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 <casa/iomanip.h>
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14 | #include <casa/Exceptions/Error.h>
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15 | #include <casa/Containers/Block.h>
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16 | #include <casa/BasicSL/String.h>
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17 | #include <casa/Arrays/MaskArrLogi.h>
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18 | #include <casa/Arrays/MaskArrMath.h>
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19 | #include <casa/Arrays/ArrayLogical.h>
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20 | #include <casa/Arrays/ArrayMath.h>
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21 | #include <casa/Arrays/Slice.h>
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22 | #include <casa/Arrays/Slicer.h>
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23 | #include <casa/Containers/RecordField.h>
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24 | #include <tables/Tables/TableRow.h>
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25 | #include <tables/Tables/TableVector.h>
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26 | #include <tables/Tables/TabVecMath.h>
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27 | #include <tables/Tables/ExprNode.h>
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28 | #include <tables/Tables/TableRecord.h>
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29 | #include <tables/Tables/TableParse.h>
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30 | #include <tables/Tables/ReadAsciiTable.h>
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31 | #include <tables/Tables/TableIter.h>
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32 | #include <tables/Tables/TableCopy.h>
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33 | #include <scimath/Mathematics/FFTServer.h>
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34 |
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35 | #include <lattices/Lattices/LatticeUtilities.h>
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36 |
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37 | #include <coordinates/Coordinates/SpectralCoordinate.h>
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38 | #include <coordinates/Coordinates/CoordinateSystem.h>
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39 | #include <coordinates/Coordinates/CoordinateUtil.h>
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40 | #include <coordinates/Coordinates/FrequencyAligner.h>
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41 |
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42 | #include <scimath/Mathematics/VectorKernel.h>
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43 | #include <scimath/Mathematics/Convolver.h>
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44 | #include <scimath/Functionals/Polynomial.h>
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45 |
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46 | #include "MathUtils.h"
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47 | #include "RowAccumulator.h"
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48 | #include "STAttr.h"
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49 | #include "STMath.h"
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50 | #include "STSelector.h"
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51 |
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52 | using namespace casa;
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53 |
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54 | using namespace asap;
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55 |
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56 | // tolerance for direction comparison (rad)
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57 | #define TOL_OTF 1.0e-15
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58 | #define TOL_POINT 1.0e-5 // 2 arcsec
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59 |
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60 | STMath::STMath(bool insitu) :
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61 | insitu_(insitu)
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62 | {
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63 | }
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64 |
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65 |
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66 | STMath::~STMath()
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67 | {
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68 | }
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69 |
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70 | CountedPtr<Scantable>
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71 | STMath::average( const std::vector<CountedPtr<Scantable> >& in,
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72 | const std::vector<bool>& mask,
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73 | const std::string& weight,
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74 | const std::string& avmode)
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75 | {
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76 | if ( avmode == "SCAN" && in.size() != 1 )
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77 | throw(AipsError("Can't perform 'SCAN' averaging on multiple tables.\n"
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78 | "Use merge first."));
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79 | WeightType wtype = stringToWeight(weight);
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80 |
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81 | // check if OTF observation
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82 | String obstype = in[0]->getHeader().obstype ;
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83 | //bool otfscan = false ;
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84 | Double tol = 0.0 ;
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85 | if ( obstype.find( "OTF" ) != String::npos ) {
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86 | //cout << "OTF scan" << endl ;
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87 | //otfscan = true ;
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88 | tol = TOL_OTF ;
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89 | }
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90 | else {
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91 | tol = TOL_POINT ;
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92 | }
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93 |
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94 | // output
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95 | // clone as this is non insitu
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96 | bool insitu = insitu_;
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97 | setInsitu(false);
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98 | CountedPtr< Scantable > out = getScantable(in[0], true);
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99 | setInsitu(insitu);
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100 | std::vector<CountedPtr<Scantable> >::const_iterator stit = in.begin();
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101 | ++stit;
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102 | while ( stit != in.end() ) {
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103 | out->appendToHistoryTable((*stit)->history());
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104 | ++stit;
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105 | }
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106 |
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107 | Table& tout = out->table();
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108 |
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109 | /// @todo check if all scantables are conformant
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110 |
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111 | ArrayColumn<Float> specColOut(tout,"SPECTRA");
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112 | ArrayColumn<uChar> flagColOut(tout,"FLAGTRA");
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113 | ArrayColumn<Float> tsysColOut(tout,"TSYS");
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114 | ScalarColumn<Double> mjdColOut(tout,"TIME");
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115 | ScalarColumn<Double> intColOut(tout,"INTERVAL");
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116 | ScalarColumn<uInt> cycColOut(tout,"CYCLENO");
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117 | ScalarColumn<uInt> scanColOut(tout,"SCANNO");
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118 |
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119 | // set up the output table rows. These are based on the structure of the
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120 | // FIRST scantable in the vector
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121 | const Table& baset = in[0]->table();
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122 |
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123 | Block<String> cols(3);
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124 | cols[0] = String("BEAMNO");
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125 | cols[1] = String("IFNO");
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126 | cols[2] = String("POLNO");
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127 | if ( avmode == "SOURCE" ) {
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128 | cols.resize(4);
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129 | cols[3] = String("SRCNAME");
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130 | }
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131 | if ( avmode == "SCAN" && in.size() == 1) {
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132 | //cols.resize(4);
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133 | //cols[3] = String("SCANNO");
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134 | cols.resize(5);
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135 | cols[3] = String("SRCNAME");
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136 | cols[4] = String("SCANNO");
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137 | }
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138 | uInt outrowCount = 0;
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139 | TableIterator iter(baset, cols);
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140 | // int count = 0 ;
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141 | while (!iter.pastEnd()) {
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142 | Table subt = iter.table();
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143 | // // copy the first row of this selection into the new table
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144 | // tout.addRow();
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145 | // TableCopy::copyRows(tout, subt, outrowCount, 0, 1);
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146 | // // re-index to 0
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147 | // if ( avmode != "SCAN" && avmode != "SOURCE" ) {
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148 | // scanColOut.put(outrowCount, uInt(0));
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149 | // }
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150 | // ++outrowCount;
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151 | MDirection::ScalarColumn dircol ;
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152 | dircol.attach( subt, "DIRECTION" ) ;
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153 | Int length = subt.nrow() ;
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154 | vector< Vector<Double> > dirs ;
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155 | vector<int> indexes ;
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156 | for ( Int i = 0 ; i < length ; i++ ) {
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157 | Vector<Double> t = dircol(i).getAngle(Unit(String("rad"))).getValue() ;
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158 | //cout << setw( 3 ) << count++ << ": " ;
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159 | //cout << "[" << t[0] << "," << t[1] << "]" << endl ;
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160 | bool adddir = true ;
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161 | for ( uInt j = 0 ; j < dirs.size() ; j++ ) {
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162 | //if ( allTrue( t == dirs[j] ) ) {
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163 | Double dx = t[0] - dirs[j][0] ;
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164 | Double dy = t[1] - dirs[j][1] ;
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165 | Double dd = sqrt( dx * dx + dy * dy ) ;
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166 | //if ( allNearAbs( t, dirs[j], tol ) ) {
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167 | if ( dd <= tol ) {
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168 | adddir = false ;
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169 | break ;
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170 | }
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171 | }
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172 | if ( adddir ) {
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173 | dirs.push_back( t ) ;
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174 | indexes.push_back( i ) ;
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175 | }
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176 | }
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177 | uInt rowNum = dirs.size() ;
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178 | //cout << "dirs.size()=" << dirs.size() << endl ;
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179 | tout.addRow( rowNum ) ;
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180 | for ( uInt i = 0 ; i < rowNum ; i++ ) {
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181 | TableCopy::copyRows( tout, subt, outrowCount+i, indexes[i], 1 ) ;
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182 | // re-index to 0
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183 | if ( avmode != "SCAN" && avmode != "SOURCE" ) {
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184 | scanColOut.put(outrowCount+i, uInt(0));
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185 | }
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186 | }
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187 | outrowCount += rowNum ;
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188 | ++iter;
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189 | }
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190 | RowAccumulator acc(wtype);
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191 | Vector<Bool> cmask(mask);
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192 | acc.setUserMask(cmask);
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193 | ROTableRow row(tout);
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194 | ROArrayColumn<Float> specCol, tsysCol;
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195 | ROArrayColumn<uChar> flagCol;
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196 | ROScalarColumn<Double> mjdCol, intCol;
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197 | ROScalarColumn<Int> scanIDCol;
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198 |
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199 | Vector<uInt> rowstodelete;
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200 |
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201 | for (uInt i=0; i < tout.nrow(); ++i) {
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202 | for ( int j=0; j < int(in.size()); ++j ) {
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203 | const Table& tin = in[j]->table();
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204 | const TableRecord& rec = row.get(i);
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205 | ROScalarColumn<Double> tmp(tin, "TIME");
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206 | Double td;tmp.get(0,td);
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207 | Table basesubt = tin(tin.col("BEAMNO") == Int(rec.asuInt("BEAMNO"))
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208 | && tin.col("IFNO") == Int(rec.asuInt("IFNO"))
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209 | && tin.col("POLNO") == Int(rec.asuInt("POLNO")) );
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210 | Table subt;
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211 | if ( avmode == "SOURCE") {
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212 | subt = basesubt( basesubt.col("SRCNAME") == rec.asString("SRCNAME") );
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213 | } else if (avmode == "SCAN") {
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214 | //subt = basesubt( basesubt.col("SCANNO") == Int(rec.asuInt("SCANNO")) );
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215 | subt = basesubt( basesubt.col("SCANNO") == Int(rec.asuInt("SCANNO"))
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216 | && basesubt.col("SRCNAME") == rec.asString("SRCNAME") );
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217 | } else {
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218 | subt = basesubt;
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219 | }
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220 |
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221 | vector<uInt> removeRows ;
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222 | uInt nrsubt = subt.nrow() ;
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223 | for ( uInt irow = 0 ; irow < nrsubt ; irow++ ) {
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224 | //if ( !allTrue((subt.col("DIRECTION").getArrayDouble(TableExprId(irow)))==rec.asArrayDouble("DIRECTION")) ) {
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225 | Vector<Double> x0 = (subt.col("DIRECTION").getArrayDouble(TableExprId(irow))) ;
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226 | Vector<Double> x1 = rec.asArrayDouble("DIRECTION") ;
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227 | double dx = x0[0] - x1[0] ;
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228 | double dy = x0[0] - x1[0] ;
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229 | Double dd = sqrt( dx * dx + dy * dy ) ;
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230 | //if ( !allNearAbs((subt.col("DIRECTION").getArrayDouble(TableExprId(irow))), rec.asArrayDouble("DIRECTION"), tol ) ) {
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231 | if ( dd > tol ) {
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232 | removeRows.push_back( irow ) ;
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233 | }
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234 | }
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235 | //cout << "removeRows.size()=" << removeRows.size() << endl ;
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236 | if ( removeRows.size() != 0 ) {
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237 | //cout << "[" ;
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238 | //for ( uInt irow=0 ; irow<removeRows.size()-1 ; irow++ )
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239 | //cout << removeRows[irow] << "," ;
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240 | //cout << removeRows[removeRows.size()-1] << "]" << endl ;
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241 | subt.removeRow( removeRows ) ;
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242 | }
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243 |
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244 | if ( nrsubt == removeRows.size() )
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245 | throw(AipsError("Averaging data is empty.")) ;
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246 |
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247 | specCol.attach(subt,"SPECTRA");
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248 | flagCol.attach(subt,"FLAGTRA");
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249 | tsysCol.attach(subt,"TSYS");
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250 | intCol.attach(subt,"INTERVAL");
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251 | mjdCol.attach(subt,"TIME");
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252 | Vector<Float> spec,tsys;
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253 | Vector<uChar> flag;
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254 | Double inter,time;
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255 | for (uInt k = 0; k < subt.nrow(); ++k ) {
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256 | flagCol.get(k, flag);
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257 | Vector<Bool> bflag(flag.shape());
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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 | acc.add(spec, !bflag, tsys, inter, time);
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270 | }
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271 | }
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272 | const Vector<Bool>& msk = acc.getMask();
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273 | if ( allEQ(msk, False) ) {
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274 | uint n = rowstodelete.nelements();
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275 | rowstodelete.resize(n+1, True);
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276 | rowstodelete[n] = i;
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277 | continue;
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278 | }
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279 | //write out
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280 | if (acc.state()) {
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281 | Vector<uChar> flg(msk.shape());
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282 | convertArray(flg, !msk);
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283 | flagColOut.put(i, flg);
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284 | specColOut.put(i, acc.getSpectrum());
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285 | tsysColOut.put(i, acc.getTsys());
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286 | intColOut.put(i, acc.getInterval());
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287 | mjdColOut.put(i, acc.getTime());
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288 | // we should only have one cycle now -> reset it to be 0
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289 | // frequency switched data has different CYCLENO for different IFNO
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290 | // which requires resetting this value
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291 | cycColOut.put(i, uInt(0));
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292 | } else {
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293 | ostringstream oss;
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294 | oss << "For output row="<<i<<", all input rows of data are flagged. no averaging" << endl;
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295 | pushLog(String(oss));
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296 | }
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297 | acc.reset();
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298 | }
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299 | if (rowstodelete.nelements() > 0) {
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300 | cout << rowstodelete << endl;
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301 | tout.removeRow(rowstodelete);
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302 | if (tout.nrow() == 0) {
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303 | throw(AipsError("Can't average fully flagged data."));
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304 | }
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305 | }
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306 | return out;
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307 | }
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308 |
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309 | CountedPtr< Scantable >
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310 | STMath::averageChannel( const CountedPtr < Scantable > & in,
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311 | const std::string & mode,
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312 | const std::string& avmode )
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313 | {
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314 | // check if OTF observation
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315 | String obstype = in->getHeader().obstype ;
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316 | //bool otfscan = false ;
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317 | Double tol = 0.0 ;
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318 | if ( obstype.find( "OTF" ) != String::npos ) {
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319 | //cout << "OTF scan" << endl ;
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320 | //otfscan = true ;
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321 | tol = TOL_OTF ;
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322 | }
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323 | else {
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324 | tol = TOL_POINT ;
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325 | }
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326 |
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327 | // clone as this is non insitu
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328 | bool insitu = insitu_;
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329 | setInsitu(false);
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330 | CountedPtr< Scantable > out = getScantable(in, true);
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331 | setInsitu(insitu);
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332 | Table& tout = out->table();
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333 | ArrayColumn<Float> specColOut(tout,"SPECTRA");
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334 | ArrayColumn<uChar> flagColOut(tout,"FLAGTRA");
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335 | ArrayColumn<Float> tsysColOut(tout,"TSYS");
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336 | ScalarColumn<uInt> scanColOut(tout,"SCANNO");
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337 | ScalarColumn<Double> intColOut(tout, "INTERVAL");
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338 | Table tmp = in->table().sort("BEAMNO");
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339 | Block<String> cols(3);
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340 | cols[0] = String("BEAMNO");
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341 | cols[1] = String("IFNO");
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342 | cols[2] = String("POLNO");
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343 | if ( avmode == "SCAN") {
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344 | cols.resize(4);
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345 | cols[3] = String("SCANNO");
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346 | }
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347 | uInt outrowCount = 0;
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348 | uChar userflag = 1 << 7;
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349 | TableIterator iter(tmp, cols);
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350 | while (!iter.pastEnd()) {
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351 | Table subt = iter.table();
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352 | ROArrayColumn<Float> specCol, tsysCol;
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353 | ROArrayColumn<uChar> flagCol;
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354 | ROScalarColumn<Double> intCol(subt, "INTERVAL");
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355 | specCol.attach(subt,"SPECTRA");
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356 | flagCol.attach(subt,"FLAGTRA");
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357 | tsysCol.attach(subt,"TSYS");
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358 | // tout.addRow();
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359 | // TableCopy::copyRows(tout, subt, outrowCount, 0, 1);
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360 | // if ( avmode != "SCAN") {
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361 | // scanColOut.put(outrowCount, uInt(0));
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362 | // }
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363 | // Vector<Float> tmp;
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364 | // specCol.get(0, tmp);
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365 | // uInt nchan = tmp.nelements();
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366 | // // have to do channel by channel here as MaskedArrMath
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367 | // // doesn't have partialMedians
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368 | // Vector<uChar> flags = flagCol.getColumn(Slicer(Slice(0)));
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369 | // Vector<Float> outspec(nchan);
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370 | // Vector<uChar> outflag(nchan,0);
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371 | // Vector<Float> outtsys(1);/// @fixme when tsys is channel based
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372 | // for (uInt i=0; i<nchan; ++i) {
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373 | // Vector<Float> specs = specCol.getColumn(Slicer(Slice(i)));
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374 | // MaskedArray<Float> ma = maskedArray(specs,flags);
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375 | // outspec[i] = median(ma);
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376 | // if ( allEQ(ma.getMask(), False) )
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377 | // outflag[i] = userflag;// flag data
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378 | // }
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379 | // outtsys[0] = median(tsysCol.getColumn());
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380 | // specColOut.put(outrowCount, outspec);
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381 | // flagColOut.put(outrowCount, outflag);
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382 | // tsysColOut.put(outrowCount, outtsys);
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383 | // Double intsum = sum(intCol.getColumn());
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384 | // intColOut.put(outrowCount, intsum);
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385 | // ++outrowCount;
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386 | // ++iter;
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387 | MDirection::ScalarColumn dircol ;
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388 | dircol.attach( subt, "DIRECTION" ) ;
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389 | Int length = subt.nrow() ;
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390 | vector< Vector<Double> > dirs ;
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391 | vector<int> indexes ;
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392 | for ( Int i = 0 ; i < length ; i++ ) {
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393 | Vector<Double> t = dircol(i).getAngle(Unit(String("rad"))).getValue() ;
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394 | bool adddir = true ;
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395 | for ( uInt j = 0 ; j < dirs.size() ; j++ ) {
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396 | //if ( allTrue( t == dirs[j] ) ) {
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397 | Double dx = t[0] - dirs[j][0] ;
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398 | Double dy = t[1] - dirs[j][1] ;
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399 | Double dd = sqrt( dx * dx + dy * dy ) ;
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400 | //if ( allNearAbs( t, dirs[j], tol ) ) {
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401 | if ( dd <= tol ) {
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402 | adddir = false ;
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403 | break ;
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404 | }
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405 | }
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406 | if ( adddir ) {
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407 | dirs.push_back( t ) ;
|
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408 | indexes.push_back( i ) ;
|
---|
409 | }
|
---|
410 | }
|
---|
411 | uInt rowNum = dirs.size() ;
|
---|
412 | tout.addRow( rowNum );
|
---|
413 | for ( uInt i = 0 ; i < rowNum ; i++ ) {
|
---|
414 | TableCopy::copyRows(tout, subt, outrowCount+i, indexes[i], 1) ;
|
---|
415 | if ( avmode != "SCAN") {
|
---|
416 | //scanColOut.put(outrowCount+i, uInt(0));
|
---|
417 | }
|
---|
418 | }
|
---|
419 | MDirection::ScalarColumn dircolOut ;
|
---|
420 | dircolOut.attach( tout, "DIRECTION" ) ;
|
---|
421 | for ( uInt irow = 0 ; irow < rowNum ; irow++ ) {
|
---|
422 | Vector<Double> t = dircolOut(outrowCount+irow).getAngle(Unit(String("rad"))).getValue() ;
|
---|
423 | Vector<Float> tmp;
|
---|
424 | specCol.get(0, tmp);
|
---|
425 | uInt nchan = tmp.nelements();
|
---|
426 | // have to do channel by channel here as MaskedArrMath
|
---|
427 | // doesn't have partialMedians
|
---|
428 | Vector<uChar> flags = flagCol.getColumn(Slicer(Slice(0)));
|
---|
429 | // mask spectra for different DIRECTION
|
---|
430 | //cout << "irow=" << outrowCount+irow << ": flagged [" ;
|
---|
431 | for ( uInt jrow = 0 ; jrow < subt.nrow() ; jrow++ ) {
|
---|
432 | Vector<Double> direction = dircol(jrow).getAngle(Unit(String("rad"))).getValue() ;
|
---|
433 | //if ( t[0] != direction[0] || t[1] != direction[1] ) {
|
---|
434 | Double dx = t[0] - direction[0] ;
|
---|
435 | Double dy = t[1] - direction[1] ;
|
---|
436 | Double dd = sqrt( dx * dx + dy * dy ) ;
|
---|
437 | //if ( !allNearAbs( t, direction, tol ) ) {
|
---|
438 | if ( dd > tol ) {
|
---|
439 | //cout << jrow << " " ;
|
---|
440 | flags[jrow] = userflag ;
|
---|
441 | }
|
---|
442 | }
|
---|
443 | //cout << "]" << endl ;
|
---|
444 | //cout << "flags=" << flags << endl ;
|
---|
445 | Vector<Float> outspec(nchan);
|
---|
446 | Vector<uChar> outflag(nchan,0);
|
---|
447 | Vector<Float> outtsys(1);/// @fixme when tsys is channel based
|
---|
448 | for (uInt i=0; i<nchan; ++i) {
|
---|
449 | Vector<Float> specs = specCol.getColumn(Slicer(Slice(i)));
|
---|
450 | MaskedArray<Float> ma = maskedArray(specs,flags);
|
---|
451 | outspec[i] = median(ma);
|
---|
452 | if ( allEQ(ma.getMask(), False) )
|
---|
453 | outflag[i] = userflag;// flag data
|
---|
454 | }
|
---|
455 | outtsys[0] = median(tsysCol.getColumn());
|
---|
456 | specColOut.put(outrowCount+irow, outspec);
|
---|
457 | flagColOut.put(outrowCount+irow, outflag);
|
---|
458 | tsysColOut.put(outrowCount+irow, outtsys);
|
---|
459 | Vector<Double> integ = intCol.getColumn() ;
|
---|
460 | MaskedArray<Double> mi = maskedArray( integ, flags ) ;
|
---|
461 | Double intsum = sum(mi);
|
---|
462 | intColOut.put(outrowCount+irow, intsum);
|
---|
463 | }
|
---|
464 | outrowCount += rowNum ;
|
---|
465 | ++iter;
|
---|
466 | }
|
---|
467 | return out;
|
---|
468 | }
|
---|
469 |
|
---|
470 | CountedPtr< Scantable > STMath::getScantable(const CountedPtr< Scantable >& in,
|
---|
471 | bool droprows)
|
---|
472 | {
|
---|
473 | if (insitu_) {
|
---|
474 | return in;
|
---|
475 | }
|
---|
476 | else {
|
---|
477 | // clone
|
---|
478 | return CountedPtr<Scantable>(new Scantable(*in, Bool(droprows)));
|
---|
479 | }
|
---|
480 | }
|
---|
481 |
|
---|
482 | CountedPtr< Scantable > STMath::unaryOperate( const CountedPtr< Scantable >& in,
|
---|
483 | float val,
|
---|
484 | const std::string& mode,
|
---|
485 | bool tsys )
|
---|
486 | {
|
---|
487 | CountedPtr< Scantable > out = getScantable(in, false);
|
---|
488 | Table& tab = out->table();
|
---|
489 | ArrayColumn<Float> specCol(tab,"SPECTRA");
|
---|
490 | ArrayColumn<Float> tsysCol(tab,"TSYS");
|
---|
491 | for (uInt i=0; i<tab.nrow(); ++i) {
|
---|
492 | Vector<Float> spec;
|
---|
493 | Vector<Float> ts;
|
---|
494 | specCol.get(i, spec);
|
---|
495 | tsysCol.get(i, ts);
|
---|
496 | if (mode == "MUL" || mode == "DIV") {
|
---|
497 | if (mode == "DIV") val = 1.0/val;
|
---|
498 | spec *= val;
|
---|
499 | specCol.put(i, spec);
|
---|
500 | if ( tsys ) {
|
---|
501 | ts *= val;
|
---|
502 | tsysCol.put(i, ts);
|
---|
503 | }
|
---|
504 | } else if ( mode == "ADD" || mode == "SUB") {
|
---|
505 | if (mode == "SUB") val *= -1.0;
|
---|
506 | spec += val;
|
---|
507 | specCol.put(i, spec);
|
---|
508 | if ( tsys ) {
|
---|
509 | ts += val;
|
---|
510 | tsysCol.put(i, ts);
|
---|
511 | }
|
---|
512 | }
|
---|
513 | }
|
---|
514 | return out;
|
---|
515 | }
|
---|
516 |
|
---|
517 | CountedPtr<Scantable> STMath::binaryOperate(const CountedPtr<Scantable>& left,
|
---|
518 | const CountedPtr<Scantable>& right,
|
---|
519 | const std::string& mode)
|
---|
520 | {
|
---|
521 | bool insitu = insitu_;
|
---|
522 | if ( ! left->conformant(*right) ) {
|
---|
523 | throw(AipsError("'left' and 'right' scantables are not conformant."));
|
---|
524 | }
|
---|
525 | setInsitu(false);
|
---|
526 | CountedPtr< Scantable > out = getScantable(left, false);
|
---|
527 | setInsitu(insitu);
|
---|
528 | Table& tout = out->table();
|
---|
529 | Block<String> coln(5);
|
---|
530 | coln[0] = "SCANNO"; coln[1] = "CYCLENO"; coln[2] = "BEAMNO";
|
---|
531 | coln[3] = "IFNO"; coln[4] = "POLNO";
|
---|
532 | Table tmpl = tout.sort(coln);
|
---|
533 | Table tmpr = right->table().sort(coln);
|
---|
534 | ArrayColumn<Float> lspecCol(tmpl,"SPECTRA");
|
---|
535 | ROArrayColumn<Float> rspecCol(tmpr,"SPECTRA");
|
---|
536 | ArrayColumn<uChar> lflagCol(tmpl,"FLAGTRA");
|
---|
537 | ROArrayColumn<uChar> rflagCol(tmpr,"FLAGTRA");
|
---|
538 |
|
---|
539 | for (uInt i=0; i<tout.nrow(); ++i) {
|
---|
540 | Vector<Float> lspecvec, rspecvec;
|
---|
541 | Vector<uChar> lflagvec, rflagvec;
|
---|
542 | lspecvec = lspecCol(i); rspecvec = rspecCol(i);
|
---|
543 | lflagvec = lflagCol(i); rflagvec = rflagCol(i);
|
---|
544 | MaskedArray<Float> mleft = maskedArray(lspecvec, lflagvec);
|
---|
545 | MaskedArray<Float> mright = maskedArray(rspecvec, rflagvec);
|
---|
546 | if (mode == "ADD") {
|
---|
547 | mleft += mright;
|
---|
548 | } else if ( mode == "SUB") {
|
---|
549 | mleft -= mright;
|
---|
550 | } else if ( mode == "MUL") {
|
---|
551 | mleft *= mright;
|
---|
552 | } else if ( mode == "DIV") {
|
---|
553 | mleft /= mright;
|
---|
554 | } else {
|
---|
555 | throw(AipsError("Illegal binary operator"));
|
---|
556 | }
|
---|
557 | lspecCol.put(i, mleft.getArray());
|
---|
558 | }
|
---|
559 | return out;
|
---|
560 | }
|
---|
561 |
|
---|
562 |
|
---|
563 |
|
---|
564 | MaskedArray<Float> STMath::maskedArray( const Vector<Float>& s,
|
---|
565 | const Vector<uChar>& f)
|
---|
566 | {
|
---|
567 | Vector<Bool> mask;
|
---|
568 | mask.resize(f.shape());
|
---|
569 | convertArray(mask, f);
|
---|
570 | return MaskedArray<Float>(s,!mask);
|
---|
571 | }
|
---|
572 |
|
---|
573 | MaskedArray<Double> STMath::maskedArray( const Vector<Double>& s,
|
---|
574 | const Vector<uChar>& f)
|
---|
575 | {
|
---|
576 | Vector<Bool> mask;
|
---|
577 | mask.resize(f.shape());
|
---|
578 | convertArray(mask, f);
|
---|
579 | return MaskedArray<Double>(s,!mask);
|
---|
580 | }
|
---|
581 |
|
---|
582 | Vector<uChar> STMath::flagsFromMA(const MaskedArray<Float>& ma)
|
---|
583 | {
|
---|
584 | const Vector<Bool>& m = ma.getMask();
|
---|
585 | Vector<uChar> flags(m.shape());
|
---|
586 | convertArray(flags, !m);
|
---|
587 | return flags;
|
---|
588 | }
|
---|
589 |
|
---|
590 | CountedPtr< Scantable > STMath::autoQuotient( const CountedPtr< Scantable >& in,
|
---|
591 | const std::string & mode,
|
---|
592 | bool preserve )
|
---|
593 | {
|
---|
594 | /// @todo make other modes available
|
---|
595 | /// modes should be "nearest", "pair"
|
---|
596 | // make this operation non insitu
|
---|
597 | const Table& tin = in->table();
|
---|
598 | Table ons = tin(tin.col("SRCTYPE") == Int(0));
|
---|
599 | Table offs = tin(tin.col("SRCTYPE") == Int(1));
|
---|
600 | if ( offs.nrow() == 0 )
|
---|
601 | throw(AipsError("No 'off' scans present."));
|
---|
602 | // put all "on" scans into output table
|
---|
603 |
|
---|
604 | bool insitu = insitu_;
|
---|
605 | setInsitu(false);
|
---|
606 | CountedPtr< Scantable > out = getScantable(in, true);
|
---|
607 | setInsitu(insitu);
|
---|
608 | Table& tout = out->table();
|
---|
609 |
|
---|
610 | TableCopy::copyRows(tout, ons);
|
---|
611 | TableRow row(tout);
|
---|
612 | ROScalarColumn<Double> offtimeCol(offs, "TIME");
|
---|
613 | ArrayColumn<Float> outspecCol(tout, "SPECTRA");
|
---|
614 | ROArrayColumn<Float> outtsysCol(tout, "TSYS");
|
---|
615 | ArrayColumn<uChar> outflagCol(tout, "FLAGTRA");
|
---|
616 | for (uInt i=0; i < tout.nrow(); ++i) {
|
---|
617 | const TableRecord& rec = row.get(i);
|
---|
618 | Double ontime = rec.asDouble("TIME");
|
---|
619 | Table presel = offs(offs.col("BEAMNO") == Int(rec.asuInt("BEAMNO"))
|
---|
620 | && offs.col("IFNO") == Int(rec.asuInt("IFNO"))
|
---|
621 | && offs.col("POLNO") == Int(rec.asuInt("POLNO")) );
|
---|
622 | ROScalarColumn<Double> offtimeCol(presel, "TIME");
|
---|
623 |
|
---|
624 | Double mindeltat = min(abs(offtimeCol.getColumn() - ontime));
|
---|
625 | // Timestamp may vary within a cycle ???!!!
|
---|
626 | // increase this by 0.01 sec in case of rounding errors...
|
---|
627 | // There might be a better way to do this.
|
---|
628 | // fix to this fix. TIME is MJD, so 1.0d not 1.0s
|
---|
629 | mindeltat += 0.01/24./60./60.;
|
---|
630 | Table sel = presel( abs(presel.col("TIME")-ontime) <= mindeltat);
|
---|
631 |
|
---|
632 | if ( sel.nrow() < 1 ) {
|
---|
633 | throw(AipsError("No closest in time found... This could be a rounding "
|
---|
634 | "issue. Try quotient instead."));
|
---|
635 | }
|
---|
636 | TableRow offrow(sel);
|
---|
637 | const TableRecord& offrec = offrow.get(0);//should only be one row
|
---|
638 | RORecordFieldPtr< Array<Float> > specoff(offrec, "SPECTRA");
|
---|
639 | RORecordFieldPtr< Array<Float> > tsysoff(offrec, "TSYS");
|
---|
640 | RORecordFieldPtr< Array<uChar> > flagoff(offrec, "FLAGTRA");
|
---|
641 | /// @fixme this assumes tsys is a scalar not vector
|
---|
642 | Float tsysoffscalar = (*tsysoff)(IPosition(1,0));
|
---|
643 | Vector<Float> specon, tsyson;
|
---|
644 | outtsysCol.get(i, tsyson);
|
---|
645 | outspecCol.get(i, specon);
|
---|
646 | Vector<uChar> flagon;
|
---|
647 | outflagCol.get(i, flagon);
|
---|
648 | MaskedArray<Float> mon = maskedArray(specon, flagon);
|
---|
649 | MaskedArray<Float> moff = maskedArray(*specoff, *flagoff);
|
---|
650 | MaskedArray<Float> quot = (tsysoffscalar * mon / moff);
|
---|
651 | if (preserve) {
|
---|
652 | quot -= tsysoffscalar;
|
---|
653 | } else {
|
---|
654 | quot -= tsyson[0];
|
---|
655 | }
|
---|
656 | outspecCol.put(i, quot.getArray());
|
---|
657 | outflagCol.put(i, flagsFromMA(quot));
|
---|
658 | }
|
---|
659 | // renumber scanno
|
---|
660 | TableIterator it(tout, "SCANNO");
|
---|
661 | uInt i = 0;
|
---|
662 | while ( !it.pastEnd() ) {
|
---|
663 | Table t = it.table();
|
---|
664 | TableVector<uInt> vec(t, "SCANNO");
|
---|
665 | vec = i;
|
---|
666 | ++i;
|
---|
667 | ++it;
|
---|
668 | }
|
---|
669 | return out;
|
---|
670 | }
|
---|
671 |
|
---|
672 |
|
---|
673 | CountedPtr< Scantable > STMath::quotient( const CountedPtr< Scantable > & on,
|
---|
674 | const CountedPtr< Scantable > & off,
|
---|
675 | bool preserve )
|
---|
676 | {
|
---|
677 | bool insitu = insitu_;
|
---|
678 | if ( ! on->conformant(*off) ) {
|
---|
679 | throw(AipsError("'on' and 'off' scantables are not conformant."));
|
---|
680 | }
|
---|
681 | setInsitu(false);
|
---|
682 | CountedPtr< Scantable > out = getScantable(on, false);
|
---|
683 | setInsitu(insitu);
|
---|
684 | Table& tout = out->table();
|
---|
685 | const Table& toff = off->table();
|
---|
686 | TableIterator sit(tout, "SCANNO");
|
---|
687 | TableIterator s2it(toff, "SCANNO");
|
---|
688 | while ( !sit.pastEnd() ) {
|
---|
689 | Table ton = sit.table();
|
---|
690 | TableRow row(ton);
|
---|
691 | Table t = s2it.table();
|
---|
692 | ArrayColumn<Float> outspecCol(ton, "SPECTRA");
|
---|
693 | ROArrayColumn<Float> outtsysCol(ton, "TSYS");
|
---|
694 | ArrayColumn<uChar> outflagCol(ton, "FLAGTRA");
|
---|
695 | for (uInt i=0; i < ton.nrow(); ++i) {
|
---|
696 | const TableRecord& rec = row.get(i);
|
---|
697 | Table offsel = t( t.col("BEAMNO") == Int(rec.asuInt("BEAMNO"))
|
---|
698 | && t.col("IFNO") == Int(rec.asuInt("IFNO"))
|
---|
699 | && t.col("POLNO") == Int(rec.asuInt("POLNO")) );
|
---|
700 | if ( offsel.nrow() == 0 )
|
---|
701 | throw AipsError("STMath::quotient: no matching off");
|
---|
702 | TableRow offrow(offsel);
|
---|
703 | const TableRecord& offrec = offrow.get(0);//should be ncycles - take first
|
---|
704 | RORecordFieldPtr< Array<Float> > specoff(offrec, "SPECTRA");
|
---|
705 | RORecordFieldPtr< Array<Float> > tsysoff(offrec, "TSYS");
|
---|
706 | RORecordFieldPtr< Array<uChar> > flagoff(offrec, "FLAGTRA");
|
---|
707 | Float tsysoffscalar = (*tsysoff)(IPosition(1,0));
|
---|
708 | Vector<Float> specon, tsyson;
|
---|
709 | outtsysCol.get(i, tsyson);
|
---|
710 | outspecCol.get(i, specon);
|
---|
711 | Vector<uChar> flagon;
|
---|
712 | outflagCol.get(i, flagon);
|
---|
713 | MaskedArray<Float> mon = maskedArray(specon, flagon);
|
---|
714 | MaskedArray<Float> moff = maskedArray(*specoff, *flagoff);
|
---|
715 | MaskedArray<Float> quot = (tsysoffscalar * mon / moff);
|
---|
716 | if (preserve) {
|
---|
717 | quot -= tsysoffscalar;
|
---|
718 | } else {
|
---|
719 | quot -= tsyson[0];
|
---|
720 | }
|
---|
721 | outspecCol.put(i, quot.getArray());
|
---|
722 | outflagCol.put(i, flagsFromMA(quot));
|
---|
723 | }
|
---|
724 | ++sit;
|
---|
725 | ++s2it;
|
---|
726 | // take the first off for each on scan which doesn't have a
|
---|
727 | // matching off scan
|
---|
728 | // non <= noff: matching pairs, non > noff matching pairs then first off
|
---|
729 | if ( s2it.pastEnd() ) s2it.reset();
|
---|
730 | }
|
---|
731 | return out;
|
---|
732 | }
|
---|
733 |
|
---|
734 | // dototalpower (migration of GBTIDL procedure dototalpower.pro)
|
---|
735 | // calibrate the CAL on-off pair. It calculate Tsys and average CAL on-off subintegrations
|
---|
736 | // do it for each cycles in a specific scan.
|
---|
737 | CountedPtr< Scantable > STMath::dototalpower( const CountedPtr< Scantable >& calon,
|
---|
738 | const CountedPtr< Scantable >& caloff, Float tcal )
|
---|
739 | {
|
---|
740 | if ( ! calon->conformant(*caloff) ) {
|
---|
741 | throw(AipsError("'CAL on' and 'CAL off' scantables are not conformant."));
|
---|
742 | }
|
---|
743 | setInsitu(false);
|
---|
744 | CountedPtr< Scantable > out = getScantable(caloff, false);
|
---|
745 | Table& tout = out->table();
|
---|
746 | const Table& tcon = calon->table();
|
---|
747 | Vector<Float> tcalout;
|
---|
748 | Vector<Float> tcalout2; //debug
|
---|
749 |
|
---|
750 | if ( tout.nrow() != tcon.nrow() ) {
|
---|
751 | throw(AipsError("Mismatch in number of rows to form cal on - off pair."));
|
---|
752 | }
|
---|
753 | // iteration by scanno or cycle no.
|
---|
754 | TableIterator sit(tout, "SCANNO");
|
---|
755 | TableIterator s2it(tcon, "SCANNO");
|
---|
756 | while ( !sit.pastEnd() ) {
|
---|
757 | Table toff = sit.table();
|
---|
758 | TableRow row(toff);
|
---|
759 | Table t = s2it.table();
|
---|
760 | ScalarColumn<Double> outintCol(toff, "INTERVAL");
|
---|
761 | ArrayColumn<Float> outspecCol(toff, "SPECTRA");
|
---|
762 | ArrayColumn<Float> outtsysCol(toff, "TSYS");
|
---|
763 | ArrayColumn<uChar> outflagCol(toff, "FLAGTRA");
|
---|
764 | ROScalarColumn<uInt> outtcalIdCol(toff, "TCAL_ID");
|
---|
765 | ROScalarColumn<uInt> outpolCol(toff, "POLNO");
|
---|
766 | ROScalarColumn<Double> onintCol(t, "INTERVAL");
|
---|
767 | ROArrayColumn<Float> onspecCol(t, "SPECTRA");
|
---|
768 | ROArrayColumn<Float> ontsysCol(t, "TSYS");
|
---|
769 | ROArrayColumn<uChar> onflagCol(t, "FLAGTRA");
|
---|
770 | //ROScalarColumn<uInt> ontcalIdCol(t, "TCAL_ID");
|
---|
771 |
|
---|
772 | for (uInt i=0; i < toff.nrow(); ++i) {
|
---|
773 | //skip these checks -> assumes the data order are the same between the cal on off pairs
|
---|
774 | //
|
---|
775 | Vector<Float> specCalon, specCaloff;
|
---|
776 | // to store scalar (mean) tsys
|
---|
777 | Vector<Float> tsysout(1);
|
---|
778 | uInt tcalId, polno;
|
---|
779 | Double offint, onint;
|
---|
780 | outpolCol.get(i, polno);
|
---|
781 | outspecCol.get(i, specCaloff);
|
---|
782 | onspecCol.get(i, specCalon);
|
---|
783 | Vector<uChar> flagCaloff, flagCalon;
|
---|
784 | outflagCol.get(i, flagCaloff);
|
---|
785 | onflagCol.get(i, flagCalon);
|
---|
786 | outtcalIdCol.get(i, tcalId);
|
---|
787 | outintCol.get(i, offint);
|
---|
788 | onintCol.get(i, onint);
|
---|
789 | // caluculate mean Tsys
|
---|
790 | uInt nchan = specCaloff.nelements();
|
---|
791 | // percentage of edge cut off
|
---|
792 | uInt pc = 10;
|
---|
793 | uInt bchan = nchan/pc;
|
---|
794 | uInt echan = nchan-bchan;
|
---|
795 |
|
---|
796 | Slicer chansl(IPosition(1,bchan-1), IPosition(1,echan-1), IPosition(1,1),Slicer::endIsLast);
|
---|
797 | Vector<Float> testsubsp = specCaloff(chansl);
|
---|
798 | MaskedArray<Float> spoff = maskedArray( specCaloff(chansl),flagCaloff(chansl) );
|
---|
799 | MaskedArray<Float> spon = maskedArray( specCalon(chansl),flagCalon(chansl) );
|
---|
800 | MaskedArray<Float> spdiff = spon-spoff;
|
---|
801 | uInt noff = spoff.nelementsValid();
|
---|
802 | //uInt non = spon.nelementsValid();
|
---|
803 | uInt ndiff = spdiff.nelementsValid();
|
---|
804 | Float meantsys;
|
---|
805 |
|
---|
806 | /**
|
---|
807 | Double subspec, subdiff;
|
---|
808 | uInt usednchan;
|
---|
809 | subspec = 0;
|
---|
810 | subdiff = 0;
|
---|
811 | usednchan = 0;
|
---|
812 | for(uInt k=(bchan-1); k<echan; k++) {
|
---|
813 | subspec += specCaloff[k];
|
---|
814 | subdiff += static_cast<Double>(specCalon[k]-specCaloff[k]);
|
---|
815 | ++usednchan;
|
---|
816 | }
|
---|
817 | **/
|
---|
818 | // get tcal if input tcal <= 0
|
---|
819 | String tcalt;
|
---|
820 | Float tcalUsed;
|
---|
821 | tcalUsed = tcal;
|
---|
822 | if ( tcal <= 0.0 ) {
|
---|
823 | caloff->tcal().getEntry(tcalt, tcalout, tcalId);
|
---|
824 | if (polno<=3) {
|
---|
825 | tcalUsed = tcalout[polno];
|
---|
826 | }
|
---|
827 | else {
|
---|
828 | tcalUsed = tcalout[0];
|
---|
829 | }
|
---|
830 | }
|
---|
831 |
|
---|
832 | Float meanoff;
|
---|
833 | Float meandiff;
|
---|
834 | if (noff && ndiff) {
|
---|
835 | //Debug
|
---|
836 | //if(noff!=ndiff) cerr<<"noff and ndiff is not equal"<<endl;
|
---|
837 | meanoff = sum(spoff)/noff;
|
---|
838 | meandiff = sum(spdiff)/ndiff;
|
---|
839 | meantsys= (meanoff/meandiff )*tcalUsed + tcalUsed/2;
|
---|
840 | }
|
---|
841 | else {
|
---|
842 | meantsys=1;
|
---|
843 | }
|
---|
844 |
|
---|
845 | tsysout[0] = Float(meantsys);
|
---|
846 | MaskedArray<Float> mcaloff = maskedArray(specCaloff, flagCaloff);
|
---|
847 | MaskedArray<Float> mcalon = maskedArray(specCalon, flagCalon);
|
---|
848 | MaskedArray<Float> sig = Float(0.5) * (mcaloff + mcalon);
|
---|
849 | //uInt ncaloff = mcaloff.nelementsValid();
|
---|
850 | //uInt ncalon = mcalon.nelementsValid();
|
---|
851 |
|
---|
852 | outintCol.put(i, offint+onint);
|
---|
853 | outspecCol.put(i, sig.getArray());
|
---|
854 | outflagCol.put(i, flagsFromMA(sig));
|
---|
855 | outtsysCol.put(i, tsysout);
|
---|
856 | }
|
---|
857 | ++sit;
|
---|
858 | ++s2it;
|
---|
859 | }
|
---|
860 | return out;
|
---|
861 | }
|
---|
862 |
|
---|
863 | //dosigref - migrated from GBT IDL's dosigref.pro, do calibration of position switch
|
---|
864 | // observatiions.
|
---|
865 | // input: sig and ref scantables, and an optional boxcar smoothing width(default width=0,
|
---|
866 | // no smoothing).
|
---|
867 | // output: resultant scantable [= (sig-ref/ref)*tsys]
|
---|
868 | CountedPtr< Scantable > STMath::dosigref( const CountedPtr < Scantable >& sig,
|
---|
869 | const CountedPtr < Scantable >& ref,
|
---|
870 | int smoothref,
|
---|
871 | casa::Float tsysv,
|
---|
872 | casa::Float tau )
|
---|
873 | {
|
---|
874 | if ( ! ref->conformant(*sig) ) {
|
---|
875 | throw(AipsError("'sig' and 'ref' scantables are not conformant."));
|
---|
876 | }
|
---|
877 | setInsitu(false);
|
---|
878 | CountedPtr< Scantable > out = getScantable(sig, false);
|
---|
879 | CountedPtr< Scantable > smref;
|
---|
880 | if ( smoothref > 1 ) {
|
---|
881 | float fsmoothref = static_cast<float>(smoothref);
|
---|
882 | std::string inkernel = "boxcar";
|
---|
883 | smref = smooth(ref, inkernel, fsmoothref );
|
---|
884 | ostringstream oss;
|
---|
885 | oss<<"Applied smoothing of "<<fsmoothref<<" on the reference."<<endl;
|
---|
886 | pushLog(String(oss));
|
---|
887 | }
|
---|
888 | else {
|
---|
889 | smref = ref;
|
---|
890 | }
|
---|
891 | Table& tout = out->table();
|
---|
892 | const Table& tref = smref->table();
|
---|
893 | if ( tout.nrow() != tref.nrow() ) {
|
---|
894 | throw(AipsError("Mismatch in number of rows to form on-source and reference pair."));
|
---|
895 | }
|
---|
896 | // iteration by scanno? or cycle no.
|
---|
897 | TableIterator sit(tout, "SCANNO");
|
---|
898 | TableIterator s2it(tref, "SCANNO");
|
---|
899 | while ( !sit.pastEnd() ) {
|
---|
900 | Table ton = sit.table();
|
---|
901 | Table t = s2it.table();
|
---|
902 | ScalarColumn<Double> outintCol(ton, "INTERVAL");
|
---|
903 | ArrayColumn<Float> outspecCol(ton, "SPECTRA");
|
---|
904 | ArrayColumn<Float> outtsysCol(ton, "TSYS");
|
---|
905 | ArrayColumn<uChar> outflagCol(ton, "FLAGTRA");
|
---|
906 | ArrayColumn<Float> refspecCol(t, "SPECTRA");
|
---|
907 | ROScalarColumn<Double> refintCol(t, "INTERVAL");
|
---|
908 | ROArrayColumn<Float> reftsysCol(t, "TSYS");
|
---|
909 | ArrayColumn<uChar> refflagCol(t, "FLAGTRA");
|
---|
910 | ROScalarColumn<Float> refelevCol(t, "ELEVATION");
|
---|
911 | for (uInt i=0; i < ton.nrow(); ++i) {
|
---|
912 |
|
---|
913 | Double onint, refint;
|
---|
914 | Vector<Float> specon, specref;
|
---|
915 | // to store scalar (mean) tsys
|
---|
916 | Vector<Float> tsysref;
|
---|
917 | outintCol.get(i, onint);
|
---|
918 | refintCol.get(i, refint);
|
---|
919 | outspecCol.get(i, specon);
|
---|
920 | refspecCol.get(i, specref);
|
---|
921 | Vector<uChar> flagref, flagon;
|
---|
922 | outflagCol.get(i, flagon);
|
---|
923 | refflagCol.get(i, flagref);
|
---|
924 | reftsysCol.get(i, tsysref);
|
---|
925 |
|
---|
926 | Float tsysrefscalar;
|
---|
927 | if ( tsysv > 0.0 ) {
|
---|
928 | ostringstream oss;
|
---|
929 | Float elev;
|
---|
930 | refelevCol.get(i, elev);
|
---|
931 | oss << "user specified Tsys = " << tsysv;
|
---|
932 | // do recalc elevation if EL = 0
|
---|
933 | if ( elev == 0 ) {
|
---|
934 | throw(AipsError("EL=0, elevation data is missing."));
|
---|
935 | } else {
|
---|
936 | if ( tau <= 0.0 ) {
|
---|
937 | throw(AipsError("Valid tau is not supplied."));
|
---|
938 | } else {
|
---|
939 | tsysrefscalar = tsysv * exp(tau/elev);
|
---|
940 | }
|
---|
941 | }
|
---|
942 | oss << ", corrected (for El) tsys= "<<tsysrefscalar;
|
---|
943 | pushLog(String(oss));
|
---|
944 | }
|
---|
945 | else {
|
---|
946 | tsysrefscalar = tsysref[0];
|
---|
947 | }
|
---|
948 | //get quotient spectrum
|
---|
949 | MaskedArray<Float> mref = maskedArray(specref, flagref);
|
---|
950 | MaskedArray<Float> mon = maskedArray(specon, flagon);
|
---|
951 | MaskedArray<Float> specres = tsysrefscalar*((mon - mref)/mref);
|
---|
952 | Double resint = onint*refint*smoothref/(onint+refint*smoothref);
|
---|
953 |
|
---|
954 | //Debug
|
---|
955 | //cerr<<"Tsys used="<<tsysrefscalar<<endl;
|
---|
956 | // fill the result, replay signal tsys by reference tsys
|
---|
957 | outintCol.put(i, resint);
|
---|
958 | outspecCol.put(i, specres.getArray());
|
---|
959 | outflagCol.put(i, flagsFromMA(specres));
|
---|
960 | outtsysCol.put(i, tsysref);
|
---|
961 | }
|
---|
962 | ++sit;
|
---|
963 | ++s2it;
|
---|
964 | }
|
---|
965 | return out;
|
---|
966 | }
|
---|
967 |
|
---|
968 | CountedPtr< Scantable > STMath::donod(const casa::CountedPtr<Scantable>& s,
|
---|
969 | const std::vector<int>& scans,
|
---|
970 | int smoothref,
|
---|
971 | casa::Float tsysv,
|
---|
972 | casa::Float tau,
|
---|
973 | casa::Float tcal )
|
---|
974 |
|
---|
975 | {
|
---|
976 | setInsitu(false);
|
---|
977 | STSelector sel;
|
---|
978 | std::vector<int> scan1, scan2, beams;
|
---|
979 | std::vector< vector<int> > scanpair;
|
---|
980 | std::vector<string> calstate;
|
---|
981 | String msg;
|
---|
982 |
|
---|
983 | CountedPtr< Scantable > s1b1on, s1b1off, s1b2on, s1b2off;
|
---|
984 | CountedPtr< Scantable > s2b1on, s2b1off, s2b2on, s2b2off;
|
---|
985 |
|
---|
986 | std::vector< CountedPtr< Scantable > > sctables;
|
---|
987 | sctables.push_back(s1b1on);
|
---|
988 | sctables.push_back(s1b1off);
|
---|
989 | sctables.push_back(s1b2on);
|
---|
990 | sctables.push_back(s1b2off);
|
---|
991 | sctables.push_back(s2b1on);
|
---|
992 | sctables.push_back(s2b1off);
|
---|
993 | sctables.push_back(s2b2on);
|
---|
994 | sctables.push_back(s2b2off);
|
---|
995 |
|
---|
996 | //check scanlist
|
---|
997 | int n=s->checkScanInfo(scans);
|
---|
998 | if (n==1) {
|
---|
999 | throw(AipsError("Incorrect scan pairs. "));
|
---|
1000 | }
|
---|
1001 |
|
---|
1002 | // Assume scans contain only a pair of consecutive scan numbers.
|
---|
1003 | // It is assumed that first beam, b1, is on target.
|
---|
1004 | // There is no check if the first beam is on or not.
|
---|
1005 | if ( scans.size()==1 ) {
|
---|
1006 | scan1.push_back(scans[0]);
|
---|
1007 | scan2.push_back(scans[0]+1);
|
---|
1008 | } else if ( scans.size()==2 ) {
|
---|
1009 | scan1.push_back(scans[0]);
|
---|
1010 | scan2.push_back(scans[1]);
|
---|
1011 | } else {
|
---|
1012 | if ( scans.size()%2 == 0 ) {
|
---|
1013 | for (uInt i=0; i<scans.size(); i++) {
|
---|
1014 | if (i%2 == 0) {
|
---|
1015 | scan1.push_back(scans[i]);
|
---|
1016 | }
|
---|
1017 | else {
|
---|
1018 | scan2.push_back(scans[i]);
|
---|
1019 | }
|
---|
1020 | }
|
---|
1021 | } else {
|
---|
1022 | throw(AipsError("Odd numbers of scans, cannot form pairs."));
|
---|
1023 | }
|
---|
1024 | }
|
---|
1025 | scanpair.push_back(scan1);
|
---|
1026 | scanpair.push_back(scan2);
|
---|
1027 | calstate.push_back("*calon");
|
---|
1028 | calstate.push_back("*[^calon]");
|
---|
1029 | CountedPtr< Scantable > ws = getScantable(s, false);
|
---|
1030 | uInt l=0;
|
---|
1031 | while ( l < sctables.size() ) {
|
---|
1032 | for (uInt i=0; i < 2; i++) {
|
---|
1033 | for (uInt j=0; j < 2; j++) {
|
---|
1034 | for (uInt k=0; k < 2; k++) {
|
---|
1035 | sel.reset();
|
---|
1036 | sel.setScans(scanpair[i]);
|
---|
1037 | sel.setName(calstate[k]);
|
---|
1038 | beams.clear();
|
---|
1039 | beams.push_back(j);
|
---|
1040 | sel.setBeams(beams);
|
---|
1041 | ws->setSelection(sel);
|
---|
1042 | sctables[l]= getScantable(ws, false);
|
---|
1043 | l++;
|
---|
1044 | }
|
---|
1045 | }
|
---|
1046 | }
|
---|
1047 | }
|
---|
1048 |
|
---|
1049 | // replace here by splitData or getData functionality
|
---|
1050 | CountedPtr< Scantable > sig1;
|
---|
1051 | CountedPtr< Scantable > ref1;
|
---|
1052 | CountedPtr< Scantable > sig2;
|
---|
1053 | CountedPtr< Scantable > ref2;
|
---|
1054 | CountedPtr< Scantable > calb1;
|
---|
1055 | CountedPtr< Scantable > calb2;
|
---|
1056 |
|
---|
1057 | msg=String("Processing dototalpower for subset of the data");
|
---|
1058 | ostringstream oss1;
|
---|
1059 | oss1 << msg << endl;
|
---|
1060 | pushLog(String(oss1));
|
---|
1061 | // Debug for IRC CS data
|
---|
1062 | //float tcal1=7.0;
|
---|
1063 | //float tcal2=4.0;
|
---|
1064 | sig1 = dototalpower(sctables[0], sctables[1], tcal=tcal);
|
---|
1065 | ref1 = dototalpower(sctables[2], sctables[3], tcal=tcal);
|
---|
1066 | ref2 = dototalpower(sctables[4], sctables[5], tcal=tcal);
|
---|
1067 | sig2 = dototalpower(sctables[6], sctables[7], tcal=tcal);
|
---|
1068 |
|
---|
1069 | // correction of user-specified tsys for elevation here
|
---|
1070 |
|
---|
1071 | // dosigref calibration
|
---|
1072 | msg=String("Processing dosigref for subset of the data");
|
---|
1073 | ostringstream oss2;
|
---|
1074 | oss2 << msg << endl;
|
---|
1075 | pushLog(String(oss2));
|
---|
1076 | calb1=dosigref(sig1,ref2,smoothref,tsysv,tau);
|
---|
1077 | calb2=dosigref(sig2,ref1,smoothref,tsysv,tau);
|
---|
1078 |
|
---|
1079 | // iteration by scanno or cycle no.
|
---|
1080 | Table& tcalb1 = calb1->table();
|
---|
1081 | Table& tcalb2 = calb2->table();
|
---|
1082 | TableIterator sit(tcalb1, "SCANNO");
|
---|
1083 | TableIterator s2it(tcalb2, "SCANNO");
|
---|
1084 | while ( !sit.pastEnd() ) {
|
---|
1085 | Table t1 = sit.table();
|
---|
1086 | Table t2= s2it.table();
|
---|
1087 | ArrayColumn<Float> outspecCol(t1, "SPECTRA");
|
---|
1088 | ArrayColumn<Float> outtsysCol(t1, "TSYS");
|
---|
1089 | ArrayColumn<uChar> outflagCol(t1, "FLAGTRA");
|
---|
1090 | ScalarColumn<Double> outintCol(t1, "INTERVAL");
|
---|
1091 | ArrayColumn<Float> t2specCol(t2, "SPECTRA");
|
---|
1092 | ROArrayColumn<Float> t2tsysCol(t2, "TSYS");
|
---|
1093 | ArrayColumn<uChar> t2flagCol(t2, "FLAGTRA");
|
---|
1094 | ROScalarColumn<Double> t2intCol(t2, "INTERVAL");
|
---|
1095 | for (uInt i=0; i < t1.nrow(); ++i) {
|
---|
1096 | Vector<Float> spec1, spec2;
|
---|
1097 | // to store scalar (mean) tsys
|
---|
1098 | Vector<Float> tsys1, tsys2;
|
---|
1099 | Vector<uChar> flag1, flag2;
|
---|
1100 | Double tint1, tint2;
|
---|
1101 | outspecCol.get(i, spec1);
|
---|
1102 | t2specCol.get(i, spec2);
|
---|
1103 | outflagCol.get(i, flag1);
|
---|
1104 | t2flagCol.get(i, flag2);
|
---|
1105 | outtsysCol.get(i, tsys1);
|
---|
1106 | t2tsysCol.get(i, tsys2);
|
---|
1107 | outintCol.get(i, tint1);
|
---|
1108 | t2intCol.get(i, tint2);
|
---|
1109 | // average
|
---|
1110 | // assume scalar tsys for weights
|
---|
1111 | Float wt1, wt2, tsyssq1, tsyssq2;
|
---|
1112 | tsyssq1 = tsys1[0]*tsys1[0];
|
---|
1113 | tsyssq2 = tsys2[0]*tsys2[0];
|
---|
1114 | wt1 = Float(tint1)/tsyssq1;
|
---|
1115 | wt2 = Float(tint2)/tsyssq2;
|
---|
1116 | Float invsumwt=1/(wt1+wt2);
|
---|
1117 | MaskedArray<Float> mspec1 = maskedArray(spec1, flag1);
|
---|
1118 | MaskedArray<Float> mspec2 = maskedArray(spec2, flag2);
|
---|
1119 | MaskedArray<Float> avspec = invsumwt * (wt1*mspec1 + wt2*mspec2);
|
---|
1120 | //Array<Float> avtsys = Float(0.5) * (tsys1 + tsys2);
|
---|
1121 | // cerr<< "Tsys1="<<tsys1<<" Tsys2="<<tsys2<<endl;
|
---|
1122 | tsys1[0] = sqrt(tsyssq1 + tsyssq2);
|
---|
1123 | Array<Float> avtsys = tsys1;
|
---|
1124 |
|
---|
1125 | outspecCol.put(i, avspec.getArray());
|
---|
1126 | outflagCol.put(i, flagsFromMA(avspec));
|
---|
1127 | outtsysCol.put(i, avtsys);
|
---|
1128 | }
|
---|
1129 | ++sit;
|
---|
1130 | ++s2it;
|
---|
1131 | }
|
---|
1132 | return calb1;
|
---|
1133 | }
|
---|
1134 |
|
---|
1135 | //GBTIDL version of frequency switched data calibration
|
---|
1136 | CountedPtr< Scantable > STMath::dofs( const CountedPtr< Scantable >& s,
|
---|
1137 | const std::vector<int>& scans,
|
---|
1138 | int smoothref,
|
---|
1139 | casa::Float tsysv,
|
---|
1140 | casa::Float tau,
|
---|
1141 | casa::Float tcal )
|
---|
1142 | {
|
---|
1143 |
|
---|
1144 |
|
---|
1145 | STSelector sel;
|
---|
1146 | CountedPtr< Scantable > ws = getScantable(s, false);
|
---|
1147 | CountedPtr< Scantable > sig, sigwcal, ref, refwcal;
|
---|
1148 | CountedPtr< Scantable > calsig, calref, out, out1, out2;
|
---|
1149 | Bool nofold=False;
|
---|
1150 |
|
---|
1151 | //split the data
|
---|
1152 | sel.setName("*_fs");
|
---|
1153 | ws->setSelection(sel);
|
---|
1154 | sig = getScantable(ws,false);
|
---|
1155 | sel.reset();
|
---|
1156 | sel.setName("*_fs_calon");
|
---|
1157 | ws->setSelection(sel);
|
---|
1158 | sigwcal = getScantable(ws,false);
|
---|
1159 | sel.reset();
|
---|
1160 | sel.setName("*_fsr");
|
---|
1161 | ws->setSelection(sel);
|
---|
1162 | ref = getScantable(ws,false);
|
---|
1163 | sel.reset();
|
---|
1164 | sel.setName("*_fsr_calon");
|
---|
1165 | ws->setSelection(sel);
|
---|
1166 | refwcal = getScantable(ws,false);
|
---|
1167 |
|
---|
1168 | calsig = dototalpower(sigwcal, sig, tcal=tcal);
|
---|
1169 | calref = dototalpower(refwcal, ref, tcal=tcal);
|
---|
1170 |
|
---|
1171 | out1=dosigref(calsig,calref,smoothref,tsysv,tau);
|
---|
1172 | out2=dosigref(calref,calsig,smoothref,tsysv,tau);
|
---|
1173 |
|
---|
1174 | Table& tabout1=out1->table();
|
---|
1175 | Table& tabout2=out2->table();
|
---|
1176 | ROScalarColumn<uInt> freqidCol1(tabout1, "FREQ_ID");
|
---|
1177 | ScalarColumn<uInt> freqidCol2(tabout2, "FREQ_ID");
|
---|
1178 | ROArrayColumn<Float> specCol(tabout2, "SPECTRA");
|
---|
1179 | Vector<Float> spec; specCol.get(0, spec);
|
---|
1180 | uInt nchan = spec.nelements();
|
---|
1181 | uInt freqid1; freqidCol1.get(0,freqid1);
|
---|
1182 | uInt freqid2; freqidCol2.get(0,freqid2);
|
---|
1183 | Double rp1, rp2, rv1, rv2, inc1, inc2;
|
---|
1184 | out1->frequencies().getEntry(rp1, rv1, inc1, freqid1);
|
---|
1185 | out2->frequencies().getEntry(rp2, rv2, inc2, freqid2);
|
---|
1186 | //cerr << out1->frequencies().table().nrow() << " " << out2->frequencies().table().nrow() << endl ;
|
---|
1187 | if (rp1==rp2) {
|
---|
1188 | Double foffset = rv1 - rv2;
|
---|
1189 | uInt choffset = static_cast<uInt>(foffset/abs(inc2));
|
---|
1190 | if (choffset >= nchan) {
|
---|
1191 | cerr<<"out-band frequency switching, no folding"<<endl;
|
---|
1192 | nofold = True;
|
---|
1193 | }
|
---|
1194 | }
|
---|
1195 |
|
---|
1196 | if (nofold) {
|
---|
1197 | std::vector< CountedPtr< Scantable > > tabs;
|
---|
1198 | tabs.push_back(out1);
|
---|
1199 | tabs.push_back(out2);
|
---|
1200 | out = merge(tabs);
|
---|
1201 | }
|
---|
1202 | else { //folding is not implemented yet
|
---|
1203 | //out = out1;
|
---|
1204 | Int choffset = static_cast<Int>((rv1-rv2)/inc2) ;
|
---|
1205 | out = dofold( out1, out2, choffset ) ;
|
---|
1206 | }
|
---|
1207 |
|
---|
1208 | return out;
|
---|
1209 | }
|
---|
1210 |
|
---|
1211 | CountedPtr<Scantable> STMath::dofold( const CountedPtr<Scantable> &sig,
|
---|
1212 | const CountedPtr<Scantable> &ref,
|
---|
1213 | Int choffset )
|
---|
1214 | {
|
---|
1215 | // output scantable
|
---|
1216 | CountedPtr<Scantable> out = getScantable( sig, false ) ;
|
---|
1217 |
|
---|
1218 | // get column
|
---|
1219 | ROArrayColumn<Float> specCol1( sig->table(), "SPECTRA" ) ;
|
---|
1220 | ROArrayColumn<Float> specCol2( ref->table(), "SPECTRA" ) ;
|
---|
1221 | ROArrayColumn<Float> tsysCol1( sig->table(), "TSYS" ) ;
|
---|
1222 | ROArrayColumn<Float> tsysCol2( ref->table(), "TSYS" ) ;
|
---|
1223 | ROArrayColumn<uChar> flagCol1( sig->table(), "FLAGTRA" ) ;
|
---|
1224 | ROArrayColumn<uChar> flagCol2( ref->table(), "FLAGTRA" ) ;
|
---|
1225 | ROScalarColumn<Double> mjdCol1( sig->table(), "TIME" ) ;
|
---|
1226 | ROScalarColumn<Double> mjdCol2( ref->table(), "TIME" ) ;
|
---|
1227 | ROScalarColumn<Double> intervalCol1( sig->table(), "INTERVAL" ) ;
|
---|
1228 | ROScalarColumn<Double> intervalCol2( ref->table(), "INTERVAL" ) ;
|
---|
1229 |
|
---|
1230 | // check
|
---|
1231 | if ( choffset == 0 ) {
|
---|
1232 | cerr << "channel offset is zero, no folding" << endl ;
|
---|
1233 | return out ;
|
---|
1234 | }
|
---|
1235 | int nchan = ref->nchan() ;
|
---|
1236 | if ( abs(choffset) >= nchan ) {
|
---|
1237 | cerr << "out-band frequency switching, no folding" << endl ;
|
---|
1238 | return out ;
|
---|
1239 | }
|
---|
1240 |
|
---|
1241 | // attach column for output scantable
|
---|
1242 | ArrayColumn<Float> specColOut( out->table(), "SPECTRA" ) ;
|
---|
1243 | ArrayColumn<uChar> flagColOut( out->table(), "FLAGTRA" ) ;
|
---|
1244 | ArrayColumn<Float> tsysColOut( out->table(), "TSYS" ) ;
|
---|
1245 | ScalarColumn<Double> mjdColOut( out->table(), "TIME" ) ;
|
---|
1246 | ScalarColumn<Double> intervalColOut( out->table(), "INTERVAL" ) ;
|
---|
1247 |
|
---|
1248 | // for each row
|
---|
1249 | // assume that the data order are same between sig and ref
|
---|
1250 | RowAccumulator acc( asap::TINTSYS ) ;
|
---|
1251 | for ( int i = 0 ; i < sig->nrow() ; i++ ) {
|
---|
1252 | // get values
|
---|
1253 | Vector<Float> spsig ;
|
---|
1254 | specCol1.get( i, spsig ) ;
|
---|
1255 | Vector<Float> spref ;
|
---|
1256 | specCol2.get( i, spref ) ;
|
---|
1257 | Vector<Float> tsyssig ;
|
---|
1258 | tsysCol1.get( i, tsyssig ) ;
|
---|
1259 | Vector<Float> tsysref ;
|
---|
1260 | tsysCol2.get( i, tsysref ) ;
|
---|
1261 | Vector<uChar> flagsig ;
|
---|
1262 | flagCol1.get( i, flagsig ) ;
|
---|
1263 | Vector<uChar> flagref ;
|
---|
1264 | flagCol2.get( i, flagref ) ;
|
---|
1265 | Double timesig ;
|
---|
1266 | mjdCol1.get( i, timesig ) ;
|
---|
1267 | Double timeref ;
|
---|
1268 | mjdCol2.get( i, timeref ) ;
|
---|
1269 | Double intsig ;
|
---|
1270 | intervalCol1.get( i, intsig ) ;
|
---|
1271 | Double intref ;
|
---|
1272 | intervalCol2.get( i, intref ) ;
|
---|
1273 |
|
---|
1274 | // shift reference spectra
|
---|
1275 | int refchan = spref.nelements() ;
|
---|
1276 | if ( choffset > 0 ) {
|
---|
1277 | for ( int j = 0 ; j < refchan-choffset ; j++ ) {
|
---|
1278 | spref[j] = spref[j+choffset] ;
|
---|
1279 | tsysref[j] = tsysref[j+choffset] ;
|
---|
1280 | flagref[j] = flagref[j+choffset] ;
|
---|
1281 | }
|
---|
1282 | for ( int j = refchan-choffset ; j < refchan ; j++ ) {
|
---|
1283 | spref[j] = spref[j-refchan+choffset] ;
|
---|
1284 | tsysref[j] = tsysref[j-refchan+choffset] ;
|
---|
1285 | flagref[j] = flagref[j-refchan+choffset] ;
|
---|
1286 | }
|
---|
1287 | }
|
---|
1288 | else {
|
---|
1289 | for ( int j = 0 ; j < abs(choffset) ; j++ ) {
|
---|
1290 | spref[j] = spref[refchan+choffset+j] ;
|
---|
1291 | tsysref[j] = tsysref[refchan+choffset+j] ;
|
---|
1292 | flagref[j] = flagref[refchan+choffset+j] ;
|
---|
1293 | }
|
---|
1294 | for ( int j = abs(choffset) ; j < refchan ; j++ ) {
|
---|
1295 | spref[j] = spref[j+choffset] ;
|
---|
1296 | tsysref[j] = tsysref[j+choffset] ;
|
---|
1297 | flagref[j] = flagref[j+choffset] ;
|
---|
1298 | }
|
---|
1299 | }
|
---|
1300 |
|
---|
1301 | // folding
|
---|
1302 | acc.add( spsig, !flagsig, tsyssig, intsig, timesig ) ;
|
---|
1303 | acc.add( spref, !flagref, tsysref, intref, timeref ) ;
|
---|
1304 |
|
---|
1305 | // put result
|
---|
1306 | specColOut.put( i, acc.getSpectrum() ) ;
|
---|
1307 | const Vector<Bool> &msk = acc.getMask() ;
|
---|
1308 | Vector<uChar> flg( msk.shape() ) ;
|
---|
1309 | convertArray( flg, !msk ) ;
|
---|
1310 | flagColOut.put( i, flg ) ;
|
---|
1311 | tsysColOut.put( i, acc.getTsys() ) ;
|
---|
1312 | intervalColOut.put( i, acc.getInterval() ) ;
|
---|
1313 | mjdColOut.put( i, acc.getTime() ) ;
|
---|
1314 |
|
---|
1315 | acc.reset() ;
|
---|
1316 | }
|
---|
1317 |
|
---|
1318 | return out ;
|
---|
1319 | }
|
---|
1320 |
|
---|
1321 |
|
---|
1322 | CountedPtr< Scantable > STMath::freqSwitch( const CountedPtr< Scantable >& in )
|
---|
1323 | {
|
---|
1324 | // make copy or reference
|
---|
1325 | CountedPtr< Scantable > out = getScantable(in, false);
|
---|
1326 | Table& tout = out->table();
|
---|
1327 | Block<String> cols(4);
|
---|
1328 | cols[0] = String("SCANNO");
|
---|
1329 | cols[1] = String("CYCLENO");
|
---|
1330 | cols[2] = String("BEAMNO");
|
---|
1331 | cols[3] = String("POLNO");
|
---|
1332 | TableIterator iter(tout, cols);
|
---|
1333 | while (!iter.pastEnd()) {
|
---|
1334 | Table subt = iter.table();
|
---|
1335 | // this should leave us with two rows for the two IFs....if not ignore
|
---|
1336 | if (subt.nrow() != 2 ) {
|
---|
1337 | continue;
|
---|
1338 | }
|
---|
1339 | ArrayColumn<Float> specCol(subt, "SPECTRA");
|
---|
1340 | ArrayColumn<Float> tsysCol(subt, "TSYS");
|
---|
1341 | ArrayColumn<uChar> flagCol(subt, "FLAGTRA");
|
---|
1342 | Vector<Float> onspec,offspec, ontsys, offtsys;
|
---|
1343 | Vector<uChar> onflag, offflag;
|
---|
1344 | tsysCol.get(0, ontsys); tsysCol.get(1, offtsys);
|
---|
1345 | specCol.get(0, onspec); specCol.get(1, offspec);
|
---|
1346 | flagCol.get(0, onflag); flagCol.get(1, offflag);
|
---|
1347 | MaskedArray<Float> on = maskedArray(onspec, onflag);
|
---|
1348 | MaskedArray<Float> off = maskedArray(offspec, offflag);
|
---|
1349 | MaskedArray<Float> oncopy = on.copy();
|
---|
1350 |
|
---|
1351 | on /= off; on -= 1.0f;
|
---|
1352 | on *= ontsys[0];
|
---|
1353 | off /= oncopy; off -= 1.0f;
|
---|
1354 | off *= offtsys[0];
|
---|
1355 | specCol.put(0, on.getArray());
|
---|
1356 | const Vector<Bool>& m0 = on.getMask();
|
---|
1357 | Vector<uChar> flags0(m0.shape());
|
---|
1358 | convertArray(flags0, !m0);
|
---|
1359 | flagCol.put(0, flags0);
|
---|
1360 |
|
---|
1361 | specCol.put(1, off.getArray());
|
---|
1362 | const Vector<Bool>& m1 = off.getMask();
|
---|
1363 | Vector<uChar> flags1(m1.shape());
|
---|
1364 | convertArray(flags1, !m1);
|
---|
1365 | flagCol.put(1, flags1);
|
---|
1366 | ++iter;
|
---|
1367 | }
|
---|
1368 |
|
---|
1369 | return out;
|
---|
1370 | }
|
---|
1371 |
|
---|
1372 | std::vector< float > STMath::statistic( const CountedPtr< Scantable > & in,
|
---|
1373 | const std::vector< bool > & mask,
|
---|
1374 | const std::string& which )
|
---|
1375 | {
|
---|
1376 |
|
---|
1377 | Vector<Bool> m(mask);
|
---|
1378 | const Table& tab = in->table();
|
---|
1379 | ROArrayColumn<Float> specCol(tab, "SPECTRA");
|
---|
1380 | ROArrayColumn<uChar> flagCol(tab, "FLAGTRA");
|
---|
1381 | std::vector<float> out;
|
---|
1382 | for (uInt i=0; i < tab.nrow(); ++i ) {
|
---|
1383 | Vector<Float> spec; specCol.get(i, spec);
|
---|
1384 | Vector<uChar> flag; flagCol.get(i, flag);
|
---|
1385 | MaskedArray<Float> ma = maskedArray(spec, flag);
|
---|
1386 | float outstat = 0.0;
|
---|
1387 | if ( spec.nelements() == m.nelements() ) {
|
---|
1388 | outstat = mathutil::statistics(which, ma(m));
|
---|
1389 | } else {
|
---|
1390 | outstat = mathutil::statistics(which, ma);
|
---|
1391 | }
|
---|
1392 | out.push_back(outstat);
|
---|
1393 | }
|
---|
1394 | return out;
|
---|
1395 | }
|
---|
1396 |
|
---|
1397 | std::vector< int > STMath::minMaxChan( const CountedPtr< Scantable > & in,
|
---|
1398 | const std::vector< bool > & mask,
|
---|
1399 | const std::string& which )
|
---|
1400 | {
|
---|
1401 |
|
---|
1402 | Vector<Bool> m(mask);
|
---|
1403 | const Table& tab = in->table();
|
---|
1404 | ROArrayColumn<Float> specCol(tab, "SPECTRA");
|
---|
1405 | ROArrayColumn<uChar> flagCol(tab, "FLAGTRA");
|
---|
1406 | std::vector<int> out;
|
---|
1407 | for (uInt i=0; i < tab.nrow(); ++i ) {
|
---|
1408 | Vector<Float> spec; specCol.get(i, spec);
|
---|
1409 | Vector<uChar> flag; flagCol.get(i, flag);
|
---|
1410 | MaskedArray<Float> ma = maskedArray(spec, flag);
|
---|
1411 | if (ma.ndim() != 1) {
|
---|
1412 | throw (ArrayError(
|
---|
1413 | "std::vector<int> STMath::minMaxChan("
|
---|
1414 | "ContedPtr<Scantable> &in, std::vector<bool> &mask, "
|
---|
1415 | " std::string &which)"
|
---|
1416 | " - MaskedArray is not 1D"));
|
---|
1417 | }
|
---|
1418 | IPosition outpos(1,0);
|
---|
1419 | if ( spec.nelements() == m.nelements() ) {
|
---|
1420 | outpos = mathutil::minMaxPos(which, ma(m));
|
---|
1421 | } else {
|
---|
1422 | outpos = mathutil::minMaxPos(which, ma);
|
---|
1423 | }
|
---|
1424 | out.push_back(outpos[0]);
|
---|
1425 | }
|
---|
1426 | return out;
|
---|
1427 | }
|
---|
1428 |
|
---|
1429 | CountedPtr< Scantable > STMath::bin( const CountedPtr< Scantable > & in,
|
---|
1430 | int width )
|
---|
1431 | {
|
---|
1432 | if ( !in->getSelection().empty() ) throw(AipsError("Can't bin subset of the data."));
|
---|
1433 | CountedPtr< Scantable > out = getScantable(in, false);
|
---|
1434 | Table& tout = out->table();
|
---|
1435 | out->frequencies().rescale(width, "BIN");
|
---|
1436 | ArrayColumn<Float> specCol(tout, "SPECTRA");
|
---|
1437 | ArrayColumn<uChar> flagCol(tout, "FLAGTRA");
|
---|
1438 | for (uInt i=0; i < tout.nrow(); ++i ) {
|
---|
1439 | MaskedArray<Float> main = maskedArray(specCol(i), flagCol(i));
|
---|
1440 | MaskedArray<Float> maout;
|
---|
1441 | LatticeUtilities::bin(maout, main, 0, Int(width));
|
---|
1442 | /// @todo implement channel based tsys binning
|
---|
1443 | specCol.put(i, maout.getArray());
|
---|
1444 | flagCol.put(i, flagsFromMA(maout));
|
---|
1445 | // take only the first binned spectrum's length for the deprecated
|
---|
1446 | // global header item nChan
|
---|
1447 | if (i==0) tout.rwKeywordSet().define(String("nChan"),
|
---|
1448 | Int(maout.getArray().nelements()));
|
---|
1449 | }
|
---|
1450 | return out;
|
---|
1451 | }
|
---|
1452 |
|
---|
1453 | CountedPtr< Scantable > STMath::resample( const CountedPtr< Scantable >& in,
|
---|
1454 | const std::string& method,
|
---|
1455 | float width )
|
---|
1456 | //
|
---|
1457 | // Should add the possibility of width being specified in km/s. This means
|
---|
1458 | // that for each freqID (SpectralCoordinate) we will need to convert to an
|
---|
1459 | // average channel width (say at the reference pixel). Then we would need
|
---|
1460 | // to be careful to make sure each spectrum (of different freqID)
|
---|
1461 | // is the same length.
|
---|
1462 | //
|
---|
1463 | {
|
---|
1464 | //InterpolateArray1D<Double,Float>::InterpolationMethod interp;
|
---|
1465 | Int interpMethod(stringToIMethod(method));
|
---|
1466 |
|
---|
1467 | CountedPtr< Scantable > out = getScantable(in, false);
|
---|
1468 | Table& tout = out->table();
|
---|
1469 |
|
---|
1470 | // Resample SpectralCoordinates (one per freqID)
|
---|
1471 | out->frequencies().rescale(width, "RESAMPLE");
|
---|
1472 | TableIterator iter(tout, "IFNO");
|
---|
1473 | TableRow row(tout);
|
---|
1474 | while ( !iter.pastEnd() ) {
|
---|
1475 | Table tab = iter.table();
|
---|
1476 | ArrayColumn<Float> specCol(tab, "SPECTRA");
|
---|
1477 | //ArrayColumn<Float> tsysCol(tout, "TSYS");
|
---|
1478 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA");
|
---|
1479 | Vector<Float> spec;
|
---|
1480 | Vector<uChar> flag;
|
---|
1481 | specCol.get(0,spec); // the number of channels should be constant per IF
|
---|
1482 | uInt nChanIn = spec.nelements();
|
---|
1483 | Vector<Float> xIn(nChanIn); indgen(xIn);
|
---|
1484 | Int fac = Int(nChanIn/width);
|
---|
1485 | Vector<Float> xOut(fac+10); // 10 to be safe - resize later
|
---|
1486 | uInt k = 0;
|
---|
1487 | Float x = 0.0;
|
---|
1488 | while (x < Float(nChanIn) ) {
|
---|
1489 | xOut(k) = x;
|
---|
1490 | k++;
|
---|
1491 | x += width;
|
---|
1492 | }
|
---|
1493 | uInt nChanOut = k;
|
---|
1494 | xOut.resize(nChanOut, True);
|
---|
1495 | // process all rows for this IFNO
|
---|
1496 | Vector<Float> specOut;
|
---|
1497 | Vector<Bool> maskOut;
|
---|
1498 | Vector<uChar> flagOut;
|
---|
1499 | for (uInt i=0; i < tab.nrow(); ++i) {
|
---|
1500 | specCol.get(i, spec);
|
---|
1501 | flagCol.get(i, flag);
|
---|
1502 | Vector<Bool> mask(flag.nelements());
|
---|
1503 | convertArray(mask, flag);
|
---|
1504 |
|
---|
1505 | IPosition shapeIn(spec.shape());
|
---|
1506 | //sh.nchan = nChanOut;
|
---|
1507 | InterpolateArray1D<Float,Float>::interpolate(specOut, maskOut, xOut,
|
---|
1508 | xIn, spec, mask,
|
---|
1509 | interpMethod, True, True);
|
---|
1510 | /// @todo do the same for channel based Tsys
|
---|
1511 | flagOut.resize(maskOut.nelements());
|
---|
1512 | convertArray(flagOut, maskOut);
|
---|
1513 | specCol.put(i, specOut);
|
---|
1514 | flagCol.put(i, flagOut);
|
---|
1515 | }
|
---|
1516 | ++iter;
|
---|
1517 | }
|
---|
1518 |
|
---|
1519 | return out;
|
---|
1520 | }
|
---|
1521 |
|
---|
1522 | STMath::imethod STMath::stringToIMethod(const std::string& in)
|
---|
1523 | {
|
---|
1524 | static STMath::imap lookup;
|
---|
1525 |
|
---|
1526 | // initialize the lookup table if necessary
|
---|
1527 | if ( lookup.empty() ) {
|
---|
1528 | lookup["nearest"] = InterpolateArray1D<Double,Float>::nearestNeighbour;
|
---|
1529 | lookup["linear"] = InterpolateArray1D<Double,Float>::linear;
|
---|
1530 | lookup["cubic"] = InterpolateArray1D<Double,Float>::cubic;
|
---|
1531 | lookup["spline"] = InterpolateArray1D<Double,Float>::spline;
|
---|
1532 | }
|
---|
1533 |
|
---|
1534 | STMath::imap::const_iterator iter = lookup.find(in);
|
---|
1535 |
|
---|
1536 | if ( lookup.end() == iter ) {
|
---|
1537 | std::string message = in;
|
---|
1538 | message += " is not a valid interpolation mode";
|
---|
1539 | throw(AipsError(message));
|
---|
1540 | }
|
---|
1541 | return iter->second;
|
---|
1542 | }
|
---|
1543 |
|
---|
1544 | WeightType STMath::stringToWeight(const std::string& in)
|
---|
1545 | {
|
---|
1546 | static std::map<std::string, WeightType> lookup;
|
---|
1547 |
|
---|
1548 | // initialize the lookup table if necessary
|
---|
1549 | if ( lookup.empty() ) {
|
---|
1550 | lookup["NONE"] = asap::NONE;
|
---|
1551 | lookup["TINT"] = asap::TINT;
|
---|
1552 | lookup["TINTSYS"] = asap::TINTSYS;
|
---|
1553 | lookup["TSYS"] = asap::TSYS;
|
---|
1554 | lookup["VAR"] = asap::VAR;
|
---|
1555 | }
|
---|
1556 |
|
---|
1557 | std::map<std::string, WeightType>::const_iterator iter = lookup.find(in);
|
---|
1558 |
|
---|
1559 | if ( lookup.end() == iter ) {
|
---|
1560 | std::string message = in;
|
---|
1561 | message += " is not a valid weighting mode";
|
---|
1562 | throw(AipsError(message));
|
---|
1563 | }
|
---|
1564 | return iter->second;
|
---|
1565 | }
|
---|
1566 |
|
---|
1567 | CountedPtr< Scantable > STMath::gainElevation( const CountedPtr< Scantable >& in,
|
---|
1568 | const vector< float > & coeff,
|
---|
1569 | const std::string & filename,
|
---|
1570 | const std::string& method)
|
---|
1571 | {
|
---|
1572 | // Get elevation data from Scantable and convert to degrees
|
---|
1573 | CountedPtr< Scantable > out = getScantable(in, false);
|
---|
1574 | Table& tab = out->table();
|
---|
1575 | ROScalarColumn<Float> elev(tab, "ELEVATION");
|
---|
1576 | Vector<Float> x = elev.getColumn();
|
---|
1577 | x *= Float(180 / C::pi); // Degrees
|
---|
1578 |
|
---|
1579 | Vector<Float> coeffs(coeff);
|
---|
1580 | const uInt nc = coeffs.nelements();
|
---|
1581 | if ( filename.length() > 0 && nc > 0 ) {
|
---|
1582 | throw(AipsError("You must choose either polynomial coefficients or an ascii file, not both"));
|
---|
1583 | }
|
---|
1584 |
|
---|
1585 | // Correct
|
---|
1586 | if ( nc > 0 || filename.length() == 0 ) {
|
---|
1587 | // Find instrument
|
---|
1588 | Bool throwit = True;
|
---|
1589 | Instrument inst =
|
---|
1590 | STAttr::convertInstrument(tab.keywordSet().asString("AntennaName"),
|
---|
1591 | throwit);
|
---|
1592 |
|
---|
1593 | // Set polynomial
|
---|
1594 | Polynomial<Float>* ppoly = 0;
|
---|
1595 | Vector<Float> coeff;
|
---|
1596 | String msg;
|
---|
1597 | if ( nc > 0 ) {
|
---|
1598 | ppoly = new Polynomial<Float>(nc);
|
---|
1599 | coeff = coeffs;
|
---|
1600 | msg = String("user");
|
---|
1601 | } else {
|
---|
1602 | STAttr sdAttr;
|
---|
1603 | coeff = sdAttr.gainElevationPoly(inst);
|
---|
1604 | ppoly = new Polynomial<Float>(3);
|
---|
1605 | msg = String("built in");
|
---|
1606 | }
|
---|
1607 |
|
---|
1608 | if ( coeff.nelements() > 0 ) {
|
---|
1609 | ppoly->setCoefficients(coeff);
|
---|
1610 | } else {
|
---|
1611 | delete ppoly;
|
---|
1612 | throw(AipsError("There is no known gain-elevation polynomial known for this instrument"));
|
---|
1613 | }
|
---|
1614 | ostringstream oss;
|
---|
1615 | oss << "Making polynomial correction with " << msg << " coefficients:" << endl;
|
---|
1616 | oss << " " << coeff;
|
---|
1617 | pushLog(String(oss));
|
---|
1618 | const uInt nrow = tab.nrow();
|
---|
1619 | Vector<Float> factor(nrow);
|
---|
1620 | for ( uInt i=0; i < nrow; ++i ) {
|
---|
1621 | factor[i] = 1.0 / (*ppoly)(x[i]);
|
---|
1622 | }
|
---|
1623 | delete ppoly;
|
---|
1624 | scaleByVector(tab, factor, true);
|
---|
1625 |
|
---|
1626 | } else {
|
---|
1627 | // Read and correct
|
---|
1628 | pushLog("Making correction from ascii Table");
|
---|
1629 | scaleFromAsciiTable(tab, filename, method, x, true);
|
---|
1630 | }
|
---|
1631 | return out;
|
---|
1632 | }
|
---|
1633 |
|
---|
1634 | void STMath::scaleFromAsciiTable(Table& in, const std::string& filename,
|
---|
1635 | const std::string& method,
|
---|
1636 | const Vector<Float>& xout, bool dotsys)
|
---|
1637 | {
|
---|
1638 |
|
---|
1639 | // Read gain-elevation ascii file data into a Table.
|
---|
1640 |
|
---|
1641 | String formatString;
|
---|
1642 | Table tbl = readAsciiTable(formatString, Table::Memory, filename, "", "", False);
|
---|
1643 | scaleFromTable(in, tbl, method, xout, dotsys);
|
---|
1644 | }
|
---|
1645 |
|
---|
1646 | void STMath::scaleFromTable(Table& in,
|
---|
1647 | const Table& table,
|
---|
1648 | const std::string& method,
|
---|
1649 | const Vector<Float>& xout, bool dotsys)
|
---|
1650 | {
|
---|
1651 |
|
---|
1652 | ROScalarColumn<Float> geElCol(table, "ELEVATION");
|
---|
1653 | ROScalarColumn<Float> geFacCol(table, "FACTOR");
|
---|
1654 | Vector<Float> xin = geElCol.getColumn();
|
---|
1655 | Vector<Float> yin = geFacCol.getColumn();
|
---|
1656 | Vector<Bool> maskin(xin.nelements(),True);
|
---|
1657 |
|
---|
1658 | // Interpolate (and extrapolate) with desired method
|
---|
1659 |
|
---|
1660 | InterpolateArray1D<Double,Float>::InterpolationMethod interp = stringToIMethod(method);
|
---|
1661 |
|
---|
1662 | Vector<Float> yout;
|
---|
1663 | Vector<Bool> maskout;
|
---|
1664 | InterpolateArray1D<Float,Float>::interpolate(yout, maskout, xout,
|
---|
1665 | xin, yin, maskin, interp,
|
---|
1666 | True, True);
|
---|
1667 |
|
---|
1668 | scaleByVector(in, Float(1.0)/yout, dotsys);
|
---|
1669 | }
|
---|
1670 |
|
---|
1671 | void STMath::scaleByVector( Table& in,
|
---|
1672 | const Vector< Float >& factor,
|
---|
1673 | bool dotsys )
|
---|
1674 | {
|
---|
1675 | uInt nrow = in.nrow();
|
---|
1676 | if ( factor.nelements() != nrow ) {
|
---|
1677 | throw(AipsError("factors.nelements() != table.nelements()"));
|
---|
1678 | }
|
---|
1679 | ArrayColumn<Float> specCol(in, "SPECTRA");
|
---|
1680 | ArrayColumn<uChar> flagCol(in, "FLAGTRA");
|
---|
1681 | ArrayColumn<Float> tsysCol(in, "TSYS");
|
---|
1682 | for (uInt i=0; i < nrow; ++i) {
|
---|
1683 | MaskedArray<Float> ma = maskedArray(specCol(i), flagCol(i));
|
---|
1684 | ma *= factor[i];
|
---|
1685 | specCol.put(i, ma.getArray());
|
---|
1686 | flagCol.put(i, flagsFromMA(ma));
|
---|
1687 | if ( dotsys ) {
|
---|
1688 | Vector<Float> tsys = tsysCol(i);
|
---|
1689 | tsys *= factor[i];
|
---|
1690 | tsysCol.put(i,tsys);
|
---|
1691 | }
|
---|
1692 | }
|
---|
1693 | }
|
---|
1694 |
|
---|
1695 | CountedPtr< Scantable > STMath::convertFlux( const CountedPtr< Scantable >& in,
|
---|
1696 | float d, float etaap,
|
---|
1697 | float jyperk )
|
---|
1698 | {
|
---|
1699 | CountedPtr< Scantable > out = getScantable(in, false);
|
---|
1700 | Table& tab = in->table();
|
---|
1701 | Unit fluxUnit(tab.keywordSet().asString("FluxUnit"));
|
---|
1702 | Unit K(String("K"));
|
---|
1703 | Unit JY(String("Jy"));
|
---|
1704 |
|
---|
1705 | bool tokelvin = true;
|
---|
1706 | Double cfac = 1.0;
|
---|
1707 |
|
---|
1708 | if ( fluxUnit == JY ) {
|
---|
1709 | pushLog("Converting to K");
|
---|
1710 | Quantum<Double> t(1.0,fluxUnit);
|
---|
1711 | Quantum<Double> t2 = t.get(JY);
|
---|
1712 | cfac = (t2 / t).getValue(); // value to Jy
|
---|
1713 |
|
---|
1714 | tokelvin = true;
|
---|
1715 | out->setFluxUnit("K");
|
---|
1716 | } else if ( fluxUnit == K ) {
|
---|
1717 | pushLog("Converting to Jy");
|
---|
1718 | Quantum<Double> t(1.0,fluxUnit);
|
---|
1719 | Quantum<Double> t2 = t.get(K);
|
---|
1720 | cfac = (t2 / t).getValue(); // value to K
|
---|
1721 |
|
---|
1722 | tokelvin = false;
|
---|
1723 | out->setFluxUnit("Jy");
|
---|
1724 | } else {
|
---|
1725 | throw(AipsError("Unrecognized brightness units in Table - must be consistent with Jy or K"));
|
---|
1726 | }
|
---|
1727 | // Make sure input values are converted to either Jy or K first...
|
---|
1728 | Float factor = cfac;
|
---|
1729 |
|
---|
1730 | // Select method
|
---|
1731 | if (jyperk > 0.0) {
|
---|
1732 | factor *= jyperk;
|
---|
1733 | if ( tokelvin ) factor = 1.0 / jyperk;
|
---|
1734 | ostringstream oss;
|
---|
1735 | oss << "Jy/K = " << jyperk;
|
---|
1736 | pushLog(String(oss));
|
---|
1737 | Vector<Float> factors(tab.nrow(), factor);
|
---|
1738 | scaleByVector(tab,factors, false);
|
---|
1739 | } else if ( etaap > 0.0) {
|
---|
1740 | if (d < 0) {
|
---|
1741 | Instrument inst =
|
---|
1742 | STAttr::convertInstrument(tab.keywordSet().asString("AntennaName"),
|
---|
1743 | True);
|
---|
1744 | STAttr sda;
|
---|
1745 | d = sda.diameter(inst);
|
---|
1746 | }
|
---|
1747 | jyperk = STAttr::findJyPerK(etaap, d);
|
---|
1748 | ostringstream oss;
|
---|
1749 | oss << "Jy/K = " << jyperk;
|
---|
1750 | pushLog(String(oss));
|
---|
1751 | factor *= jyperk;
|
---|
1752 | if ( tokelvin ) {
|
---|
1753 | factor = 1.0 / factor;
|
---|
1754 | }
|
---|
1755 | Vector<Float> factors(tab.nrow(), factor);
|
---|
1756 | scaleByVector(tab, factors, False);
|
---|
1757 | } else {
|
---|
1758 |
|
---|
1759 | // OK now we must deal with automatic look up of values.
|
---|
1760 | // We must also deal with the fact that the factors need
|
---|
1761 | // to be computed per IF and may be different and may
|
---|
1762 | // change per integration.
|
---|
1763 |
|
---|
1764 | pushLog("Looking up conversion factors");
|
---|
1765 | convertBrightnessUnits(out, tokelvin, cfac);
|
---|
1766 | }
|
---|
1767 |
|
---|
1768 | return out;
|
---|
1769 | }
|
---|
1770 |
|
---|
1771 | void STMath::convertBrightnessUnits( CountedPtr<Scantable>& in,
|
---|
1772 | bool tokelvin, float cfac )
|
---|
1773 | {
|
---|
1774 | Table& table = in->table();
|
---|
1775 | Instrument inst =
|
---|
1776 | STAttr::convertInstrument(table.keywordSet().asString("AntennaName"), True);
|
---|
1777 | TableIterator iter(table, "FREQ_ID");
|
---|
1778 | STFrequencies stfreqs = in->frequencies();
|
---|
1779 | STAttr sdAtt;
|
---|
1780 | while (!iter.pastEnd()) {
|
---|
1781 | Table tab = iter.table();
|
---|
1782 | ArrayColumn<Float> specCol(tab, "SPECTRA");
|
---|
1783 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA");
|
---|
1784 | ROScalarColumn<uInt> freqidCol(tab, "FREQ_ID");
|
---|
1785 | MEpoch::ROScalarColumn timeCol(tab, "TIME");
|
---|
1786 |
|
---|
1787 | uInt freqid; freqidCol.get(0, freqid);
|
---|
1788 | Vector<Float> tmpspec; specCol.get(0, tmpspec);
|
---|
1789 | // STAttr.JyPerK has a Vector interface... change sometime.
|
---|
1790 | Vector<Float> freqs(1,stfreqs.getRefFreq(freqid, tmpspec.nelements()));
|
---|
1791 | for ( uInt i=0; i<tab.nrow(); ++i) {
|
---|
1792 | Float jyperk = (sdAtt.JyPerK(inst, timeCol(i), freqs))[0];
|
---|
1793 | Float factor = cfac * jyperk;
|
---|
1794 | if ( tokelvin ) factor = Float(1.0) / factor;
|
---|
1795 | MaskedArray<Float> ma = maskedArray(specCol(i), flagCol(i));
|
---|
1796 | ma *= factor;
|
---|
1797 | specCol.put(i, ma.getArray());
|
---|
1798 | flagCol.put(i, flagsFromMA(ma));
|
---|
1799 | }
|
---|
1800 | ++iter;
|
---|
1801 | }
|
---|
1802 | }
|
---|
1803 |
|
---|
1804 | CountedPtr< Scantable > STMath::opacity( const CountedPtr< Scantable > & in,
|
---|
1805 | float tau )
|
---|
1806 | {
|
---|
1807 | CountedPtr< Scantable > out = getScantable(in, false);
|
---|
1808 |
|
---|
1809 | Table tab = out->table();
|
---|
1810 | ROScalarColumn<Float> elev(tab, "ELEVATION");
|
---|
1811 | ArrayColumn<Float> specCol(tab, "SPECTRA");
|
---|
1812 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA");
|
---|
1813 | ArrayColumn<Float> tsysCol(tab, "TSYS");
|
---|
1814 | for ( uInt i=0; i<tab.nrow(); ++i) {
|
---|
1815 | Float zdist = Float(C::pi_2) - elev(i);
|
---|
1816 | Float factor = exp(tau/cos(zdist));
|
---|
1817 | MaskedArray<Float> ma = maskedArray(specCol(i), flagCol(i));
|
---|
1818 | ma *= factor;
|
---|
1819 | specCol.put(i, ma.getArray());
|
---|
1820 | flagCol.put(i, flagsFromMA(ma));
|
---|
1821 | Vector<Float> tsys;
|
---|
1822 | tsysCol.get(i, tsys);
|
---|
1823 | tsys *= factor;
|
---|
1824 | tsysCol.put(i, tsys);
|
---|
1825 | }
|
---|
1826 | return out;
|
---|
1827 | }
|
---|
1828 |
|
---|
1829 | CountedPtr< Scantable > STMath::smoothOther( const CountedPtr< Scantable >& in,
|
---|
1830 | const std::string& kernel,
|
---|
1831 | float width )
|
---|
1832 | {
|
---|
1833 | CountedPtr< Scantable > out = getScantable(in, false);
|
---|
1834 | Table& table = out->table();
|
---|
1835 | ArrayColumn<Float> specCol(table, "SPECTRA");
|
---|
1836 | ArrayColumn<uChar> flagCol(table, "FLAGTRA");
|
---|
1837 | Vector<Float> spec;
|
---|
1838 | Vector<uChar> flag;
|
---|
1839 | for ( uInt i=0; i<table.nrow(); ++i) {
|
---|
1840 | specCol.get(i, spec);
|
---|
1841 | flagCol.get(i, flag);
|
---|
1842 | Vector<Bool> mask(flag.nelements());
|
---|
1843 | convertArray(mask, flag);
|
---|
1844 | Vector<Float> specout;
|
---|
1845 | Vector<Bool> maskout;
|
---|
1846 | if ( kernel == "hanning" ) {
|
---|
1847 | mathutil::hanning(specout, maskout, spec , !mask);
|
---|
1848 | convertArray(flag, !maskout);
|
---|
1849 | } else if ( kernel == "rmedian" ) {
|
---|
1850 | mathutil::runningMedian(specout, maskout, spec , mask, width);
|
---|
1851 | convertArray(flag, maskout);
|
---|
1852 | }
|
---|
1853 | flagCol.put(i, flag);
|
---|
1854 | specCol.put(i, specout);
|
---|
1855 | }
|
---|
1856 | return out;
|
---|
1857 | }
|
---|
1858 |
|
---|
1859 | CountedPtr< Scantable > STMath::smooth( const CountedPtr< Scantable >& in,
|
---|
1860 | const std::string& kernel, float width )
|
---|
1861 | {
|
---|
1862 | if (kernel == "rmedian" || kernel == "hanning") {
|
---|
1863 | return smoothOther(in, kernel, width);
|
---|
1864 | }
|
---|
1865 | CountedPtr< Scantable > out = getScantable(in, false);
|
---|
1866 | Table& table = out->table();
|
---|
1867 | VectorKernel::KernelTypes type = VectorKernel::toKernelType(kernel);
|
---|
1868 | // same IFNO should have same no of channels
|
---|
1869 | // this saves overhead
|
---|
1870 | TableIterator iter(table, "IFNO");
|
---|
1871 | while (!iter.pastEnd()) {
|
---|
1872 | Table tab = iter.table();
|
---|
1873 | ArrayColumn<Float> specCol(tab, "SPECTRA");
|
---|
1874 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA");
|
---|
1875 | Vector<Float> tmpspec; specCol.get(0, tmpspec);
|
---|
1876 | uInt nchan = tmpspec.nelements();
|
---|
1877 | Vector<Float> kvec = VectorKernel::make(type, width, nchan, True, False);
|
---|
1878 | Convolver<Float> conv(kvec, IPosition(1,nchan));
|
---|
1879 | Vector<Float> spec;
|
---|
1880 | Vector<uChar> flag;
|
---|
1881 | for ( uInt i=0; i<tab.nrow(); ++i) {
|
---|
1882 | specCol.get(i, spec);
|
---|
1883 | flagCol.get(i, flag);
|
---|
1884 | Vector<Bool> mask(flag.nelements());
|
---|
1885 | convertArray(mask, flag);
|
---|
1886 | Vector<Float> specout;
|
---|
1887 | mathutil::replaceMaskByZero(specout, mask);
|
---|
1888 | conv.linearConv(specout, spec);
|
---|
1889 | specCol.put(i, specout);
|
---|
1890 | }
|
---|
1891 | ++iter;
|
---|
1892 | }
|
---|
1893 | return out;
|
---|
1894 | }
|
---|
1895 |
|
---|
1896 | CountedPtr< Scantable >
|
---|
1897 | STMath::merge( const std::vector< CountedPtr < Scantable > >& in )
|
---|
1898 | {
|
---|
1899 | if ( in.size() < 2 ) {
|
---|
1900 | throw(AipsError("Need at least two scantables to perform a merge."));
|
---|
1901 | }
|
---|
1902 | std::vector<CountedPtr < Scantable > >::const_iterator it = in.begin();
|
---|
1903 | bool insitu = insitu_;
|
---|
1904 | setInsitu(false);
|
---|
1905 | CountedPtr< Scantable > out = getScantable(*it, false);
|
---|
1906 | setInsitu(insitu);
|
---|
1907 | Table& tout = out->table();
|
---|
1908 | ScalarColumn<uInt> freqidcol(tout,"FREQ_ID"), molidcol(tout, "MOLECULE_ID");
|
---|
1909 | ScalarColumn<uInt> scannocol(tout,"SCANNO"), focusidcol(tout,"FOCUS_ID");
|
---|
1910 | // Renumber SCANNO to be 0-based
|
---|
1911 | Vector<uInt> scannos = scannocol.getColumn();
|
---|
1912 | uInt offset = min(scannos);
|
---|
1913 | scannos -= offset;
|
---|
1914 | scannocol.putColumn(scannos);
|
---|
1915 | uInt newscanno = max(scannos)+1;
|
---|
1916 | ++it;
|
---|
1917 | while ( it != in.end() ){
|
---|
1918 | if ( ! (*it)->conformant(*out) ) {
|
---|
1919 | // non conformant.
|
---|
1920 | pushLog(String("Warning: Can't merge scantables as header info differs."));
|
---|
1921 | }
|
---|
1922 | out->appendToHistoryTable((*it)->history());
|
---|
1923 | const Table& tab = (*it)->table();
|
---|
1924 | TableIterator scanit(tab, "SCANNO");
|
---|
1925 | while (!scanit.pastEnd()) {
|
---|
1926 | TableIterator freqit(scanit.table(), "FREQ_ID");
|
---|
1927 | while ( !freqit.pastEnd() ) {
|
---|
1928 | Table thetab = freqit.table();
|
---|
1929 | uInt nrow = tout.nrow();
|
---|
1930 | tout.addRow(thetab.nrow());
|
---|
1931 | TableCopy::copyRows(tout, thetab, nrow, 0, thetab.nrow());
|
---|
1932 | ROTableRow row(thetab);
|
---|
1933 | for ( uInt i=0; i<thetab.nrow(); ++i) {
|
---|
1934 | uInt k = nrow+i;
|
---|
1935 | scannocol.put(k, newscanno);
|
---|
1936 | const TableRecord& rec = row.get(i);
|
---|
1937 | Double rv,rp,inc;
|
---|
1938 | (*it)->frequencies().getEntry(rp, rv, inc, rec.asuInt("FREQ_ID"));
|
---|
1939 | uInt id;
|
---|
1940 | id = out->frequencies().addEntry(rp, rv, inc);
|
---|
1941 | freqidcol.put(k,id);
|
---|
1942 | //String name,fname;Double rf;
|
---|
1943 | Vector<String> name,fname;Vector<Double> rf;
|
---|
1944 | (*it)->molecules().getEntry(rf, name, fname, rec.asuInt("MOLECULE_ID"));
|
---|
1945 | id = out->molecules().addEntry(rf, name, fname);
|
---|
1946 | molidcol.put(k, id);
|
---|
1947 | Float frot,fax,ftan,fhand,fmount,fuser, fxy, fxyp;
|
---|
1948 | (*it)->focus().getEntry(fax, ftan, frot, fhand,
|
---|
1949 | fmount,fuser, fxy, fxyp,
|
---|
1950 | rec.asuInt("FOCUS_ID"));
|
---|
1951 | id = out->focus().addEntry(fax, ftan, frot, fhand,
|
---|
1952 | fmount,fuser, fxy, fxyp);
|
---|
1953 | focusidcol.put(k, id);
|
---|
1954 | }
|
---|
1955 | ++freqit;
|
---|
1956 | }
|
---|
1957 | ++newscanno;
|
---|
1958 | ++scanit;
|
---|
1959 | }
|
---|
1960 | ++it;
|
---|
1961 | }
|
---|
1962 | return out;
|
---|
1963 | }
|
---|
1964 |
|
---|
1965 | CountedPtr< Scantable >
|
---|
1966 | STMath::invertPhase( const CountedPtr < Scantable >& in )
|
---|
1967 | {
|
---|
1968 | return applyToPol(in, &STPol::invertPhase, Float(0.0));
|
---|
1969 | }
|
---|
1970 |
|
---|
1971 | CountedPtr< Scantable >
|
---|
1972 | STMath::rotateXYPhase( const CountedPtr < Scantable >& in, float phase )
|
---|
1973 | {
|
---|
1974 | return applyToPol(in, &STPol::rotatePhase, Float(phase));
|
---|
1975 | }
|
---|
1976 |
|
---|
1977 | CountedPtr< Scantable >
|
---|
1978 | STMath::rotateLinPolPhase( const CountedPtr < Scantable >& in, float phase )
|
---|
1979 | {
|
---|
1980 | return applyToPol(in, &STPol::rotateLinPolPhase, Float(phase));
|
---|
1981 | }
|
---|
1982 |
|
---|
1983 | CountedPtr< Scantable > STMath::applyToPol( const CountedPtr<Scantable>& in,
|
---|
1984 | STPol::polOperation fptr,
|
---|
1985 | Float phase )
|
---|
1986 | {
|
---|
1987 | CountedPtr< Scantable > out = getScantable(in, false);
|
---|
1988 | Table& tout = out->table();
|
---|
1989 | Block<String> cols(4);
|
---|
1990 | cols[0] = String("SCANNO");
|
---|
1991 | cols[1] = String("BEAMNO");
|
---|
1992 | cols[2] = String("IFNO");
|
---|
1993 | cols[3] = String("CYCLENO");
|
---|
1994 | TableIterator iter(tout, cols);
|
---|
1995 | CountedPtr<STPol> stpol = STPol::getPolClass(out->factories_,
|
---|
1996 | out->getPolType() );
|
---|
1997 | while (!iter.pastEnd()) {
|
---|
1998 | Table t = iter.table();
|
---|
1999 | ArrayColumn<Float> speccol(t, "SPECTRA");
|
---|
2000 | ScalarColumn<uInt> focidcol(t, "FOCUS_ID");
|
---|
2001 | ScalarColumn<Float> parancol(t, "PARANGLE");
|
---|
2002 | Matrix<Float> pols(speccol.getColumn());
|
---|
2003 | try {
|
---|
2004 | stpol->setSpectra(pols);
|
---|
2005 | Float fang,fhand,parang;
|
---|
2006 | fang = in->focusTable_.getTotalFeedAngle(focidcol(0));
|
---|
2007 | fhand = in->focusTable_.getFeedHand(focidcol(0));
|
---|
2008 | parang = parancol(0);
|
---|
2009 | /// @todo re-enable this
|
---|
2010 | // disable total feed angle to support paralactifying Caswell style
|
---|
2011 | stpol->setPhaseCorrections(parang, -parang, fhand);
|
---|
2012 | // use a member function pointer in STPol. This only works on
|
---|
2013 | // the STPol pointer itself, not the Counted Pointer so
|
---|
2014 | // derefernce it.
|
---|
2015 | (&(*(stpol))->*fptr)(phase);
|
---|
2016 | speccol.putColumn(stpol->getSpectra());
|
---|
2017 | } catch (AipsError& e) {
|
---|
2018 | //delete stpol;stpol=0;
|
---|
2019 | throw(e);
|
---|
2020 | }
|
---|
2021 | ++iter;
|
---|
2022 | }
|
---|
2023 | //delete stpol;stpol=0;
|
---|
2024 | return out;
|
---|
2025 | }
|
---|
2026 |
|
---|
2027 | CountedPtr< Scantable >
|
---|
2028 | STMath::swapPolarisations( const CountedPtr< Scantable > & in )
|
---|
2029 | {
|
---|
2030 | CountedPtr< Scantable > out = getScantable(in, false);
|
---|
2031 | Table& tout = out->table();
|
---|
2032 | Table t0 = tout(tout.col("POLNO") == 0);
|
---|
2033 | Table t1 = tout(tout.col("POLNO") == 1);
|
---|
2034 | if ( t0.nrow() != t1.nrow() )
|
---|
2035 | throw(AipsError("Inconsistent number of polarisations"));
|
---|
2036 | ArrayColumn<Float> speccol0(t0, "SPECTRA");
|
---|
2037 | ArrayColumn<uChar> flagcol0(t0, "FLAGTRA");
|
---|
2038 | ArrayColumn<Float> speccol1(t1, "SPECTRA");
|
---|
2039 | ArrayColumn<uChar> flagcol1(t1, "FLAGTRA");
|
---|
2040 | Matrix<Float> s0 = speccol0.getColumn();
|
---|
2041 | Matrix<uChar> f0 = flagcol0.getColumn();
|
---|
2042 | speccol0.putColumn(speccol1.getColumn());
|
---|
2043 | flagcol0.putColumn(flagcol1.getColumn());
|
---|
2044 | speccol1.putColumn(s0);
|
---|
2045 | flagcol1.putColumn(f0);
|
---|
2046 | return out;
|
---|
2047 | }
|
---|
2048 |
|
---|
2049 | CountedPtr< Scantable >
|
---|
2050 | STMath::averagePolarisations( const CountedPtr< Scantable > & in,
|
---|
2051 | const std::vector<bool>& mask,
|
---|
2052 | const std::string& weight )
|
---|
2053 | {
|
---|
2054 | if (in->npol() < 2 )
|
---|
2055 | throw(AipsError("averagePolarisations can only be applied to two or more"
|
---|
2056 | "polarisations"));
|
---|
2057 | bool insitu = insitu_;
|
---|
2058 | setInsitu(false);
|
---|
2059 | CountedPtr< Scantable > pols = getScantable(in, true);
|
---|
2060 | setInsitu(insitu);
|
---|
2061 | Table& tout = pols->table();
|
---|
2062 | std::string taql = "SELECT FROM $1 WHERE POLNO IN [0,1]";
|
---|
2063 | Table tab = tableCommand(taql, in->table());
|
---|
2064 | if (tab.nrow() == 0 )
|
---|
2065 | throw(AipsError("Could not find any rows with POLNO==0 and POLNO==1"));
|
---|
2066 | TableCopy::copyRows(tout, tab);
|
---|
2067 | TableVector<uInt> vec(tout, "POLNO");
|
---|
2068 | vec = 0;
|
---|
2069 | pols->table_.rwKeywordSet().define("nPol", Int(1));
|
---|
2070 | //pols->table_.rwKeywordSet().define("POLTYPE", String("stokes"));
|
---|
2071 | pols->table_.rwKeywordSet().define("POLTYPE", in->getPolType());
|
---|
2072 | std::vector<CountedPtr<Scantable> > vpols;
|
---|
2073 | vpols.push_back(pols);
|
---|
2074 | CountedPtr< Scantable > out = average(vpols, mask, weight, "SCAN");
|
---|
2075 | return out;
|
---|
2076 | }
|
---|
2077 |
|
---|
2078 | CountedPtr< Scantable >
|
---|
2079 | STMath::averageBeams( const CountedPtr< Scantable > & in,
|
---|
2080 | const std::vector<bool>& mask,
|
---|
2081 | const std::string& weight )
|
---|
2082 | {
|
---|
2083 | bool insitu = insitu_;
|
---|
2084 | setInsitu(false);
|
---|
2085 | CountedPtr< Scantable > beams = getScantable(in, false);
|
---|
2086 | setInsitu(insitu);
|
---|
2087 | Table& tout = beams->table();
|
---|
2088 | // give all rows the same BEAMNO
|
---|
2089 | TableVector<uInt> vec(tout, "BEAMNO");
|
---|
2090 | vec = 0;
|
---|
2091 | beams->table_.rwKeywordSet().define("nBeam", Int(1));
|
---|
2092 | std::vector<CountedPtr<Scantable> > vbeams;
|
---|
2093 | vbeams.push_back(beams);
|
---|
2094 | CountedPtr< Scantable > out = average(vbeams, mask, weight, "SCAN");
|
---|
2095 | return out;
|
---|
2096 | }
|
---|
2097 |
|
---|
2098 |
|
---|
2099 | CountedPtr< Scantable >
|
---|
2100 | asap::STMath::frequencyAlign( const CountedPtr< Scantable > & in,
|
---|
2101 | const std::string & refTime,
|
---|
2102 | const std::string & method)
|
---|
2103 | {
|
---|
2104 | // clone as this is not working insitu
|
---|
2105 | bool insitu = insitu_;
|
---|
2106 | setInsitu(false);
|
---|
2107 | CountedPtr< Scantable > out = getScantable(in, false);
|
---|
2108 | setInsitu(insitu);
|
---|
2109 | Table& tout = out->table();
|
---|
2110 | // Get reference Epoch to time of first row or given String
|
---|
2111 | Unit DAY(String("d"));
|
---|
2112 | MEpoch::Ref epochRef(in->getTimeReference());
|
---|
2113 | MEpoch refEpoch;
|
---|
2114 | if (refTime.length()>0) {
|
---|
2115 | Quantum<Double> qt;
|
---|
2116 | if (MVTime::read(qt,refTime)) {
|
---|
2117 | MVEpoch mv(qt);
|
---|
2118 | refEpoch = MEpoch(mv, epochRef);
|
---|
2119 | } else {
|
---|
2120 | throw(AipsError("Invalid format for Epoch string"));
|
---|
2121 | }
|
---|
2122 | } else {
|
---|
2123 | refEpoch = in->timeCol_(0);
|
---|
2124 | }
|
---|
2125 | MPosition refPos = in->getAntennaPosition();
|
---|
2126 |
|
---|
2127 | InterpolateArray1D<Double,Float>::InterpolationMethod interp = stringToIMethod(method);
|
---|
2128 | /*
|
---|
2129 | // Comment from MV.
|
---|
2130 | // the following code has been commented out because different FREQ_IDs have to be aligned together even
|
---|
2131 | // if the frame doesn't change. So far, lack of this check didn't cause any problems.
|
---|
2132 | // test if user frame is different to base frame
|
---|
2133 | if ( in->frequencies().getFrameString(true)
|
---|
2134 | == in->frequencies().getFrameString(false) ) {
|
---|
2135 | throw(AipsError("Can't convert as no output frame has been set"
|
---|
2136 | " (use set_freqframe) or it is aligned already."));
|
---|
2137 | }
|
---|
2138 | */
|
---|
2139 | MFrequency::Types system = in->frequencies().getFrame();
|
---|
2140 | MVTime mvt(refEpoch.getValue());
|
---|
2141 | String epochout = mvt.string(MVTime::YMD) + String(" (") + refEpoch.getRefString() + String(")");
|
---|
2142 | ostringstream oss;
|
---|
2143 | oss << "Aligned at reference Epoch " << epochout
|
---|
2144 | << " in frame " << MFrequency::showType(system);
|
---|
2145 | pushLog(String(oss));
|
---|
2146 | // set up the iterator
|
---|
2147 | Block<String> cols(4);
|
---|
2148 | // select by constant direction
|
---|
2149 | cols[0] = String("SRCNAME");
|
---|
2150 | cols[1] = String("BEAMNO");
|
---|
2151 | // select by IF ( no of channels varies over this )
|
---|
2152 | cols[2] = String("IFNO");
|
---|
2153 | // select by restfrequency
|
---|
2154 | cols[3] = String("MOLECULE_ID");
|
---|
2155 | TableIterator iter(tout, cols);
|
---|
2156 | while ( !iter.pastEnd() ) {
|
---|
2157 | Table t = iter.table();
|
---|
2158 | MDirection::ROScalarColumn dirCol(t, "DIRECTION");
|
---|
2159 | TableIterator fiter(t, "FREQ_ID");
|
---|
2160 | // determine nchan from the first row. This should work as
|
---|
2161 | // we are iterating over BEAMNO and IFNO // we should have constant direction
|
---|
2162 |
|
---|
2163 | ROArrayColumn<Float> sCol(t, "SPECTRA");
|
---|
2164 | const MDirection direction = dirCol(0);
|
---|
2165 | const uInt nchan = sCol(0).nelements();
|
---|
2166 |
|
---|
2167 | // skip operations if there is nothing to align
|
---|
2168 | if (fiter.pastEnd()) {
|
---|
2169 | continue;
|
---|
2170 | }
|
---|
2171 |
|
---|
2172 | Table ftab = fiter.table();
|
---|
2173 | // align all frequency ids with respect to the first encountered id
|
---|
2174 | ScalarColumn<uInt> freqidCol(ftab, "FREQ_ID");
|
---|
2175 | // get the SpectralCoordinate for the freqid, which we are iterating over
|
---|
2176 | SpectralCoordinate sC = in->frequencies().getSpectralCoordinate(freqidCol(0));
|
---|
2177 | FrequencyAligner<Float> fa( sC, nchan, refEpoch,
|
---|
2178 | direction, refPos, system );
|
---|
2179 | // realign the SpectralCoordinate and put into the output Scantable
|
---|
2180 | Vector<String> units(1);
|
---|
2181 | units = String("Hz");
|
---|
2182 | Bool linear=True;
|
---|
2183 | SpectralCoordinate sc2 = fa.alignedSpectralCoordinate(linear);
|
---|
2184 | sc2.setWorldAxisUnits(units);
|
---|
2185 | const uInt id = out->frequencies().addEntry(sc2.referencePixel()[0],
|
---|
2186 | sc2.referenceValue()[0],
|
---|
2187 | sc2.increment()[0]);
|
---|
2188 | while ( !fiter.pastEnd() ) {
|
---|
2189 | ftab = fiter.table();
|
---|
2190 | // spectral coordinate for the current FREQ_ID
|
---|
2191 | ScalarColumn<uInt> freqidCol2(ftab, "FREQ_ID");
|
---|
2192 | sC = in->frequencies().getSpectralCoordinate(freqidCol2(0));
|
---|
2193 | // create the "global" abcissa for alignment with same FREQ_ID
|
---|
2194 | Vector<Double> abc(nchan);
|
---|
2195 | for (uInt i=0; i<nchan; i++) {
|
---|
2196 | Double w;
|
---|
2197 | sC.toWorld(w,Double(i));
|
---|
2198 | abc[i] = w;
|
---|
2199 | }
|
---|
2200 | TableVector<uInt> tvec(ftab, "FREQ_ID");
|
---|
2201 | // assign new frequency id to all rows
|
---|
2202 | tvec = id;
|
---|
2203 | // cache abcissa for same time stamps, so iterate over those
|
---|
2204 | TableIterator timeiter(ftab, "TIME");
|
---|
2205 | while ( !timeiter.pastEnd() ) {
|
---|
2206 | Table tab = timeiter.table();
|
---|
2207 | ArrayColumn<Float> specCol(tab, "SPECTRA");
|
---|
2208 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA");
|
---|
2209 | MEpoch::ROScalarColumn timeCol(tab, "TIME");
|
---|
2210 | // use align abcissa cache after the first row
|
---|
2211 | // these rows should be just be POLNO
|
---|
2212 | bool first = true;
|
---|
2213 | for (int i=0; i<int(tab.nrow()); ++i) {
|
---|
2214 | // input values
|
---|
2215 | Vector<uChar> flag = flagCol(i);
|
---|
2216 | Vector<Bool> mask(flag.shape());
|
---|
2217 | Vector<Float> specOut, spec;
|
---|
2218 | spec = specCol(i);
|
---|
2219 | Vector<Bool> maskOut;Vector<uChar> flagOut;
|
---|
2220 | convertArray(mask, flag);
|
---|
2221 | // alignment
|
---|
2222 | Bool ok = fa.align(specOut, maskOut, abc, spec,
|
---|
2223 | mask, timeCol(i), !first,
|
---|
2224 | interp, False);
|
---|
2225 | // back into scantable
|
---|
2226 | flagOut.resize(maskOut.nelements());
|
---|
2227 | convertArray(flagOut, maskOut);
|
---|
2228 | flagCol.put(i, flagOut);
|
---|
2229 | specCol.put(i, specOut);
|
---|
2230 | // start abcissa caching
|
---|
2231 | first = false;
|
---|
2232 | }
|
---|
2233 | // next timestamp
|
---|
2234 | ++timeiter;
|
---|
2235 | }
|
---|
2236 | // next FREQ_ID
|
---|
2237 | ++fiter;
|
---|
2238 | }
|
---|
2239 | // next aligner
|
---|
2240 | ++iter;
|
---|
2241 | }
|
---|
2242 | // set this afterwards to ensure we are doing insitu correctly.
|
---|
2243 | out->frequencies().setFrame(system, true);
|
---|
2244 | return out;
|
---|
2245 | }
|
---|
2246 |
|
---|
2247 | CountedPtr<Scantable>
|
---|
2248 | asap::STMath::convertPolarisation( const CountedPtr<Scantable>& in,
|
---|
2249 | const std::string & newtype )
|
---|
2250 | {
|
---|
2251 | if (in->npol() != 2 && in->npol() != 4)
|
---|
2252 | throw(AipsError("Can only convert two or four polarisations."));
|
---|
2253 | if ( in->getPolType() == newtype )
|
---|
2254 | throw(AipsError("No need to convert."));
|
---|
2255 | if ( ! in->selector_.empty() )
|
---|
2256 | throw(AipsError("Can only convert whole scantable. Unset the selection."));
|
---|
2257 | bool insitu = insitu_;
|
---|
2258 | setInsitu(false);
|
---|
2259 | CountedPtr< Scantable > out = getScantable(in, true);
|
---|
2260 | setInsitu(insitu);
|
---|
2261 | Table& tout = out->table();
|
---|
2262 | tout.rwKeywordSet().define("POLTYPE", String(newtype));
|
---|
2263 |
|
---|
2264 | Block<String> cols(4);
|
---|
2265 | cols[0] = "SCANNO";
|
---|
2266 | cols[1] = "CYCLENO";
|
---|
2267 | cols[2] = "BEAMNO";
|
---|
2268 | cols[3] = "IFNO";
|
---|
2269 | TableIterator it(in->originalTable_, cols);
|
---|
2270 | String basetype = in->getPolType();
|
---|
2271 | STPol* stpol = STPol::getPolClass(in->factories_, basetype);
|
---|
2272 | try {
|
---|
2273 | while ( !it.pastEnd() ) {
|
---|
2274 | Table tab = it.table();
|
---|
2275 | uInt row = tab.rowNumbers()[0];
|
---|
2276 | stpol->setSpectra(in->getPolMatrix(row));
|
---|
2277 | Float fang,fhand,parang;
|
---|
2278 | fang = in->focusTable_.getTotalFeedAngle(in->mfocusidCol_(row));
|
---|
2279 | fhand = in->focusTable_.getFeedHand(in->mfocusidCol_(row));
|
---|
2280 | parang = in->paraCol_(row);
|
---|
2281 | /// @todo re-enable this
|
---|
2282 | // disable total feed angle to support paralactifying Caswell style
|
---|
2283 | stpol->setPhaseCorrections(parang, -parang, fhand);
|
---|
2284 | Int npolout = 0;
|
---|
2285 | for (uInt i=0; i<tab.nrow(); ++i) {
|
---|
2286 | Vector<Float> outvec = stpol->getSpectrum(i, newtype);
|
---|
2287 | if ( outvec.nelements() > 0 ) {
|
---|
2288 | tout.addRow();
|
---|
2289 | TableCopy::copyRows(tout, tab, tout.nrow()-1, 0, 1);
|
---|
2290 | ArrayColumn<Float> sCol(tout,"SPECTRA");
|
---|
2291 | ScalarColumn<uInt> pCol(tout,"POLNO");
|
---|
2292 | sCol.put(tout.nrow()-1 ,outvec);
|
---|
2293 | pCol.put(tout.nrow()-1 ,uInt(npolout));
|
---|
2294 | npolout++;
|
---|
2295 | }
|
---|
2296 | }
|
---|
2297 | tout.rwKeywordSet().define("nPol", npolout);
|
---|
2298 | ++it;
|
---|
2299 | }
|
---|
2300 | } catch (AipsError& e) {
|
---|
2301 | delete stpol;
|
---|
2302 | throw(e);
|
---|
2303 | }
|
---|
2304 | delete stpol;
|
---|
2305 | return out;
|
---|
2306 | }
|
---|
2307 |
|
---|
2308 | CountedPtr< Scantable >
|
---|
2309 | asap::STMath::mxExtract( const CountedPtr< Scantable > & in,
|
---|
2310 | const std::string & scantype )
|
---|
2311 | {
|
---|
2312 | bool insitu = insitu_;
|
---|
2313 | setInsitu(false);
|
---|
2314 | CountedPtr< Scantable > out = getScantable(in, true);
|
---|
2315 | setInsitu(insitu);
|
---|
2316 | Table& tout = out->table();
|
---|
2317 | std::string taql = "SELECT FROM $1 WHERE BEAMNO != REFBEAMNO";
|
---|
2318 | if (scantype == "on") {
|
---|
2319 | taql = "SELECT FROM $1 WHERE BEAMNO == REFBEAMNO";
|
---|
2320 | }
|
---|
2321 | Table tab = tableCommand(taql, in->table());
|
---|
2322 | TableCopy::copyRows(tout, tab);
|
---|
2323 | if (scantype == "on") {
|
---|
2324 | // re-index SCANNO to 0
|
---|
2325 | TableVector<uInt> vec(tout, "SCANNO");
|
---|
2326 | vec = 0;
|
---|
2327 | }
|
---|
2328 | return out;
|
---|
2329 | }
|
---|
2330 |
|
---|
2331 | CountedPtr< Scantable >
|
---|
2332 | asap::STMath::lagFlag( const CountedPtr< Scantable > & in,
|
---|
2333 | double frequency, double width )
|
---|
2334 | {
|
---|
2335 | CountedPtr< Scantable > out = getScantable(in, false);
|
---|
2336 | Table& tout = out->table();
|
---|
2337 | TableIterator iter(tout, "FREQ_ID");
|
---|
2338 | FFTServer<Float,Complex> ffts;
|
---|
2339 | while ( !iter.pastEnd() ) {
|
---|
2340 | Table tab = iter.table();
|
---|
2341 | Double rp,rv,inc;
|
---|
2342 | ROTableRow row(tab);
|
---|
2343 | const TableRecord& rec = row.get(0);
|
---|
2344 | uInt freqid = rec.asuInt("FREQ_ID");
|
---|
2345 | out->frequencies().getEntry(rp, rv, inc, freqid);
|
---|
2346 | ArrayColumn<Float> specCol(tab, "SPECTRA");
|
---|
2347 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA");
|
---|
2348 | for (int i=0; i<int(tab.nrow()); ++i) {
|
---|
2349 | Vector<Float> spec = specCol(i);
|
---|
2350 | Vector<uChar> flag = flagCol(i);
|
---|
2351 | Int lag0 = Int(spec.nelements()*abs(inc)/(frequency+width)+0.5);
|
---|
2352 | Int lag1 = Int(spec.nelements()*abs(inc)/(frequency-width)+0.5);
|
---|
2353 | for (int k=0; k < flag.nelements(); ++k ) {
|
---|
2354 | if (flag[k] > 0) {
|
---|
2355 | spec[k] = 0.0;
|
---|
2356 | }
|
---|
2357 | }
|
---|
2358 | Vector<Complex> lags;
|
---|
2359 | ffts.fft0(lags, spec);
|
---|
2360 | Int start = max(0, lag0);
|
---|
2361 | Int end = min(Int(lags.nelements()-1), lag1);
|
---|
2362 | if (start == end) {
|
---|
2363 | lags[start] = Complex(0.0);
|
---|
2364 | } else {
|
---|
2365 | for (int j=start; j <=end ;++j) {
|
---|
2366 | lags[j] = Complex(0.0);
|
---|
2367 | }
|
---|
2368 | }
|
---|
2369 | ffts.fft0(spec, lags);
|
---|
2370 | specCol.put(i, spec);
|
---|
2371 | }
|
---|
2372 | ++iter;
|
---|
2373 | }
|
---|
2374 | return out;
|
---|
2375 | }
|
---|
2376 |
|
---|
2377 | // Averaging spectra with different channel/resolution
|
---|
2378 | CountedPtr<Scantable>
|
---|
2379 | STMath::new_average( const std::vector<CountedPtr<Scantable> >& in,
|
---|
2380 | const bool& compel,
|
---|
2381 | const std::vector<bool>& mask,
|
---|
2382 | const std::string& weight,
|
---|
2383 | const std::string& avmode )
|
---|
2384 | throw ( casa::AipsError )
|
---|
2385 | {
|
---|
2386 | if ( avmode == "SCAN" && in.size() != 1 )
|
---|
2387 | throw(AipsError("Can't perform 'SCAN' averaging on multiple tables.\n"
|
---|
2388 | "Use merge first."));
|
---|
2389 |
|
---|
2390 | // check if OTF observation
|
---|
2391 | String obstype = in[0]->getHeader().obstype ;
|
---|
2392 | //bool otfscan = false ;
|
---|
2393 | Double tol = 0.0 ;
|
---|
2394 | if ( obstype.find( "OTF" ) != String::npos ) {
|
---|
2395 | //cout << "OTF scan" << endl ;
|
---|
2396 | //otfscan = true ;
|
---|
2397 | tol = TOL_OTF ;
|
---|
2398 | }
|
---|
2399 | else {
|
---|
2400 | tol = TOL_POINT ;
|
---|
2401 | }
|
---|
2402 |
|
---|
2403 | CountedPtr<Scantable> out ; // processed result
|
---|
2404 | if ( compel ) {
|
---|
2405 | std::vector< CountedPtr<Scantable> > newin ; // input for average process
|
---|
2406 | uInt insize = in.size() ; // number of input scantables
|
---|
2407 |
|
---|
2408 | // TEST: do normal average in each table before IF grouping
|
---|
2409 | cout << "Do preliminary averaging" << endl ;
|
---|
2410 | vector< CountedPtr<Scantable> > tmpin( insize ) ;
|
---|
2411 | for ( uInt itable = 0 ; itable < insize ; itable++ ) {
|
---|
2412 | vector< CountedPtr<Scantable> > v( 1, in[itable] ) ;
|
---|
2413 | tmpin[itable] = average( v, mask, weight, avmode ) ;
|
---|
2414 | }
|
---|
2415 |
|
---|
2416 | // warning
|
---|
2417 | cout << "Average spectra with different spectral resolution" << endl ;
|
---|
2418 | cout << endl ;
|
---|
2419 |
|
---|
2420 | // temporarily set coordinfo
|
---|
2421 | vector<string> oldinfo( insize ) ;
|
---|
2422 | for ( uInt itable = 0 ; itable < insize ; itable++ ) {
|
---|
2423 | vector<string> coordinfo = in[itable]->getCoordInfo() ;
|
---|
2424 | oldinfo[itable] = coordinfo[0] ;
|
---|
2425 | coordinfo[0] = "Hz" ;
|
---|
2426 | tmpin[itable]->setCoordInfo( coordinfo ) ;
|
---|
2427 | }
|
---|
2428 |
|
---|
2429 | // columns
|
---|
2430 | ScalarColumn<uInt> freqIDCol ;
|
---|
2431 | ScalarColumn<uInt> ifnoCol ;
|
---|
2432 | ScalarColumn<uInt> scannoCol ;
|
---|
2433 |
|
---|
2434 |
|
---|
2435 | // check IF frequency coverage
|
---|
2436 | // freqid: list of FREQ_ID, which is used, in each table
|
---|
2437 | // iffreq: list of minimum and maximum frequency for each FREQ_ID in
|
---|
2438 | // each table
|
---|
2439 | // freqid[insize][numIF]
|
---|
2440 | // freqid: [[id00, id01, ...],
|
---|
2441 | // [id10, id11, ...],
|
---|
2442 | // ...
|
---|
2443 | // [idn0, idn1, ...]]
|
---|
2444 | // iffreq[insize][numIF*2]
|
---|
2445 | // iffreq: [[min_id00, max_id00, min_id01, max_id01, ...],
|
---|
2446 | // [min_id10, max_id10, min_id11, max_id11, ...],
|
---|
2447 | // ...
|
---|
2448 | // [min_idn0, max_idn0, min_idn1, max_idn1, ...]]
|
---|
2449 | //cout << "Check IF settings in each table" << endl ;
|
---|
2450 | vector< vector<uInt> > freqid( insize );
|
---|
2451 | vector< vector<double> > iffreq( insize ) ;
|
---|
2452 | for ( uInt itable = 0 ; itable < insize ; itable++ ) {
|
---|
2453 | uInt rows = tmpin[itable]->nrow() ;
|
---|
2454 | uInt freqnrows = tmpin[itable]->frequencies().table().nrow() ;
|
---|
2455 | for ( uInt irow = 0 ; irow < rows ; irow++ ) {
|
---|
2456 | if ( freqid[itable].size() == freqnrows ) {
|
---|
2457 | break ;
|
---|
2458 | }
|
---|
2459 | else {
|
---|
2460 | freqIDCol.attach( tmpin[itable]->table(), "FREQ_ID" ) ;
|
---|
2461 | ifnoCol.attach( tmpin[itable]->table(), "IFNO" ) ;
|
---|
2462 | uInt id = freqIDCol( irow ) ;
|
---|
2463 | if ( freqid[itable].size() == 0 || count( freqid[itable].begin(), freqid[itable].end(), id ) == 0 ) {
|
---|
2464 | //cout << "itable = " << itable << ": IF " << id << " is included in the list" << endl ;
|
---|
2465 | vector<double> abcissa = tmpin[itable]->getAbcissa( irow ) ;
|
---|
2466 | freqid[itable].push_back( id ) ;
|
---|
2467 | iffreq[itable].push_back( abcissa[0] - 0.5 * ( abcissa[1] - abcissa[0] ) ) ;
|
---|
2468 | iffreq[itable].push_back( abcissa[abcissa.size()-1] + 0.5 * ( abcissa[1] - abcissa[0] ) ) ;
|
---|
2469 | }
|
---|
2470 | }
|
---|
2471 | }
|
---|
2472 | }
|
---|
2473 |
|
---|
2474 | // debug
|
---|
2475 | //cout << "IF settings summary:" << endl ;
|
---|
2476 | //for ( uInt i = 0 ; i < freqid.size() ; i++ ) {
|
---|
2477 | //cout << " Table" << i << endl ;
|
---|
2478 | //for ( uInt j = 0 ; j < freqid[i].size() ; j++ ) {
|
---|
2479 | //cout << " id = " << freqid[i][j] << " (min,max) = (" << iffreq[i][2*j] << "," << iffreq[i][2*j+1] << ")" << endl ;
|
---|
2480 | //}
|
---|
2481 | //}
|
---|
2482 | //cout << endl ;
|
---|
2483 |
|
---|
2484 | // IF grouping based on their frequency coverage
|
---|
2485 | // ifgrp: list of table index and FREQ_ID for all members in each IF group
|
---|
2486 | // ifgfreq: list of minimum and maximum frequency in each IF group
|
---|
2487 | // ifgrp[numgrp][nummember*2]
|
---|
2488 | // ifgrp: [[table00, freqrow00, table01, freqrow01, ...],
|
---|
2489 | // [table10, freqrow10, table11, freqrow11, ...],
|
---|
2490 | // ...
|
---|
2491 | // [tablen0, freqrown0, tablen1, freqrown1, ...]]
|
---|
2492 | // ifgfreq[numgrp*2]
|
---|
2493 | // ifgfreq: [min0_grp0, max0_grp0, min1_grp1, max1_grp1, ...]
|
---|
2494 | //cout << "IF grouping based on their frequency coverage" << endl ;
|
---|
2495 | vector< vector<uInt> > ifgrp ;
|
---|
2496 | vector<double> ifgfreq ;
|
---|
2497 |
|
---|
2498 | // parameter for IF grouping
|
---|
2499 | // groupmode = OR retrieve all region
|
---|
2500 | // AND only retrieve overlaped region
|
---|
2501 | //string groupmode = "AND" ;
|
---|
2502 | string groupmode = "OR" ;
|
---|
2503 | uInt sizecr = 0 ;
|
---|
2504 | if ( groupmode == "AND" )
|
---|
2505 | sizecr = 2 ;
|
---|
2506 | else if ( groupmode == "OR" )
|
---|
2507 | sizecr = 0 ;
|
---|
2508 |
|
---|
2509 | vector<double> sortedfreq ;
|
---|
2510 | for ( uInt i = 0 ; i < iffreq.size() ; i++ ) {
|
---|
2511 | for ( uInt j = 0 ; j < iffreq[i].size() ; j++ ) {
|
---|
2512 | if ( count( sortedfreq.begin(), sortedfreq.end(), iffreq[i][j] ) == 0 )
|
---|
2513 | sortedfreq.push_back( iffreq[i][j] ) ;
|
---|
2514 | }
|
---|
2515 | }
|
---|
2516 | sort( sortedfreq.begin(), sortedfreq.end() ) ;
|
---|
2517 | for ( vector<double>::iterator i = sortedfreq.begin() ; i != sortedfreq.end()-1 ; i++ ) {
|
---|
2518 | ifgfreq.push_back( *i ) ;
|
---|
2519 | ifgfreq.push_back( *(i+1) ) ;
|
---|
2520 | }
|
---|
2521 | ifgrp.resize( ifgfreq.size()/2 ) ;
|
---|
2522 | for ( uInt itable = 0 ; itable < insize ; itable++ ) {
|
---|
2523 | for ( uInt iif = 0 ; iif < freqid[itable].size() ; iif++ ) {
|
---|
2524 | double range0 = iffreq[itable][2*iif] ;
|
---|
2525 | double range1 = iffreq[itable][2*iif+1] ;
|
---|
2526 | for ( uInt j = 0 ; j < ifgrp.size() ; j++ ) {
|
---|
2527 | double fmin = max( range0, ifgfreq[2*j] ) ;
|
---|
2528 | double fmax = min( range1, ifgfreq[2*j+1] ) ;
|
---|
2529 | if ( fmin < fmax ) {
|
---|
2530 | ifgrp[j].push_back( itable ) ;
|
---|
2531 | ifgrp[j].push_back( freqid[itable][iif] ) ;
|
---|
2532 | }
|
---|
2533 | }
|
---|
2534 | }
|
---|
2535 | }
|
---|
2536 | vector< vector<uInt> >::iterator fiter = ifgrp.begin() ;
|
---|
2537 | vector<double>::iterator giter = ifgfreq.begin() ;
|
---|
2538 | while( fiter != ifgrp.end() ) {
|
---|
2539 | if ( fiter->size() <= sizecr ) {
|
---|
2540 | fiter = ifgrp.erase( fiter ) ;
|
---|
2541 | giter = ifgfreq.erase( giter ) ;
|
---|
2542 | giter = ifgfreq.erase( giter ) ;
|
---|
2543 | }
|
---|
2544 | else {
|
---|
2545 | fiter++ ;
|
---|
2546 | advance( giter, 2 ) ;
|
---|
2547 | }
|
---|
2548 | }
|
---|
2549 |
|
---|
2550 | // Grouping continuous IF groups (without frequency gap)
|
---|
2551 | // freqgrp: list of IF group indexes in each frequency group
|
---|
2552 | // freqrange: list of minimum and maximum frequency in each frequency group
|
---|
2553 | // freqgrp[numgrp][nummember]
|
---|
2554 | // freqgrp: [[ifgrp00, ifgrp01, ifgrp02, ...],
|
---|
2555 | // [ifgrp10, ifgrp11, ifgrp12, ...],
|
---|
2556 | // ...
|
---|
2557 | // [ifgrpn0, ifgrpn1, ifgrpn2, ...]]
|
---|
2558 | // freqrange[numgrp*2]
|
---|
2559 | // freqrange: [min_grp0, max_grp0, min_grp1, max_grp1, ...]
|
---|
2560 | vector< vector<uInt> > freqgrp ;
|
---|
2561 | double freqrange = 0.0 ;
|
---|
2562 | uInt grpnum = 0 ;
|
---|
2563 | for ( uInt i = 0 ; i < ifgrp.size() ; i++ ) {
|
---|
2564 | // Assumed that ifgfreq was sorted
|
---|
2565 | if ( grpnum != 0 && freqrange == ifgfreq[2*i] ) {
|
---|
2566 | freqgrp[grpnum-1].push_back( i ) ;
|
---|
2567 | }
|
---|
2568 | else {
|
---|
2569 | vector<uInt> grp0( 1, i ) ;
|
---|
2570 | freqgrp.push_back( grp0 ) ;
|
---|
2571 | grpnum++ ;
|
---|
2572 | }
|
---|
2573 | freqrange = ifgfreq[2*i+1] ;
|
---|
2574 | }
|
---|
2575 |
|
---|
2576 |
|
---|
2577 | // print IF groups
|
---|
2578 | cout << "IF Group summary: " << endl ;
|
---|
2579 | cout << " GROUP_ID [FREQ_MIN, FREQ_MAX]: (TABLE_ID, FREQ_ID)" << endl ;
|
---|
2580 | for ( uInt i = 0 ; i < ifgrp.size() ; i++ ) {
|
---|
2581 | cout << " GROUP " << setw( 2 ) << i << " [" << ifgfreq[2*i] << "," << ifgfreq[2*i+1] << "]: " ;
|
---|
2582 | for ( uInt j = 0 ; j < ifgrp[i].size()/2 ; j++ ) {
|
---|
2583 | cout << "(" << ifgrp[i][2*j] << "," << ifgrp[i][2*j+1] << ") " ;
|
---|
2584 | }
|
---|
2585 | cout << endl ;
|
---|
2586 | }
|
---|
2587 | cout << endl ;
|
---|
2588 |
|
---|
2589 | // print frequency group
|
---|
2590 | cout << "Frequency Group summary: " << endl ;
|
---|
2591 | cout << " GROUP_ID [FREQ_MIN, FREQ_MAX]: IF_GROUP_ID" << endl ;
|
---|
2592 | for ( uInt i = 0 ; i < freqgrp.size() ; i++ ) {
|
---|
2593 | cout << " GROUP " << setw( 2 ) << i << " [" << ifgfreq[2*freqgrp[i][0]] << "," << ifgfreq[2*freqgrp[i][freqgrp[i].size()-1]+1] << "]: " ;
|
---|
2594 | for ( uInt j = 0 ; j < freqgrp[i].size() ; j++ ) {
|
---|
2595 | cout << freqgrp[i][j] << " " ;
|
---|
2596 | }
|
---|
2597 | cout << endl ;
|
---|
2598 | }
|
---|
2599 | cout << endl ;
|
---|
2600 |
|
---|
2601 | // membership check
|
---|
2602 | // groups: list of IF group indexes whose frequency range overlaps with
|
---|
2603 | // that of each table and IF
|
---|
2604 | // groups[numtable][numIF][nummembership]
|
---|
2605 | // groups: [[[grp, grp,...], [grp, grp,...],...],
|
---|
2606 | // [[grp, grp,...], [grp, grp,...],...],
|
---|
2607 | // ...
|
---|
2608 | // [[grp, grp,...], [grp, grp,...],...]]
|
---|
2609 | vector< vector< vector<uInt> > > groups( insize ) ;
|
---|
2610 | for ( uInt i = 0 ; i < insize ; i++ ) {
|
---|
2611 | groups[i].resize( freqid[i].size() ) ;
|
---|
2612 | }
|
---|
2613 | for ( uInt igrp = 0 ; igrp < ifgrp.size() ; igrp++ ) {
|
---|
2614 | for ( uInt imem = 0 ; imem < ifgrp[igrp].size()/2 ; imem++ ) {
|
---|
2615 | uInt tableid = ifgrp[igrp][2*imem] ;
|
---|
2616 | vector<uInt>::iterator iter = find( freqid[tableid].begin(), freqid[tableid].end(), ifgrp[igrp][2*imem+1] ) ;
|
---|
2617 | if ( iter != freqid[tableid].end() ) {
|
---|
2618 | uInt rowid = distance( freqid[tableid].begin(), iter ) ;
|
---|
2619 | groups[tableid][rowid].push_back( igrp ) ;
|
---|
2620 | }
|
---|
2621 | }
|
---|
2622 | }
|
---|
2623 |
|
---|
2624 | // print membership
|
---|
2625 | //for ( uInt i = 0 ; i < insize ; i++ ) {
|
---|
2626 | //cout << "Table " << i << endl ;
|
---|
2627 | //for ( uInt j = 0 ; j < groups[i].size() ; j++ ) {
|
---|
2628 | //cout << " FREQ_ID " << setw( 2 ) << freqid[i][j] << ": " ;
|
---|
2629 | //for ( uInt k = 0 ; k < groups[i][j].size() ; k++ ) {
|
---|
2630 | //cout << setw( 2 ) << groups[i][j][k] << " " ;
|
---|
2631 | //}
|
---|
2632 | //cout << endl ;
|
---|
2633 | //}
|
---|
2634 | //}
|
---|
2635 |
|
---|
2636 | // set back coordinfo
|
---|
2637 | for ( uInt itable = 0 ; itable < insize ; itable++ ) {
|
---|
2638 | vector<string> coordinfo = tmpin[itable]->getCoordInfo() ;
|
---|
2639 | coordinfo[0] = oldinfo[itable] ;
|
---|
2640 | tmpin[itable]->setCoordInfo( coordinfo ) ;
|
---|
2641 | }
|
---|
2642 |
|
---|
2643 | // Create additional table if needed
|
---|
2644 | bool oldInsitu = insitu_ ;
|
---|
2645 | setInsitu( false ) ;
|
---|
2646 | vector< vector<uInt> > addrow( insize ) ;
|
---|
2647 | vector<uInt> addtable( insize, 0 ) ;
|
---|
2648 | vector<uInt> newtableids( insize ) ;
|
---|
2649 | vector<uInt> newifids( insize, 0 ) ;
|
---|
2650 | for ( uInt itable = 0 ; itable < insize ; itable++ ) {
|
---|
2651 | //cout << "Table " << setw(2) << itable << ": " ;
|
---|
2652 | for ( uInt ifrow = 0 ; ifrow < groups[itable].size() ; ifrow++ ) {
|
---|
2653 | addrow[itable].push_back( groups[itable][ifrow].size()-1 ) ;
|
---|
2654 | //cout << addrow[itable][ifrow] << " " ;
|
---|
2655 | }
|
---|
2656 | addtable[itable] = *max_element( addrow[itable].begin(), addrow[itable].end() ) ;
|
---|
2657 | //cout << "(" << addtable[itable] << ")" << endl ;
|
---|
2658 | }
|
---|
2659 | newin.resize( insize ) ;
|
---|
2660 | copy( tmpin.begin(), tmpin.end(), newin.begin() ) ;
|
---|
2661 | for ( uInt i = 0 ; i < insize ; i++ ) {
|
---|
2662 | newtableids[i] = i ;
|
---|
2663 | }
|
---|
2664 | for ( uInt itable = 0 ; itable < insize ; itable++ ) {
|
---|
2665 | for ( uInt iadd = 0 ; iadd < addtable[itable] ; iadd++ ) {
|
---|
2666 | CountedPtr<Scantable> add = getScantable( newin[itable], false ) ;
|
---|
2667 | vector<int> freqidlist ;
|
---|
2668 | for ( uInt i = 0 ; i < groups[itable].size() ; i++ ) {
|
---|
2669 | if ( groups[itable][i].size() > iadd + 1 ) {
|
---|
2670 | freqidlist.push_back( freqid[itable][i] ) ;
|
---|
2671 | }
|
---|
2672 | }
|
---|
2673 | stringstream taqlstream ;
|
---|
2674 | taqlstream << "SELECT FROM $1 WHERE FREQ_ID IN [" ;
|
---|
2675 | for ( uInt i = 0 ; i < freqidlist.size() ; i++ ) {
|
---|
2676 | taqlstream << i ;
|
---|
2677 | if ( i < freqidlist.size() - 1 )
|
---|
2678 | taqlstream << "," ;
|
---|
2679 | else
|
---|
2680 | taqlstream << "]" ;
|
---|
2681 | }
|
---|
2682 | string taql = taqlstream.str() ;
|
---|
2683 | //cout << "taql = " << taql << endl ;
|
---|
2684 | STSelector selector = STSelector() ;
|
---|
2685 | selector.setTaQL( taql ) ;
|
---|
2686 | add->setSelection( selector ) ;
|
---|
2687 | newin.push_back( add ) ;
|
---|
2688 | newtableids.push_back( itable ) ;
|
---|
2689 | newifids.push_back( iadd + 1 ) ;
|
---|
2690 | }
|
---|
2691 | }
|
---|
2692 |
|
---|
2693 | // udpate ifgrp
|
---|
2694 | for ( uInt itable = 0 ; itable < insize ; itable++ ) {
|
---|
2695 | for ( uInt iadd = 0 ; iadd < addtable[itable] ; iadd++ ) {
|
---|
2696 | for ( uInt ifrow = 0 ; ifrow < groups[itable].size() ; ifrow++ ) {
|
---|
2697 | if ( groups[itable][ifrow].size() > iadd + 1 ) {
|
---|
2698 | uInt igrp = groups[itable][ifrow][iadd+1] ;
|
---|
2699 | for ( uInt imem = 0 ; imem < ifgrp[igrp].size()/2 ; imem++ ) {
|
---|
2700 | if ( ifgrp[igrp][2*imem] == newtableids[iadd+insize] && ifgrp[igrp][2*imem+1] == freqid[newtableids[iadd+insize]][ifrow] ) {
|
---|
2701 | ifgrp[igrp][2*imem] = insize + iadd ;
|
---|
2702 | }
|
---|
2703 | }
|
---|
2704 | }
|
---|
2705 | }
|
---|
2706 | }
|
---|
2707 | }
|
---|
2708 |
|
---|
2709 | // print IF groups again for debug
|
---|
2710 | //cout << "IF Group summary: " << endl ;
|
---|
2711 | //cout << " GROUP_ID [FREQ_MIN, FREQ_MAX]: (TABLE_ID, FREQ_ID)" << endl ;
|
---|
2712 | //for ( uInt i = 0 ; i < ifgrp.size() ; i++ ) {
|
---|
2713 | //cout << " GROUP " << setw( 2 ) << i << " [" << ifgfreq[2*i] << "," << ifgfreq[2*i+1] << "]: " ;
|
---|
2714 | //for ( uInt j = 0 ; j < ifgrp[i].size()/2 ; j++ ) {
|
---|
2715 | //cout << "(" << ifgrp[i][2*j] << "," << ifgrp[i][2*j+1] << ") " ;
|
---|
2716 | //}
|
---|
2717 | //cout << endl ;
|
---|
2718 | //}
|
---|
2719 | //cout << endl ;
|
---|
2720 |
|
---|
2721 | // reset SCANNO and IFNO/FREQ_ID: IF is reset by the result of sortation
|
---|
2722 | cout << "All scan number is set to 0" << endl ;
|
---|
2723 | //cout << "All IF number is set to IF group index" << endl ;
|
---|
2724 | cout << endl ;
|
---|
2725 | insize = newin.size() ;
|
---|
2726 | for ( uInt itable = 0 ; itable < insize ; itable++ ) {
|
---|
2727 | uInt rows = newin[itable]->nrow() ;
|
---|
2728 | Table &tmpt = newin[itable]->table() ;
|
---|
2729 | freqIDCol.attach( tmpt, "FREQ_ID" ) ;
|
---|
2730 | scannoCol.attach( tmpt, "SCANNO" ) ;
|
---|
2731 | ifnoCol.attach( tmpt, "IFNO" ) ;
|
---|
2732 | for ( uInt irow=0 ; irow < rows ; irow++ ) {
|
---|
2733 | scannoCol.put( irow, 0 ) ;
|
---|
2734 | uInt freqID = freqIDCol( irow ) ;
|
---|
2735 | vector<uInt>::iterator iter = find( freqid[newtableids[itable]].begin(), freqid[newtableids[itable]].end(), freqID ) ;
|
---|
2736 | if ( iter != freqid[newtableids[itable]].end() ) {
|
---|
2737 | uInt index = distance( freqid[newtableids[itable]].begin(), iter ) ;
|
---|
2738 | ifnoCol.put( irow, groups[newtableids[itable]][index][newifids[itable]] ) ;
|
---|
2739 | }
|
---|
2740 | else {
|
---|
2741 | throw(AipsError("IF grouping was wrong in additional tables.")) ;
|
---|
2742 | }
|
---|
2743 | }
|
---|
2744 | }
|
---|
2745 | oldinfo.resize( insize ) ;
|
---|
2746 | setInsitu( oldInsitu ) ;
|
---|
2747 |
|
---|
2748 | // temporarily set coordinfo
|
---|
2749 | for ( uInt itable = 0 ; itable < insize ; itable++ ) {
|
---|
2750 | vector<string> coordinfo = newin[itable]->getCoordInfo() ;
|
---|
2751 | oldinfo[itable] = coordinfo[0] ;
|
---|
2752 | coordinfo[0] = "Hz" ;
|
---|
2753 | newin[itable]->setCoordInfo( coordinfo ) ;
|
---|
2754 | }
|
---|
2755 |
|
---|
2756 | // save column values in the vector
|
---|
2757 | vector< vector<uInt> > freqTableIdVec( insize ) ;
|
---|
2758 | vector< vector<uInt> > freqIdVec( insize ) ;
|
---|
2759 | vector< vector<uInt> > ifNoVec( insize ) ;
|
---|
2760 | for ( uInt itable = 0 ; itable < insize ; itable++ ) {
|
---|
2761 | ScalarColumn<uInt> freqIDs ;
|
---|
2762 | freqIDs.attach( newin[itable]->frequencies().table(), "ID" ) ;
|
---|
2763 | ifnoCol.attach( newin[itable]->table(), "IFNO" ) ;
|
---|
2764 | freqIDCol.attach( newin[itable]->table(), "FREQ_ID" ) ;
|
---|
2765 | for ( uInt irow = 0 ; irow < newin[itable]->frequencies().table().nrow() ; irow++ ) {
|
---|
2766 | freqTableIdVec[itable].push_back( freqIDs( irow ) ) ;
|
---|
2767 | }
|
---|
2768 | for ( uInt irow = 0 ; irow < newin[itable]->table().nrow() ; irow++ ) {
|
---|
2769 | freqIdVec[itable].push_back( freqIDCol( irow ) ) ;
|
---|
2770 | ifNoVec[itable].push_back( ifnoCol( irow ) ) ;
|
---|
2771 | }
|
---|
2772 | }
|
---|
2773 |
|
---|
2774 | // reset spectra and flagtra: pick up common part of frequency coverage
|
---|
2775 | //cout << "Pick common frequency range and align resolution" << endl ;
|
---|
2776 | for ( uInt itable = 0 ; itable < insize ; itable++ ) {
|
---|
2777 | uInt rows = newin[itable]->nrow() ;
|
---|
2778 | int nminchan = -1 ;
|
---|
2779 | int nmaxchan = -1 ;
|
---|
2780 | vector<uInt> freqIdUpdate ;
|
---|
2781 | for ( uInt irow = 0 ; irow < rows ; irow++ ) {
|
---|
2782 | uInt ifno = ifNoVec[itable][irow] ; // IFNO is reset by group index
|
---|
2783 | double minfreq = ifgfreq[2*ifno] ;
|
---|
2784 | double maxfreq = ifgfreq[2*ifno+1] ;
|
---|
2785 | //cout << "frequency range: [" << minfreq << "," << maxfreq << "]" << endl ;
|
---|
2786 | vector<double> abcissa = newin[itable]->getAbcissa( irow ) ;
|
---|
2787 | int nchan = abcissa.size() ;
|
---|
2788 | double resol = abcissa[1] - abcissa[0] ;
|
---|
2789 | //cout << "abcissa range : [" << abcissa[0] << "," << abcissa[nchan-1] << "]" << endl ;
|
---|
2790 | if ( minfreq <= abcissa[0] )
|
---|
2791 | nminchan = 0 ;
|
---|
2792 | else {
|
---|
2793 | //double cfreq = ( minfreq - abcissa[0] ) / resol ;
|
---|
2794 | double cfreq = ( minfreq - abcissa[0] + 0.5 * resol ) / resol ;
|
---|
2795 | nminchan = int(cfreq) + ( ( cfreq - int(cfreq) <= 0.5 ) ? 0 : 1 ) ;
|
---|
2796 | }
|
---|
2797 | if ( maxfreq >= abcissa[abcissa.size()-1] )
|
---|
2798 | nmaxchan = abcissa.size() - 1 ;
|
---|
2799 | else {
|
---|
2800 | //double cfreq = ( abcissa[abcissa.size()-1] - maxfreq ) / resol ;
|
---|
2801 | double cfreq = ( abcissa[abcissa.size()-1] - maxfreq + 0.5 * resol ) / resol ;
|
---|
2802 | nmaxchan = abcissa.size() - 1 - int(cfreq) - ( ( cfreq - int(cfreq) >= 0.5 ) ? 1 : 0 ) ;
|
---|
2803 | }
|
---|
2804 | //cout << "channel range (" << irow << "): [" << nminchan << "," << nmaxchan << "]" << endl ;
|
---|
2805 | if ( nmaxchan > nminchan ) {
|
---|
2806 | newin[itable]->reshapeSpectrum( nminchan, nmaxchan, irow ) ;
|
---|
2807 | int newchan = nmaxchan - nminchan + 1 ;
|
---|
2808 | if ( count( freqIdUpdate.begin(), freqIdUpdate.end(), freqIdVec[itable][irow] ) == 0 && newchan < nchan )
|
---|
2809 | freqIdUpdate.push_back( freqIdVec[itable][irow] ) ;
|
---|
2810 | }
|
---|
2811 | else {
|
---|
2812 | throw(AipsError("Failed to pick up common part of frequency range.")) ;
|
---|
2813 | }
|
---|
2814 | }
|
---|
2815 | for ( uInt i = 0 ; i < freqIdUpdate.size() ; i++ ) {
|
---|
2816 | uInt freqId = freqIdUpdate[i] ;
|
---|
2817 | Double refpix ;
|
---|
2818 | Double refval ;
|
---|
2819 | Double increment ;
|
---|
2820 |
|
---|
2821 | // update row
|
---|
2822 | newin[itable]->frequencies().getEntry( refpix, refval, increment, freqId ) ;
|
---|
2823 | refval = refval - ( refpix - nminchan ) * increment ;
|
---|
2824 | refpix = 0 ;
|
---|
2825 | newin[itable]->frequencies().setEntry( refpix, refval, increment, freqId ) ;
|
---|
2826 | }
|
---|
2827 | }
|
---|
2828 |
|
---|
2829 |
|
---|
2830 | // reset spectra and flagtra: align spectral resolution
|
---|
2831 | //cout << "Align spectral resolution" << endl ;
|
---|
2832 | // gmaxdnu: the coarsest frequency resolution in the frequency group
|
---|
2833 | // gmemid: member index that have a resolution equal to gmaxdnu
|
---|
2834 | // gmaxdnu[numfreqgrp]
|
---|
2835 | // gmaxdnu: [dnu0, dnu1, ...]
|
---|
2836 | // gmemid[numfreqgrp]
|
---|
2837 | // gmemid: [id0, id1, ...]
|
---|
2838 | vector<double> gmaxdnu( freqgrp.size(), 0.0 ) ;
|
---|
2839 | vector<uInt> gmemid( freqgrp.size(), 0 ) ;
|
---|
2840 | for ( uInt igrp = 0 ; igrp < ifgrp.size() ; igrp++ ) {
|
---|
2841 | double maxdnu = 0.0 ; // maximum (coarsest) frequency resolution
|
---|
2842 | int minchan = INT_MAX ; // minimum channel number
|
---|
2843 | Double refpixref = -1 ; // reference of 'reference pixel'
|
---|
2844 | Double refvalref = -1 ; // reference of 'reference frequency'
|
---|
2845 | Double refinc = -1 ; // reference frequency resolution
|
---|
2846 | uInt refreqid ;
|
---|
2847 | uInt reftable = INT_MAX;
|
---|
2848 | // process only if group member > 1
|
---|
2849 | if ( ifgrp[igrp].size() > 2 ) {
|
---|
2850 | // find minchan and maxdnu in each group
|
---|
2851 | for ( uInt imem = 0 ; imem < ifgrp[igrp].size()/2 ; imem++ ) {
|
---|
2852 | uInt tableid = ifgrp[igrp][2*imem] ;
|
---|
2853 | uInt rowid = ifgrp[igrp][2*imem+1] ;
|
---|
2854 | vector<uInt>::iterator iter = find( freqIdVec[tableid].begin(), freqIdVec[tableid].end(), rowid ) ;
|
---|
2855 | if ( iter != freqIdVec[tableid].end() ) {
|
---|
2856 | uInt index = distance( freqIdVec[tableid].begin(), iter ) ;
|
---|
2857 | vector<double> abcissa = newin[tableid]->getAbcissa( index ) ;
|
---|
2858 | int nchan = abcissa.size() ;
|
---|
2859 | double dnu = abcissa[1] - abcissa[0] ;
|
---|
2860 | //cout << "GROUP " << igrp << " (" << tableid << "," << rowid << "): nchan = " << nchan << " (minchan = " << minchan << ")" << endl ;
|
---|
2861 | if ( nchan < minchan ) {
|
---|
2862 | minchan = nchan ;
|
---|
2863 | maxdnu = dnu ;
|
---|
2864 | newin[tableid]->frequencies().getEntry( refpixref, refvalref, refinc, rowid ) ;
|
---|
2865 | refreqid = rowid ;
|
---|
2866 | reftable = tableid ;
|
---|
2867 | }
|
---|
2868 | }
|
---|
2869 | }
|
---|
2870 | // regrid spectra in each group
|
---|
2871 | cout << "GROUP " << igrp << endl ;
|
---|
2872 | cout << " Channel number is adjusted to " << minchan << endl ;
|
---|
2873 | cout << " Corresponding frequency resolution is " << maxdnu << "Hz" << endl ;
|
---|
2874 | for ( uInt imem = 0 ; imem < ifgrp[igrp].size()/2 ; imem++ ) {
|
---|
2875 | uInt tableid = ifgrp[igrp][2*imem] ;
|
---|
2876 | uInt rowid = ifgrp[igrp][2*imem+1] ;
|
---|
2877 | freqIDCol.attach( newin[tableid]->table(), "FREQ_ID" ) ;
|
---|
2878 | //cout << "tableid = " << tableid << " rowid = " << rowid << ": " << endl ;
|
---|
2879 | //cout << " regridChannel applied to " ;
|
---|
2880 | if ( tableid != reftable )
|
---|
2881 | refreqid = newin[tableid]->frequencies().addEntry( refpixref, refvalref, refinc ) ;
|
---|
2882 | for ( uInt irow = 0 ; irow < newin[tableid]->table().nrow() ; irow++ ) {
|
---|
2883 | uInt tfreqid = freqIdVec[tableid][irow] ;
|
---|
2884 | if ( tfreqid == rowid ) {
|
---|
2885 | //cout << irow << " " ;
|
---|
2886 | newin[tableid]->regridChannel( minchan, maxdnu, irow ) ;
|
---|
2887 | freqIDCol.put( irow, refreqid ) ;
|
---|
2888 | freqIdVec[tableid][irow] = refreqid ;
|
---|
2889 | }
|
---|
2890 | }
|
---|
2891 | //cout << endl ;
|
---|
2892 | }
|
---|
2893 | }
|
---|
2894 | else {
|
---|
2895 | uInt tableid = ifgrp[igrp][0] ;
|
---|
2896 | uInt rowid = ifgrp[igrp][1] ;
|
---|
2897 | vector<uInt>::iterator iter = find( freqIdVec[tableid].begin(), freqIdVec[tableid].end(), rowid ) ;
|
---|
2898 | if ( iter != freqIdVec[tableid].end() ) {
|
---|
2899 | uInt index = distance( freqIdVec[tableid].begin(), iter ) ;
|
---|
2900 | vector<double> abcissa = newin[tableid]->getAbcissa( index ) ;
|
---|
2901 | minchan = abcissa.size() ;
|
---|
2902 | maxdnu = abcissa[1] - abcissa[0] ;
|
---|
2903 | }
|
---|
2904 | }
|
---|
2905 | for ( uInt i = 0 ; i < freqgrp.size() ; i++ ) {
|
---|
2906 | if ( count( freqgrp[i].begin(), freqgrp[i].end(), igrp ) > 0 ) {
|
---|
2907 | if ( maxdnu > gmaxdnu[i] ) {
|
---|
2908 | gmaxdnu[i] = maxdnu ;
|
---|
2909 | gmemid[i] = igrp ;
|
---|
2910 | }
|
---|
2911 | break ;
|
---|
2912 | }
|
---|
2913 | }
|
---|
2914 | }
|
---|
2915 | cout << endl ;
|
---|
2916 |
|
---|
2917 | // set back coordinfo
|
---|
2918 | for ( uInt itable = 0 ; itable < insize ; itable++ ) {
|
---|
2919 | vector<string> coordinfo = newin[itable]->getCoordInfo() ;
|
---|
2920 | coordinfo[0] = oldinfo[itable] ;
|
---|
2921 | newin[itable]->setCoordInfo( coordinfo ) ;
|
---|
2922 | }
|
---|
2923 |
|
---|
2924 | // accumulate all rows into the first table
|
---|
2925 | // NOTE: assumed in.size() = 1
|
---|
2926 | vector< CountedPtr<Scantable> > tmp( 1 ) ;
|
---|
2927 | if ( newin.size() == 1 )
|
---|
2928 | tmp[0] = newin[0] ;
|
---|
2929 | else
|
---|
2930 | tmp[0] = merge( newin ) ;
|
---|
2931 |
|
---|
2932 | //return tmp[0] ;
|
---|
2933 |
|
---|
2934 | // average
|
---|
2935 | CountedPtr<Scantable> tmpout = average( tmp, mask, weight, avmode ) ;
|
---|
2936 |
|
---|
2937 | //return tmpout ;
|
---|
2938 |
|
---|
2939 | // combine frequency group
|
---|
2940 | cout << "Combine spectra based on frequency grouping" << endl ;
|
---|
2941 | cout << "IFNO is renumbered as frequency group ID (see above)" << endl ;
|
---|
2942 | vector<string> coordinfo = tmpout->getCoordInfo() ;
|
---|
2943 | oldinfo[0] = coordinfo[0] ;
|
---|
2944 | coordinfo[0] = "Hz" ;
|
---|
2945 | tmpout->setCoordInfo( coordinfo ) ;
|
---|
2946 | // create proformas of output table
|
---|
2947 | stringstream taqlstream ;
|
---|
2948 | taqlstream << "SELECT FROM $1 WHERE IFNO IN [" ;
|
---|
2949 | for ( uInt i = 0 ; i < gmemid.size() ; i++ ) {
|
---|
2950 | taqlstream << gmemid[i] ;
|
---|
2951 | if ( i < gmemid.size() - 1 )
|
---|
2952 | taqlstream << "," ;
|
---|
2953 | else
|
---|
2954 | taqlstream << "]" ;
|
---|
2955 | }
|
---|
2956 | string taql = taqlstream.str() ;
|
---|
2957 | //cout << "taql = " << taql << endl ;
|
---|
2958 | STSelector selector = STSelector() ;
|
---|
2959 | selector.setTaQL( taql ) ;
|
---|
2960 | oldInsitu = insitu_ ;
|
---|
2961 | setInsitu( false ) ;
|
---|
2962 | out = getScantable( tmpout, false ) ;
|
---|
2963 | setInsitu( oldInsitu ) ;
|
---|
2964 | out->setSelection( selector ) ;
|
---|
2965 | // regrid rows
|
---|
2966 | ifnoCol.attach( tmpout->table(), "IFNO" ) ;
|
---|
2967 | for ( uInt irow = 0 ; irow < tmpout->table().nrow() ; irow++ ) {
|
---|
2968 | uInt ifno = ifnoCol( irow ) ;
|
---|
2969 | for ( uInt igrp = 0 ; igrp < freqgrp.size() ; igrp++ ) {
|
---|
2970 | if ( count( freqgrp[igrp].begin(), freqgrp[igrp].end(), ifno ) > 0 ) {
|
---|
2971 | vector<double> abcissa = tmpout->getAbcissa( irow ) ;
|
---|
2972 | double bw = ( abcissa[1] - abcissa[0] ) * abcissa.size() ;
|
---|
2973 | int nchan = (int)( bw / gmaxdnu[igrp] ) ;
|
---|
2974 | tmpout->regridChannel( nchan, gmaxdnu[igrp], irow ) ;
|
---|
2975 | break ;
|
---|
2976 | }
|
---|
2977 | }
|
---|
2978 | }
|
---|
2979 | // combine spectra
|
---|
2980 | ArrayColumn<Float> specColOut ;
|
---|
2981 | specColOut.attach( out->table(), "SPECTRA" ) ;
|
---|
2982 | ArrayColumn<uChar> flagColOut ;
|
---|
2983 | flagColOut.attach( out->table(), "FLAGTRA" ) ;
|
---|
2984 | ScalarColumn<uInt> ifnoColOut ;
|
---|
2985 | ifnoColOut.attach( out->table(), "IFNO" ) ;
|
---|
2986 | ScalarColumn<uInt> polnoColOut ;
|
---|
2987 | polnoColOut.attach( out->table(), "POLNO" ) ;
|
---|
2988 | ScalarColumn<uInt> freqidColOut ;
|
---|
2989 | freqidColOut.attach( out->table(), "FREQ_ID" ) ;
|
---|
2990 | MDirection::ScalarColumn dirColOut ;
|
---|
2991 | dirColOut.attach( out->table(), "DIRECTION" ) ;
|
---|
2992 | Table &tab = tmpout->table() ;
|
---|
2993 | Block<String> cols(1);
|
---|
2994 | cols[0] = String("POLNO") ;
|
---|
2995 | TableIterator iter( tab, cols ) ;
|
---|
2996 | bool done = false ;
|
---|
2997 | vector< vector<uInt> > sizes( freqgrp.size() ) ;
|
---|
2998 | while( !iter.pastEnd() ) {
|
---|
2999 | vector< vector<Float> > specout( freqgrp.size() ) ;
|
---|
3000 | vector< vector<uChar> > flagout( freqgrp.size() ) ;
|
---|
3001 | ArrayColumn<Float> specCols ;
|
---|
3002 | specCols.attach( iter.table(), "SPECTRA" ) ;
|
---|
3003 | ArrayColumn<uChar> flagCols ;
|
---|
3004 | flagCols.attach( iter.table(), "FLAGTRA" ) ;
|
---|
3005 | ifnoCol.attach( iter.table(), "IFNO" ) ;
|
---|
3006 | ScalarColumn<uInt> polnos ;
|
---|
3007 | polnos.attach( iter.table(), "POLNO" ) ;
|
---|
3008 | MDirection::ScalarColumn dircol ;
|
---|
3009 | dircol.attach( iter.table(), "DIRECTION" ) ;
|
---|
3010 | uInt polno = polnos( 0 ) ;
|
---|
3011 | //cout << "POLNO iteration: " << polno << endl ;
|
---|
3012 | // for ( uInt igrp = 0 ; igrp < freqgrp.size() ; igrp++ ) {
|
---|
3013 | // sizes[igrp].resize( freqgrp[igrp].size() ) ;
|
---|
3014 | // for ( uInt imem = 0 ; imem < freqgrp[igrp].size() ; imem++ ) {
|
---|
3015 | // for ( uInt irow = 0 ; irow < iter.table().nrow() ; irow++ ) {
|
---|
3016 | // uInt ifno = ifnoCol( irow ) ;
|
---|
3017 | // if ( ifno == freqgrp[igrp][imem] ) {
|
---|
3018 | // Vector<Float> spec = specCols( irow ) ;
|
---|
3019 | // Vector<uChar> flag = flagCols( irow ) ;
|
---|
3020 | // vector<Float> svec ;
|
---|
3021 | // spec.tovector( svec ) ;
|
---|
3022 | // vector<uChar> fvec ;
|
---|
3023 | // flag.tovector( fvec ) ;
|
---|
3024 | // //cout << "spec.size() = " << svec.size() << " fvec.size() = " << fvec.size() << endl ;
|
---|
3025 | // specout[igrp].insert( specout[igrp].end(), svec.begin(), svec.end() ) ;
|
---|
3026 | // flagout[igrp].insert( flagout[igrp].end(), fvec.begin(), fvec.end() ) ;
|
---|
3027 | // //cout << "specout[" << igrp << "].size() = " << specout[igrp].size() << endl ;
|
---|
3028 | // sizes[igrp][imem] = spec.nelements() ;
|
---|
3029 | // }
|
---|
3030 | // }
|
---|
3031 | // }
|
---|
3032 | // for ( uInt irow = 0 ; irow < out->table().nrow() ; irow++ ) {
|
---|
3033 | // uInt ifout = ifnoColOut( irow ) ;
|
---|
3034 | // uInt polout = polnoColOut( irow ) ;
|
---|
3035 | // if ( ifout == gmemid[igrp] && polout == polno ) {
|
---|
3036 | // // set SPECTRA and FRAGTRA
|
---|
3037 | // Vector<Float> newspec( specout[igrp] ) ;
|
---|
3038 | // Vector<uChar> newflag( flagout[igrp] ) ;
|
---|
3039 | // specColOut.put( irow, newspec ) ;
|
---|
3040 | // flagColOut.put( irow, newflag ) ;
|
---|
3041 | // // IFNO renumbering
|
---|
3042 | // ifnoColOut.put( irow, igrp ) ;
|
---|
3043 | // }
|
---|
3044 | // }
|
---|
3045 | // }
|
---|
3046 | // get a list of number of channels for each frequency group member
|
---|
3047 | if ( !done ) {
|
---|
3048 | for ( uInt igrp = 0 ; igrp < freqgrp.size() ; igrp++ ) {
|
---|
3049 | sizes[igrp].resize( freqgrp[igrp].size() ) ;
|
---|
3050 | for ( uInt imem = 0 ; imem < freqgrp[igrp].size() ; imem++ ) {
|
---|
3051 | for ( uInt irow = 0 ; irow < iter.table().nrow() ; irow++ ) {
|
---|
3052 | uInt ifno = ifnoCol( irow ) ;
|
---|
3053 | if ( ifno == freqgrp[igrp][imem] ) {
|
---|
3054 | Vector<Float> spec = specCols( irow ) ;
|
---|
3055 | sizes[igrp][imem] = spec.nelements() ;
|
---|
3056 | break ;
|
---|
3057 | }
|
---|
3058 | }
|
---|
3059 | }
|
---|
3060 | }
|
---|
3061 | done = true ;
|
---|
3062 | }
|
---|
3063 | // combine spectra
|
---|
3064 | for ( uInt irow = 0 ; irow < out->table().nrow() ; irow++ ) {
|
---|
3065 | uInt polout = polnoColOut( irow ) ;
|
---|
3066 | if ( polout == polno ) {
|
---|
3067 | uInt ifout = ifnoColOut( irow ) ;
|
---|
3068 | Vector<Double> direction = dirColOut(irow).getAngle(Unit(String("rad"))).getValue() ;
|
---|
3069 | uInt igrp ;
|
---|
3070 | for ( uInt jgrp = 0 ; jgrp < freqgrp.size() ; jgrp++ ) {
|
---|
3071 | if ( ifout == gmemid[jgrp] ) {
|
---|
3072 | igrp = jgrp ;
|
---|
3073 | break ;
|
---|
3074 | }
|
---|
3075 | }
|
---|
3076 | for ( uInt imem = 0 ; imem < freqgrp[igrp].size() ; imem++ ) {
|
---|
3077 | for ( uInt jrow = 0 ; jrow < iter.table().nrow() ; jrow++ ) {
|
---|
3078 | uInt ifno = ifnoCol( jrow ) ;
|
---|
3079 | Vector<Double> tdir = dircol(jrow).getAngle(Unit(String("rad"))).getValue() ;
|
---|
3080 | //if ( ifno == freqgrp[igrp][imem] && allTrue( tdir == direction ) ) {
|
---|
3081 | Double dx = tdir[0] - direction[0] ;
|
---|
3082 | Double dy = tdir[1] - direction[1] ;
|
---|
3083 | Double dd = sqrt( dx * dx + dy * dy ) ;
|
---|
3084 | //if ( ifno == freqgrp[igrp][imem] && allNearAbs( tdir, direction, tol ) ) {
|
---|
3085 | if ( ifno == freqgrp[igrp][imem] && dd <= tol ) {
|
---|
3086 | Vector<Float> spec = specCols( jrow ) ;
|
---|
3087 | Vector<uChar> flag = flagCols( jrow ) ;
|
---|
3088 | vector<Float> svec ;
|
---|
3089 | spec.tovector( svec ) ;
|
---|
3090 | vector<uChar> fvec ;
|
---|
3091 | flag.tovector( fvec ) ;
|
---|
3092 | //cout << "spec.size() = " << svec.size() << " fvec.size() = " << fvec.size() << endl ;
|
---|
3093 | specout[igrp].insert( specout[igrp].end(), svec.begin(), svec.end() ) ;
|
---|
3094 | flagout[igrp].insert( flagout[igrp].end(), fvec.begin(), fvec.end() ) ;
|
---|
3095 | //cout << "specout[" << igrp << "].size() = " << specout[igrp].size() << endl ;
|
---|
3096 | }
|
---|
3097 | }
|
---|
3098 | }
|
---|
3099 | // set SPECTRA and FRAGTRA
|
---|
3100 | Vector<Float> newspec( specout[igrp] ) ;
|
---|
3101 | Vector<uChar> newflag( flagout[igrp] ) ;
|
---|
3102 | specColOut.put( irow, newspec ) ;
|
---|
3103 | flagColOut.put( irow, newflag ) ;
|
---|
3104 | // IFNO renumbering
|
---|
3105 | ifnoColOut.put( irow, igrp ) ;
|
---|
3106 | }
|
---|
3107 | }
|
---|
3108 | iter++ ;
|
---|
3109 | }
|
---|
3110 | // update FREQUENCIES subtable
|
---|
3111 | vector<bool> updated( freqgrp.size(), false ) ;
|
---|
3112 | for ( uInt igrp = 0 ; igrp < freqgrp.size() ; igrp++ ) {
|
---|
3113 | uInt index = 0 ;
|
---|
3114 | uInt pixShift = 0 ;
|
---|
3115 | while ( freqgrp[igrp][index] != gmemid[igrp] ) {
|
---|
3116 | pixShift += sizes[igrp][index++] ;
|
---|
3117 | }
|
---|
3118 | for ( uInt irow = 0 ; irow < out->table().nrow() ; irow++ ) {
|
---|
3119 | if ( ifnoColOut( irow ) == gmemid[igrp] && !updated[igrp] ) {
|
---|
3120 | uInt freqidOut = freqidColOut( irow ) ;
|
---|
3121 | //cout << "freqgrp " << igrp << " freqidOut = " << freqidOut << endl ;
|
---|
3122 | double refpix ;
|
---|
3123 | double refval ;
|
---|
3124 | double increm ;
|
---|
3125 | out->frequencies().getEntry( refpix, refval, increm, freqidOut ) ;
|
---|
3126 | refpix += pixShift ;
|
---|
3127 | out->frequencies().setEntry( refpix, refval, increm, freqidOut ) ;
|
---|
3128 | updated[igrp] = true ;
|
---|
3129 | }
|
---|
3130 | }
|
---|
3131 | }
|
---|
3132 |
|
---|
3133 | //out = tmpout ;
|
---|
3134 |
|
---|
3135 | coordinfo = tmpout->getCoordInfo() ;
|
---|
3136 | coordinfo[0] = oldinfo[0] ;
|
---|
3137 | tmpout->setCoordInfo( coordinfo ) ;
|
---|
3138 | }
|
---|
3139 | else {
|
---|
3140 | // simple average
|
---|
3141 | out = average( in, mask, weight, avmode ) ;
|
---|
3142 | }
|
---|
3143 |
|
---|
3144 | return out ;
|
---|
3145 | }
|
---|