
---|
4292 | os << LogIO::SEVERE << "Unknown mode" << LogIO::POST ; |
---|
4293 | } |
---|
4294 | return tsysval ; |
---|
4295 | } |
---|
4296 | } |
---|
4297 | |
---|
4298 | void STMath::calibrateCW( CountedPtr<Scantable> &out, |
---|
4299 | const CountedPtr<Scantable>& on, |
---|
4300 | const CountedPtr<Scantable>& off, |
---|
4301 | const CountedPtr<Scantable>& sky, |
---|
4302 | const CountedPtr<Scantable>& hot, |
---|
4303 | const CountedPtr<Scantable>& cold, |
---|
4304 | const Vector<uInt> &rows, |
---|
4305 | const String &antname ) |
---|
4306 | { |
---|
4307 | // 2012/05/22 TN |
---|
4308 | // Assume that out has empty SPECTRA column |
---|
4309 | |
---|
4310 | // if rows is empty, just return |
---|
4311 | if ( rows.nelements() == 0 ) |
---|
4312 | return ; |
---|
4313 | ROScalarColumn<Double> timeCol( off->table(), "TIME" ) ; |
---|
4314 | Vector<Double> timeOff = timeCol.getColumn() ; |
---|
4315 | timeCol.attach( sky->table(), "TIME" ) ; |
---|
4316 | Vector<Double> timeSky = timeCol.getColumn() ; |
---|
4317 | timeCol.attach( hot->table(), "TIME" ) ; |
---|
4318 | Vector<Double> timeHot = timeCol.getColumn() ; |
---|
4319 | timeCol.attach( on->table(), "TIME" ) ; |
---|
4320 | ROArrayColumn<Float> arrayFloatCol( off->table(), "SPECTRA" ) ; |
---|
4321 | Matrix<Float> offspectra = arrayFloatCol.getColumn() ; |
---|
4322 | arrayFloatCol.attach( sky->table(), "SPECTRA" ) ; |
---|
4323 | Matrix<Float> skyspectra = arrayFloatCol.getColumn() ; |
---|
4324 | arrayFloatCol.attach( hot->table(), "SPECTRA" ) ; |
---|
4325 | Matrix<Float> hotspectra = arrayFloatCol.getColumn() ; |
---|
4326 | unsigned int spsize = on->nchan( on->getIF(rows[0]) ) ; |
---|
4327 | // I know that the data is contiguous |
---|
4328 | const uInt *p = rows.data() ; |
---|
4329 | vector<int> ids( 2 ) ; |
---|
4330 | Block<uInt> flagchan( spsize ) ; |
---|
4331 | uInt nflag = 0 ; |
---|
4332 | for ( int irow = 0 ; irow < rows.nelements() ; irow++ ) { |
---|
4333 | double reftime = timeCol.asdouble(*p) ; |
---|
4334 | ids = getRowIdFromTime( reftime, timeOff ) ; |
---|
4335 | Vector<Float> spoff = getSpectrumFromTime( reftime, timeOff, ids, offspectra, "linear" ) ; |
---|
4336 | ids = getRowIdFromTime( reftime, timeSky ) ; |
---|
4337 | Vector<Float> spsky = getSpectrumFromTime( reftime, timeSky, ids, skyspectra, "linear" ) ; |
---|
4338 | Vector<Float> tcal = getTcalFromTime( reftime, timeSky, ids, sky, "linear" ) ; |
---|
4339 | Vector<Float> tsys = getTsysFromTime( reftime, timeSky, ids, sky, "linear" ) ; |
---|
4340 | ids = getRowIdFromTime( reftime, timeHot ) ; |
---|
4341 | Vector<Float> sphot = getSpectrumFromTime( reftime, timeHot, ids, hotspectra, "linear" ) ; |
---|
4342 | Vector<Float> spec = on->specCol_( *p ) ; |
---|
4343 | if ( antname.find( "APEX" ) != String::npos ) { |
---|
4344 | // using gain array |
---|
4345 | for ( unsigned int j = 0 ; j < tcal.size() ; j++ ) { |
---|
4346 | if ( spoff[j] == 0.0 || (sphot[j]-spsky[j]) == 0.0 ) { |
---|
4347 | spec[j] = 0.0 ; |
---|
4348 | flagchan[nflag++] = j ; |
---|
4349 | } |
---|
4350 | else { |
---|
4351 | spec[j] = ( ( spec[j] - spoff[j] ) / spoff[j] ) |
---|
4352 | * ( spsky[j] / ( sphot[j] - spsky[j] ) ) * tcal[j] ; |
---|
4353 | } |
---|
4354 | } |
---|
4355 | } |
---|
4356 | else { |
---|
4357 | // Chopper-Wheel calibration (Ulich & Haas 1976) |
---|
4358 | for ( unsigned int j = 0 ; j < tcal.size() ; j++ ) { |
---|
4359 | if ( (sphot[j]-spsky[j]) == 0.0 ) { |
---|
4360 | spec[j] = 0.0 ; |
---|
4361 | flagchan[nflag++] = j ; |
---|
4362 | } |
---|
4363 | else { |
---|
4364 | spec[j] = ( spec[j] - spoff[j] ) / ( sphot[j] - spsky[j] ) * tcal[j] ; |
---|
4365 | } |
---|
4366 | } |
---|
4367 | } |
---|
4368 | out->specCol_.put( *p, spec ) ; |
---|
4369 | out->tsysCol_.put( *p, tsys ) ; |
---|
4370 | if ( nflag > 0 ) { |
---|
4371 | Vector<uChar> fl = out->flagsCol_( *p ) ; |
---|
4372 | for ( unsigned int j = 0 ; j < nflag ; j++ ) { |
---|
4373 | fl[flagchan[j]] = (uChar)True ; |
---|
4374 | } |
---|
4375 | out->flagsCol_.put( *p, fl ) ; |
---|
4376 | } |
---|
4377 | nflag = 0 ; |
---|
4378 | p++ ; |
---|
4379 | } |
---|
4380 | } |
---|
4381 | |
---|
4382 | void STMath::calibrateALMA( CountedPtr<Scantable>& out, |
---|
4383 | const CountedPtr<Scantable>& on, |
---|
4384 | const CountedPtr<Scantable>& off, |
---|
4385 | const Vector<uInt>& rows ) |
---|
4386 | { |
---|
4387 | // 2012/05/22 TN |
---|
4388 | // Assume that out has empty SPECTRA column |
---|
4389 | |
---|
4390 | // if rows is empty, just return |
---|
4391 | if ( rows.nelements() == 0 ) |
---|
4392 | return ; |
---|
4393 | ROScalarColumn<Double> timeCol( off->table(), "TIME" ) ; |
---|
4394 | Vector<Double> timeVec = timeCol.getColumn() ; |
---|
4395 | timeCol.attach( on->table(), "TIME" ) ; |
---|
4396 | ROArrayColumn<Float> arrayFloatCol( off->table(), "SPECTRA" ) ; |
---|
4397 | Matrix<Float> offspectra = arrayFloatCol.getColumn() ; |
---|
4398 | unsigned int spsize = on->nchan( on->getIF(rows[0]) ) ; |
---|
4399 | // I know that the data is contiguous |
---|
4400 | const uInt *p = rows.data() ; |
---|
4401 | vector<int> ids( 2 ) ; |
---|
4402 | Block<uInt> flagchan( spsize ) ; |
---|
4403 | uInt nflag = 0 ; |
---|
4404 | for ( int irow = 0 ; irow < rows.nelements() ; irow++ ) { |
---|
4405 | double reftime = timeCol.asdouble(*p) ; |
---|
4406 | ids = getRowIdFromTime( reftime, timeVec ) ; |
---|
4407 | Vector<Float> spoff = getSpectrumFromTime( reftime, timeVec, ids, offspectra, "linear" ) ; |
---|
4408 | //Vector<Float> spoff = getSpectrumFromTime( reftime, timeVec, off, "linear" ) ; |
---|
4409 | Vector<Float> spec = on->specCol_( *p ) ; |
---|
4410 | Vector<Float> tsys = on->tsysCol_( *p ) ; |
---|
4411 | // ALMA Calibration |
---|
4412 | // |
---|
4413 | // Ta* = Tsys * ( ON - OFF ) / OFF |
---|
4414 | // |
---|
4415 | // 2010/01/07 Takeshi Nakazato |
---|
4416 | unsigned int tsyssize = tsys.nelements() ; |
---|
4417 | for ( unsigned int j = 0 ; j < spsize ; j++ ) { |
---|
4418 | if ( spoff[j] == 0.0 ) { |
---|
4419 | spec[j] = 0.0 ; |
---|
4420 | flagchan[nflag++] = j ; |
---|
4421 | } |
---|
4422 | else { |
---|
4423 | spec[j] = ( spec[j] - spoff[j] ) / spoff[j] ; |
---|
4424 | } |
---|
4425 | if ( tsyssize == spsize ) |
---|
4426 | spec[j] *= tsys[j] ; |
---|
4427 | else |
---|
4428 | spec[j] *= tsys[0] ; |
---|
4429 | } |
---|
4430 | out->specCol_.put( *p, spec ) ; |
---|
4431 | if ( nflag > 0 ) { |
---|
4432 | Vector<uChar> fl = out->flagsCol_( *p ) ; |
---|
4433 | for ( unsigned int j = 0 ; j < nflag ; j++ ) { |
---|
4434 | fl[flagchan[j]] = (uChar)True ; |
---|
4435 | } |
---|
4436 | out->flagsCol_.put( *p, fl ) ; |
---|
4437 | } |
---|
4438 | nflag = 0 ; |
---|
4439 | p++ ; |
---|
4440 | } |
---|
4441 | } |
---|
4442 | |
---|
4443 | void STMath::calibrateAPEXFS( CountedPtr<Scantable> &sig, |
---|
4444 | CountedPtr<Scantable> &ref, |
---|
4445 | const vector< CountedPtr<Scantable> >& on, |
---|
4446 | const vector< CountedPtr<Scantable> >& sky, |
---|
4447 | const vector< CountedPtr<Scantable> >& hot, |
---|
4448 | const vector< CountedPtr<Scantable> >& cold, |
---|
4449 | const Vector<uInt> &rows ) |
---|
4450 | { |
---|
4451 | // if rows is empty, just return |
---|
4452 | if ( rows.nelements() == 0 ) |
---|
4453 | return ; |
---|
4454 | ROScalarColumn<Double> timeCol( sky[0]->table(), "TIME" ) ; |
---|
4455 | Vector<Double> timeSkyS = timeCol.getColumn() ; |
---|
4456 | timeCol.attach( sky[1]->table(), "TIME" ) ; |
---|
4457 | Vector<Double> timeSkyR = timeCol.getColumn() ; |
---|
4458 | timeCol.attach( hot[0]->table(), "TIME" ) ; |
---|
4459 | Vector<Double> timeHotS = timeCol.getColumn() ; |
---|
4460 | timeCol.attach( hot[1]->table(), "TIME" ) ; |
---|
4461 | Vector<Double> timeHotR = timeCol.getColumn() ; |
---|
4462 | timeCol.attach( sig->table(), "TIME" ) ; |
---|
4463 | ROScalarColumn<Double> timeCol2( ref->table(), "TIME" ) ; |
---|
4464 | ROArrayColumn<Float> arrayFloatCol( sky[0]->table(), "SPECTRA" ) ; |
---|
4465 | Matrix<Float> skyspectraS = arrayFloatCol.getColumn() ; |
---|
4466 | arrayFloatCol.attach( sky[1]->table(), "SPECTRA" ) ; |
---|
4467 | Matrix<Float> skyspectraR = arrayFloatCol.getColumn() ; |
---|
4468 | arrayFloatCol.attach( hot[0]->table(), "SPECTRA" ) ; |
---|
4469 | Matrix<Float> hotspectraS = arrayFloatCol.getColumn() ; |
---|
4470 | arrayFloatCol.attach( hot[1]->table(), "SPECTRA" ) ; |
---|
4471 | Matrix<Float> hotspectraR = arrayFloatCol.getColumn() ; |
---|
4472 | unsigned int spsize = sig->nchan( sig->getIF(rows[0]) ) ; |
---|
4473 | Vector<Float> spec( spsize ) ; |
---|
4474 | // I know that the data is contiguous |
---|
4475 | const uInt *p = rows.data() ; |
---|
4476 | vector<int> ids( 2 ) ; |
---|
4477 | Block<uInt> flagchan( spsize ) ; |
---|
4478 | uInt nflag = 0 ; |
---|
4479 | for ( int irow = 0 ; irow < rows.nelements() ; irow++ ) { |
---|
4480 | double reftime = timeCol.asdouble(*p) ; |
---|
4481 | ids = getRowIdFromTime( reftime, timeSkyS ) ; |
---|
4482 | Vector<Float> spskyS = getSpectrumFromTime( reftime, timeSkyS, ids, skyspectraS, "linear" ) ; |
---|
4483 | Vector<Float> tcalS = getTcalFromTime( reftime, timeSkyS, ids, sky[0], "linear" ) ; |
---|
4484 | Vector<Float> tsysS = getTsysFromTime( reftime, timeSkyS, ids, sky[0], "linear" ) ; |
---|
4485 | ids = getRowIdFromTime( reftime, timeHotS ) ; |
---|
4486 | Vector<Float> sphotS = getSpectrumFromTime( reftime, timeHotS, ids, hotspectraS ) ; |
---|
4487 | reftime = timeCol2.asdouble(*p) ; |
---|
4488 | ids = getRowIdFromTime( reftime, timeSkyR ) ; |
---|
4489 | Vector<Float> spskyR = getSpectrumFromTime( reftime, timeSkyR, ids, skyspectraR, "linear" ) ; |
---|
4490 | Vector<Float> tcalR = getTcalFromTime( reftime, timeSkyR, ids, sky[1], "linear" ) ; |
---|
4491 | Vector<Float> tsysR = getTsysFromTime( reftime, timeSkyR, ids, sky[1], "linear" ) ; |
---|
4492 | ids = getRowIdFromTime( reftime, timeHotR ) ; |
---|
4493 | Vector<Float> sphotR = getSpectrumFromTime( reftime, timeHotR, ids, hotspectraR ) ; |
---|
4494 | Vector<Float> spsig = on[0]->specCol_( *p ) ; |
---|
4495 | Vector<Float> spref = on[1]->specCol_( *p ) ; |
---|
4496 | for ( unsigned int j = 0 ; j < spsize ; j++ ) { |
---|
4497 | if ( (sphotS[j]-spskyS[j]) == 0.0 || (sphotR[j]-spskyR[j]) == 0.0 ) { |
---|
4498 | spec[j] = 0.0 ; |
---|
4499 | flagchan[nflag++] = j ; |
---|
4500 | } |
---|
4501 | else { |
---|
4502 | spec[j] = tcalS[j] * spsig[j] / ( sphotS[j] - spskyS[j] ) |
---|
4503 | - tcalR[j] * spref[j] / ( sphotR[j] - spskyR[j] ) ; |
---|
4504 | } |
---|
4505 | } |
---|
4506 | sig->specCol_.put( *p, spec ) ; |
---|
4507 | sig->tsysCol_.put( *p, tsysS ) ; |
---|
4508 | spec *= (Float)-1.0 ; |
---|
4509 | ref->specCol_.put( *p, spec ) ; |
---|
4510 | ref->tsysCol_.put( *p, tsysR ) ; |
---|
4511 | if ( nflag > 0 ) { |
---|
4512 | Vector<uChar> flsig = sig->flagsCol_( *p ) ; |
---|
4513 | Vector<uChar> flref = ref->flagsCol_( *p ) ; |
---|
4514 | for ( unsigned int j = 0 ; j < nflag ; j++ ) { |
---|
4515 | flsig[flagchan[j]] = (uChar)True ; |
---|
4516 | flref[flagchan[j]] = (uChar)True ; |
---|
4517 | } |
---|
4518 | sig->flagsCol_.put( *p, flsig ) ; |
---|
4519 | ref->flagsCol_.put( *p, flref ) ; |
---|
4520 | } |
---|
4521 | nflag = 0 ; |
---|
4522 | p++ ; |
---|
4523 | } |
---|
4524 | } |
---|
4525 | |
---|
4526 | void STMath::calibrateFS( CountedPtr<Scantable> &sig, |
---|
4527 | CountedPtr<Scantable> &ref, |
---|
4528 | const CountedPtr<Scantable>& rsig, |
---|
4529 | const CountedPtr<Scantable>& rref, |
---|
4530 | const CountedPtr<Scantable>& sky, |
---|
4531 | const CountedPtr<Scantable>& hot, |
---|
4532 | const CountedPtr<Scantable>& cold, |
---|
4533 | const Vector<uInt> &rows ) |
---|
4534 | { |
---|
4535 | // if rows is empty, just return |
---|
4536 | if ( rows.nelements() == 0 ) |
---|
4537 | return ; |
---|
4538 | ROScalarColumn<Double> timeCol( sky->table(), "TIME" ) ; |
---|
4539 | Vector<Double> timeSky = timeCol.getColumn() ; |
---|
4540 | timeCol.attach( hot->table(), "TIME" ) ; |
---|
4541 | Vector<Double> timeHot = timeCol.getColumn() ; |
---|
4542 | timeCol.attach( sig->table(), "TIME" ) ; |
---|
4543 | ROScalarColumn<Double> timeCol2( ref->table(), "TIME" ) ; |
---|
4544 | ROArrayColumn<Float> arrayFloatCol( sky->table(), "SPECTRA" ) ; |
---|
4545 | Matrix<Float> skyspectra = arrayFloatCol.getColumn() ; |
---|
4546 | arrayFloatCol.attach( hot->table(), "SPECTRA" ) ; |
---|
4547 | Matrix<Float> hotspectra = arrayFloatCol.getColumn() ; |
---|
4548 | unsigned int spsize = sig->nchan( sig->getIF(rows[0]) ) ; |
---|
4549 | Vector<Float> spec( spsize ) ; |
---|
4550 | // I know that the data is contiguous |
---|
4551 | const uInt *p = rows.data() ; |
---|
4552 | vector<int> ids( 2 ) ; |
---|
4553 | Block<uInt> flagchan( spsize ) ; |
---|
4554 | uInt nflag = 0 ; |
---|
4555 | for ( int irow = 0 ; irow < rows.nelements() ; irow++ ) { |
---|
4556 | double reftime = timeCol.asdouble(*p) ; |
---|
4557 | ids = getRowIdFromTime( reftime, timeSky ) ; |
---|
4558 | Vector<Float> spsky = getSpectrumFromTime( reftime, timeSky, ids, skyspectra, "linear" ) ; |
---|
4559 | Vector<Float> tcal = getTcalFromTime( reftime, timeSky, ids, sky, "linear" ) ; |
---|
4560 | Vector<Float> tsys = getTsysFromTime( reftime, timeSky, ids, sky, "linear" ) ; |
---|
4561 | ids = getRowIdFromTime( reftime, timeHot ) ; |
---|
4562 | Vector<Float> sphot = getSpectrumFromTime( reftime, timeHot, ids, hotspectra ) ; |
---|
4563 | Vector<Float> spsig = rsig->specCol_( *p ) ; |
---|
4564 | Vector<Float> spref = rref->specCol_( *p ) ; |
---|
4565 | // using gain array |
---|
4566 | for ( unsigned int j = 0 ; j < spsize ; j++ ) { |
---|
4567 | if ( spref[j] == 0.0 || (sphot[j]-spsky[j]) == 0.0 ) { |
---|
4568 | spec[j] = 0.0 ; |
---|
4569 | flagchan[nflag++] = j ; |
---|
4570 | } |
---|
4571 | else { |
---|
4572 | spec[j] = ( ( spsig[j] - spref[j] ) / spref[j] ) |
---|
4573 | * ( spsky[j] / ( sphot[j] - spsky[j] ) ) * tcal[j] ; |
---|
4574 | } |
---|
4575 | } |
---|
4576 | sig->specCol_.put( *p, spec ) ; |
---|
4577 | sig->tsysCol_.put( *p, tsys ) ; |
---|
4578 | if ( nflag > 0 ) { |
---|
4579 | Vector<uChar> fl = sig->flagsCol_( *p ) ; |
---|
4580 | for ( unsigned int j = 0 ; j < nflag ; j++ ) { |
---|
4581 | fl[flagchan[j]] = (uChar)True ; |
---|
4582 | } |
---|
4583 | sig->flagsCol_.put( *p, fl ) ; |
---|
4584 | } |
---|
4585 | nflag = 0 ; |
---|
4586 | |
---|
4587 | reftime = timeCol2.asdouble(*p) ; |
---|
4588 | spsky = getSpectrumFromTime( reftime, timeSky, ids, skyspectra, "linear" ) ; |
---|
4589 | tcal = getTcalFromTime( reftime, timeSky, ids, sky, "linear" ) ; |
---|
4590 | tsys = getTsysFromTime( reftime, timeSky, ids, sky, "linear" ) ; |
---|
4591 | ids = getRowIdFromTime( reftime, timeHot ) ; |
---|
4592 | sphot = getSpectrumFromTime( reftime, timeHot, ids, hotspectra ) ; |
---|
4593 | // using gain array |
---|
4594 | for ( unsigned int j = 0 ; j < spsize ; j++ ) { |
---|
4595 | if ( spsig[j] == 0.0 || (sphot[j]-spsky[j]) == 0.0 ) { |
---|
4596 | spec[j] = 0.0 ; |
---|
4597 | flagchan[nflag++] = j ; |
---|
4598 | } |
---|
4599 | else { |
---|
4600 | spec[j] = ( ( spref[j] - spsig[j] ) / spsig[j] ) |
---|
4601 | * ( spsky[j] / ( sphot[j] - spsky[j] ) ) * tcal[j] ; |
---|
4602 | } |
---|
4603 | } |
---|
4604 | ref->specCol_.put( *p, spec ) ; |
---|
4605 | ref->tsysCol_.put( *p, tsys ) ; |
---|
4606 | if ( nflag > 0 ) { |
---|
4607 | Vector<uChar> fl = ref->flagsCol_( *p ) ; |
---|
4608 | for ( unsigned int j = 0 ; j < nflag ; j++ ) { |
---|
4609 | fl[flagchan[j]] = (uChar)True ; |
---|
4610 | } |
---|
4611 | ref->flagsCol_.put( *p, fl ) ; |
---|
4612 | } |
---|
4613 | nflag = 0 ; |
---|
4614 | p++ ; |
---|
4615 | } |
---|
4616 | } |
---|
4617 | |
---|
4618 | void STMath::copyRows( Table &out, |
---|
4619 | const Table &in, |
---|
4620 | uInt startout, |
---|
4621 | uInt startin, |
---|
4622 | uInt nrow, |
---|
4623 | Bool copySpectra, |
---|
4624 | Bool copyFlagtra, |
---|
4625 | Bool copyTsys ) |
---|
4626 | { |
---|
4627 | uInt nexclude = 0 ; |
---|
4628 | Block<String> excludeColsBlock( 3 ) ; |
---|
4629 | if ( !copySpectra ) { |
---|
4630 | excludeColsBlock[nexclude] = "SPECTRA" ; |
---|
4631 | nexclude++ ; |
---|
4632 | } |
---|
4633 | if ( !copyFlagtra ) { |
---|
4634 | excludeColsBlock[nexclude] = "FLAGTRA" ; |
---|
4635 | nexclude++ ; |
---|
4636 | } |
---|
4637 | if ( !copyTsys ) { |
---|
4638 | excludeColsBlock[nexclude] = "TSYS" ; |
---|
4639 | nexclude++ ; |
---|
4640 | } |
---|
4641 | // if ( nexclude < 3 ) { |
---|
4642 | // excludeCols.resize( nexclude, True ) ; |
---|
4643 | // } |
---|
4644 | Vector<String> excludeCols( IPosition(1,nexclude), |
---|
4645 | excludeColsBlock.storage(), |
---|
4646 | SHARE ) ; |
---|
4647 | // cout << "excludeCols=" << excludeCols << endl ; |
---|
4648 | TableRow rowout( out, excludeCols, True ) ; |
---|
4649 | ROTableRow rowin( in, excludeCols, True ) ; |
---|
4650 | uInt rin = startin ; |
---|
4651 | uInt rout = startout ; |
---|
4652 | for ( uInt i = 0 ; i < nrow ; i++ ) { |
---|
4653 | rowin.get( rin ) ; |
---|
4654 | rowout.putMatchingFields( rout, rowin.record() ) ; |
---|
4655 | rin++ ; |
---|
4656 | rout++ ; |
---|
4657 | } |
---|
4658 | } |
---|
4659 | |
---|
4660 | CountedPtr<Scantable> STMath::averageWithinSession( CountedPtr<Scantable> &s, |
---|
4661 | vector<bool> &mask, |
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4662 | string weight ) |
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4663 | { |
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4664 | // prepare output table |
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4665 | bool insitu = insitu_ ; |
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4666 | insitu_ = false ; |
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4667 | CountedPtr<Scantable> a = getScantable( s, true ) ; |
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4668 | insitu_ = insitu ; |
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4669 | Table &atab = a->table() ; |
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4670 | ScalarColumn<Double> timeColOut( atab, "TIME" ) ; |
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4671 | |
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4672 | if ( s->nrow() == 0 ) |
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4673 | return a ; |
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4674 | |
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4675 | // setup RowAccumulator |
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4676 | WeightType wtype = stringToWeight( weight ) ; |
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4677 | RowAccumulator acc( wtype ) ; |
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4678 | Vector<Bool> cmask( mask ) ; |
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4679 | acc.setUserMask( cmask ) ; |
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4680 | |
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4681 | vector<string> cols( 3 ) ; |
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4682 | cols[0] = "IFNO" ; |
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4683 | cols[1] = "POLNO" ; |
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4684 | cols[2] = "BEAMNO" ; |
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4685 | STIdxIterAcc iter( s, cols ) ; |
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4686 | |
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4687 | Table ttab = s->table() ; |
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4688 | ROScalarColumn<Double> *timeCol = new ROScalarColumn<Double>( ttab, "TIME" ) ; |
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4689 | Vector<Double> timeVec = timeCol->getColumn() ; |
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4690 | delete timeCol ; |
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4691 | Vector<Double> interval = s->integrCol_.getColumn() ; |
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4692 | uInt nrow = timeVec.nelements() ; |
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4693 | uInt outrow = 0 ; |
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4694 | |
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4695 | while( !iter.pastEnd() ) { |
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4696 | |
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4697 | Vector<uInt> rows = iter.getRows( SHARE ) ; |
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4698 | uInt len = rows.nelements() ; |
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4699 | |
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4700 | if ( len == 0 ) { |
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4701 | iter.next() ; |
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4702 | continue ; |
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4703 | } |
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4704 | |
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4705 | uInt nchan = s->nchan(s->getIF(rows[0])) ; |
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4706 | Vector<uChar> flag( nchan ) ; |
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4707 | Vector<Bool> bflag( nchan ) ; |
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4708 | Vector<Float> spec( nchan ) ; |
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4709 | Vector<Float> tsys( nchan ) ; |
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4710 | |
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4711 | Vector<Double> timeSep( len-1 ) ; |
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4712 | for ( uInt i = 0 ; i < len-1 ; i++ ) { |
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4713 | timeSep[i] = timeVec[rows[i+1]] - timeVec[rows[i]] ; |
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4714 | } |
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4715 | |
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4716 | uInt irow ; |
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4717 | uInt jrow ; |
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4718 | for ( uInt i = 0 ; i < len-1 ; i++ ) { |
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4719 | irow = rows[i] ; |
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4720 | jrow = rows[i+1] ; |
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4721 | // accumulate data |
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4722 | s->flagsCol_.get( irow, flag ) ; |
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4723 | convertArray( bflag, flag ) ; |
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4724 | s->specCol_.get( irow, spec ) ; |
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4725 | tsys.assign( s->tsysCol_( irow ) ) ; |
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4726 | if ( !allEQ(bflag,True) ) |
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4727 | acc.add( spec, !bflag, tsys, interval[irow], timeVec[irow] ) ; |
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4728 | double gap = 2.0 * 86400.0 * timeSep[i] / ( interval[jrow] + interval[irow] ) ; |
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4729 | //cout << "gap[" << i << "]=" << setw(5) << gap << endl ; |
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4730 | if ( gap > 1.1 ) { |
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4731 | //cout << "detected gap between " << i << " and " << i+1 << endl ; |
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4732 | // put data to output table |
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4733 | // reset RowAccumulator |
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4734 | if ( acc.state() ) { |
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4735 | atab.addRow() ; |
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4736 | copyRows( atab, ttab, outrow, irow, 1, False, False, False ) ; |
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4737 | acc.replaceNaN() ; |
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4738 | const Vector<Bool> &msk = acc.getMask() ; |
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4739 | convertArray( flag, !msk ) ; |
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4740 | for (uInt k = 0; k < nchan; ++k) { |
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4741 | uChar userFlag = 1 << 7; |
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4742 | if (msk[k]==True) userFlag = 0 << 7; |
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4743 | flag(k) = userFlag; |
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4744 | } |
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4745 | a->flagsCol_.put( outrow, flag ) ; |
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4746 | a->specCol_.put( outrow, acc.getSpectrum() ) ; |
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4747 | a->tsysCol_.put( outrow, acc.getTsys() ) ; |
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4748 | a->integrCol_.put( outrow, acc.getInterval() ) ; |
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4749 | timeColOut.put( outrow, acc.getTime() ) ; |
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4750 | a->cycleCol_.put( outrow, 0 ) ; |
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4751 | } |
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4752 | acc.reset() ; |
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4753 | outrow++ ; |
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4754 | } |
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4755 | } |
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4756 | |
---|
4757 | // accumulate and add last data |
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4758 | irow = rows[len-1] ; |
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4759 | s->flagsCol_.get( irow, flag ) ; |
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4760 | convertArray( bflag, flag ) ; |
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4761 | s->specCol_.get( irow, spec ) ; |
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4762 | tsys.assign( s->tsysCol_( irow ) ) ; |
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4763 | if (!allEQ(bflag,True) ) |
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4764 | acc.add( spec, !bflag, tsys, interval[irow], timeVec[irow] ) ; |
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4765 | if ( acc.state() ) { |
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4766 | atab.addRow() ; |
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4767 | copyRows( atab, ttab, outrow, irow, 1, False, False, False ) ; |
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4768 | acc.replaceNaN() ; |
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4769 | const Vector<Bool> &msk = acc.getMask() ; |
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4770 | convertArray( flag, !msk ) ; |
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4771 | for (uInt k = 0; k < nchan; ++k) { |
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4772 | uChar userFlag = 1 << 7; |
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4773 | if (msk[k]==True) userFlag = 0 << 7; |
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4774 | flag(k) = userFlag; |
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4775 | } |
---|
4776 | a->flagsCol_.put( outrow, flag ) ; |
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4777 | a->specCol_.put( outrow, acc.getSpectrum() ) ; |
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4778 | a->tsysCol_.put( outrow, acc.getTsys() ) ; |
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4779 | a->integrCol_.put( outrow, acc.getInterval() ) ; |
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4780 | timeColOut.put( outrow, acc.getTime() ) ; |
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4781 | a->cycleCol_.put( outrow, 0 ) ; |
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4782 | } |
---|
4783 | acc.reset() ; |
---|
4784 | outrow++ ; |
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4785 | |
---|
4786 | iter.next() ; |
---|
4787 | } |
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4788 | |
---|
4789 | return a ; |
---|
4790 | } |
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