[805] | 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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[38] | 12 | |
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[330] | 13 | #include <casa/iomanip.h> |
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[805] | 14 | #include <casa/Exceptions/Error.h> |
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| 15 | #include <casa/Containers/Block.h> |
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[81] | 16 | #include <casa/BasicSL/String.h> |
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[805] | 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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[81] | 20 | #include <casa/Arrays/ArrayMath.h> |
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[1066] | 21 | #include <casa/Arrays/Slice.h> |
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| 22 | #include <casa/Arrays/Slicer.h> |
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[805] | 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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[917] | 26 | #include <tables/Tables/TabVecMath.h> |
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[805] | 27 | #include <tables/Tables/ExprNode.h> |
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| 28 | #include <tables/Tables/TableRecord.h> |
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[1140] | 29 | #include <tables/Tables/TableParse.h> |
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[805] | 30 | #include <tables/Tables/ReadAsciiTable.h> |
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[1140] | 31 | #include <tables/Tables/TableIter.h> |
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| 32 | #include <tables/Tables/TableCopy.h> |
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[1192] | 33 | #include <scimath/Mathematics/FFTServer.h> |
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[2] | 34 | |
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[262] | 35 | #include <lattices/Lattices/LatticeUtilities.h> |
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| 36 | |
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[917] | 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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[177] | 42 | #include <scimath/Mathematics/VectorKernel.h> |
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| 43 | #include <scimath/Mathematics/Convolver.h> |
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[234] | 44 | #include <scimath/Functionals/Polynomial.h> |
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[177] | 45 | |
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[38] | 46 | #include "MathUtils.h" |
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[805] | 47 | #include "RowAccumulator.h" |
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[878] | 48 | #include "STAttr.h" |
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[805] | 49 | #include "STMath.h" |
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[1387] | 50 | #include "STSelector.h" |
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[2] | 51 | |
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[805] | 52 | using namespace casa; |
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[2] | 53 | |
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[83] | 54 | using namespace asap; |
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[2] | 55 | |
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[805] | 56 | STMath::STMath(bool insitu) : |
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| 57 | insitu_(insitu) |
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[716] | 58 | { |
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| 59 | } |
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[170] | 60 | |
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| 61 | |
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[805] | 62 | STMath::~STMath() |
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[170] | 63 | { |
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| 64 | } |
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| 65 | |
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[805] | 66 | CountedPtr<Scantable> |
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[977] | 67 | STMath::average( const std::vector<CountedPtr<Scantable> >& in, |
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[858] | 68 | const std::vector<bool>& mask, |
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[805] | 69 | const std::string& weight, |
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[977] | 70 | const std::string& avmode) |
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[262] | 71 | { |
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[977] | 72 | if ( avmode == "SCAN" && in.size() != 1 ) |
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[1066] | 73 | throw(AipsError("Can't perform 'SCAN' averaging on multiple tables.\n" |
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| 74 | "Use merge first.")); |
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[805] | 75 | WeightType wtype = stringToWeight(weight); |
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[926] | 76 | |
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[805] | 77 | // output |
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| 78 | // clone as this is non insitu |
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| 79 | bool insitu = insitu_; |
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| 80 | setInsitu(false); |
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[977] | 81 | CountedPtr< Scantable > out = getScantable(in[0], true); |
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[805] | 82 | setInsitu(insitu); |
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[977] | 83 | std::vector<CountedPtr<Scantable> >::const_iterator stit = in.begin(); |
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[862] | 84 | ++stit; |
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[977] | 85 | while ( stit != in.end() ) { |
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[862] | 86 | out->appendToHistoryTable((*stit)->history()); |
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| 87 | ++stit; |
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| 88 | } |
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[294] | 89 | |
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[805] | 90 | Table& tout = out->table(); |
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[701] | 91 | |
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[805] | 92 | /// @todo check if all scantables are conformant |
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[294] | 93 | |
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[805] | 94 | ArrayColumn<Float> specColOut(tout,"SPECTRA"); |
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| 95 | ArrayColumn<uChar> flagColOut(tout,"FLAGTRA"); |
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| 96 | ArrayColumn<Float> tsysColOut(tout,"TSYS"); |
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| 97 | ScalarColumn<Double> mjdColOut(tout,"TIME"); |
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| 98 | ScalarColumn<Double> intColOut(tout,"INTERVAL"); |
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[1008] | 99 | ScalarColumn<uInt> cycColOut(tout,"CYCLENO"); |
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[1145] | 100 | ScalarColumn<uInt> scanColOut(tout,"SCANNO"); |
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[262] | 101 | |
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[805] | 102 | // set up the output table rows. These are based on the structure of the |
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[862] | 103 | // FIRST scantable in the vector |
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[977] | 104 | const Table& baset = in[0]->table(); |
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[262] | 105 | |
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[805] | 106 | Block<String> cols(3); |
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| 107 | cols[0] = String("BEAMNO"); |
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| 108 | cols[1] = String("IFNO"); |
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| 109 | cols[2] = String("POLNO"); |
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| 110 | if ( avmode == "SOURCE" ) { |
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| 111 | cols.resize(4); |
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| 112 | cols[3] = String("SRCNAME"); |
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[488] | 113 | } |
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[977] | 114 | if ( avmode == "SCAN" && in.size() == 1) { |
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[1459] | 115 | //cols.resize(4); |
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| 116 | //cols[3] = String("SCANNO"); |
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| 117 | cols.resize(5); |
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| 118 | cols[3] = String("SRCNAME"); |
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| 119 | cols[4] = String("SCANNO"); |
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[2] | 120 | } |
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[805] | 121 | uInt outrowCount = 0; |
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| 122 | TableIterator iter(baset, cols); |
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| 123 | while (!iter.pastEnd()) { |
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| 124 | Table subt = iter.table(); |
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| 125 | // copy the first row of this selection into the new table |
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| 126 | tout.addRow(); |
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| 127 | TableCopy::copyRows(tout, subt, outrowCount, 0, 1); |
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[1145] | 128 | // re-index to 0 |
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| 129 | if ( avmode != "SCAN" && avmode != "SOURCE" ) { |
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| 130 | scanColOut.put(outrowCount, uInt(0)); |
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| 131 | } |
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[805] | 132 | ++outrowCount; |
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| 133 | ++iter; |
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[144] | 134 | } |
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[805] | 135 | RowAccumulator acc(wtype); |
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[858] | 136 | Vector<Bool> cmask(mask); |
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| 137 | acc.setUserMask(cmask); |
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[805] | 138 | ROTableRow row(tout); |
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| 139 | ROArrayColumn<Float> specCol, tsysCol; |
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| 140 | ROArrayColumn<uChar> flagCol; |
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| 141 | ROScalarColumn<Double> mjdCol, intCol; |
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| 142 | ROScalarColumn<Int> scanIDCol; |
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[144] | 143 | |
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[1333] | 144 | Vector<uInt> rowstodelete; |
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| 145 | |
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[805] | 146 | for (uInt i=0; i < tout.nrow(); ++i) { |
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[996] | 147 | for ( int j=0; j < int(in.size()); ++j ) { |
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[977] | 148 | const Table& tin = in[j]->table(); |
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[805] | 149 | const TableRecord& rec = row.get(i); |
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| 150 | ROScalarColumn<Double> tmp(tin, "TIME"); |
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| 151 | Double td;tmp.get(0,td); |
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| 152 | Table basesubt = tin(tin.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
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| 153 | && tin.col("IFNO") == Int(rec.asuInt("IFNO")) |
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| 154 | && tin.col("POLNO") == Int(rec.asuInt("POLNO")) ); |
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| 155 | Table subt; |
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| 156 | if ( avmode == "SOURCE") { |
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| 157 | subt = basesubt( basesubt.col("SRCNAME") == rec.asString("SRCNAME") ); |
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| 158 | } else if (avmode == "SCAN") { |
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[1459] | 159 | //subt = basesubt( basesubt.col("SCANNO") == Int(rec.asuInt("SCANNO")) ); |
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| 160 | subt = basesubt( basesubt.col("SCANNO") == Int(rec.asuInt("SCANNO")) |
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| 161 | && basesubt.col("SRCNAME") == rec.asString("SRCNAME") ); |
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[805] | 162 | } else { |
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| 163 | subt = basesubt; |
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| 164 | } |
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| 165 | specCol.attach(subt,"SPECTRA"); |
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| 166 | flagCol.attach(subt,"FLAGTRA"); |
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| 167 | tsysCol.attach(subt,"TSYS"); |
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| 168 | intCol.attach(subt,"INTERVAL"); |
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| 169 | mjdCol.attach(subt,"TIME"); |
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| 170 | Vector<Float> spec,tsys; |
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| 171 | Vector<uChar> flag; |
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| 172 | Double inter,time; |
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| 173 | for (uInt k = 0; k < subt.nrow(); ++k ) { |
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| 174 | flagCol.get(k, flag); |
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| 175 | Vector<Bool> bflag(flag.shape()); |
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| 176 | convertArray(bflag, flag); |
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[1314] | 177 | /* |
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[805] | 178 | if ( allEQ(bflag, True) ) { |
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[1314] | 179 | continue;//don't accumulate |
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[144] | 180 | } |
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[1314] | 181 | */ |
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[805] | 182 | specCol.get(k, spec); |
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| 183 | tsysCol.get(k, tsys); |
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| 184 | intCol.get(k, inter); |
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| 185 | mjdCol.get(k, time); |
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| 186 | // spectrum has to be added last to enable weighting by the other values |
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| 187 | acc.add(spec, !bflag, tsys, inter, time); |
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| 188 | } |
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| 189 | } |
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[1333] | 190 | const Vector<Bool>& msk = acc.getMask(); |
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| 191 | if ( allEQ(msk, False) ) { |
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| 192 | uint n = rowstodelete.nelements(); |
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| 193 | rowstodelete.resize(n+1, True); |
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| 194 | rowstodelete[n] = i; |
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| 195 | continue; |
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| 196 | } |
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[805] | 197 | //write out |
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[1446] | 198 | if (acc.state()) { |
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| 199 | Vector<uChar> flg(msk.shape()); |
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| 200 | convertArray(flg, !msk); |
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| 201 | flagColOut.put(i, flg); |
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| 202 | specColOut.put(i, acc.getSpectrum()); |
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| 203 | tsysColOut.put(i, acc.getTsys()); |
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| 204 | intColOut.put(i, acc.getInterval()); |
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| 205 | mjdColOut.put(i, acc.getTime()); |
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| 206 | // we should only have one cycle now -> reset it to be 0 |
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| 207 | // frequency switched data has different CYCLENO for different IFNO |
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| 208 | // which requires resetting this value |
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| 209 | cycColOut.put(i, uInt(0)); |
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| 210 | } else { |
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| 211 | ostringstream oss; |
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| 212 | oss << "For output row="<<i<<", all input rows of data are flagged. no averaging" << endl; |
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| 213 | pushLog(String(oss)); |
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| 214 | } |
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[805] | 215 | acc.reset(); |
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[144] | 216 | } |
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[1333] | 217 | if (rowstodelete.nelements() > 0) { |
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| 218 | cout << rowstodelete << endl; |
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| 219 | tout.removeRow(rowstodelete); |
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| 220 | if (tout.nrow() == 0) { |
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| 221 | throw(AipsError("Can't average fully flagged data.")); |
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| 222 | } |
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| 223 | } |
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[805] | 224 | return out; |
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[2] | 225 | } |
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[9] | 226 | |
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[1069] | 227 | CountedPtr< Scantable > |
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| 228 | STMath::averageChannel( const CountedPtr < Scantable > & in, |
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[1078] | 229 | const std::string & mode, |
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| 230 | const std::string& avmode ) |
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[1069] | 231 | { |
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| 232 | // clone as this is non insitu |
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| 233 | bool insitu = insitu_; |
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| 234 | setInsitu(false); |
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| 235 | CountedPtr< Scantable > out = getScantable(in, true); |
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| 236 | setInsitu(insitu); |
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| 237 | Table& tout = out->table(); |
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| 238 | ArrayColumn<Float> specColOut(tout,"SPECTRA"); |
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| 239 | ArrayColumn<uChar> flagColOut(tout,"FLAGTRA"); |
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| 240 | ArrayColumn<Float> tsysColOut(tout,"TSYS"); |
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[1140] | 241 | ScalarColumn<uInt> scanColOut(tout,"SCANNO"); |
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[1232] | 242 | ScalarColumn<Double> intColOut(tout, "INTERVAL"); |
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[1140] | 243 | Table tmp = in->table().sort("BEAMNO"); |
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[1069] | 244 | Block<String> cols(3); |
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| 245 | cols[0] = String("BEAMNO"); |
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| 246 | cols[1] = String("IFNO"); |
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| 247 | cols[2] = String("POLNO"); |
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[1078] | 248 | if ( avmode == "SCAN") { |
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| 249 | cols.resize(4); |
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| 250 | cols[3] = String("SCANNO"); |
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| 251 | } |
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[1069] | 252 | uInt outrowCount = 0; |
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| 253 | uChar userflag = 1 << 7; |
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[1140] | 254 | TableIterator iter(tmp, cols); |
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[1069] | 255 | while (!iter.pastEnd()) { |
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| 256 | Table subt = iter.table(); |
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| 257 | ROArrayColumn<Float> specCol, tsysCol; |
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| 258 | ROArrayColumn<uChar> flagCol; |
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[1232] | 259 | ROScalarColumn<Double> intCol(subt, "INTERVAL"); |
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[1069] | 260 | specCol.attach(subt,"SPECTRA"); |
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| 261 | flagCol.attach(subt,"FLAGTRA"); |
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| 262 | tsysCol.attach(subt,"TSYS"); |
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| 263 | tout.addRow(); |
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| 264 | TableCopy::copyRows(tout, subt, outrowCount, 0, 1); |
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[1140] | 265 | if ( avmode != "SCAN") { |
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| 266 | scanColOut.put(outrowCount, uInt(0)); |
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| 267 | } |
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[1069] | 268 | Vector<Float> tmp; |
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| 269 | specCol.get(0, tmp); |
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| 270 | uInt nchan = tmp.nelements(); |
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[1078] | 271 | // have to do channel by channel here as MaskedArrMath |
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| 272 | // doesn't have partialMedians |
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[1069] | 273 | Vector<uChar> flags = flagCol.getColumn(Slicer(Slice(0))); |
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| 274 | Vector<Float> outspec(nchan); |
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| 275 | Vector<uChar> outflag(nchan,0); |
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| 276 | Vector<Float> outtsys(1);/// @fixme when tsys is channel based |
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| 277 | for (uInt i=0; i<nchan; ++i) { |
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| 278 | Vector<Float> specs = specCol.getColumn(Slicer(Slice(i))); |
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| 279 | MaskedArray<Float> ma = maskedArray(specs,flags); |
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| 280 | outspec[i] = median(ma); |
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| 281 | if ( allEQ(ma.getMask(), False) ) |
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| 282 | outflag[i] = userflag;// flag data |
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| 283 | } |
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| 284 | outtsys[0] = median(tsysCol.getColumn()); |
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| 285 | specColOut.put(outrowCount, outspec); |
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| 286 | flagColOut.put(outrowCount, outflag); |
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| 287 | tsysColOut.put(outrowCount, outtsys); |
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[1232] | 288 | Double intsum = sum(intCol.getColumn()); |
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| 289 | intColOut.put(outrowCount, intsum); |
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[1069] | 290 | ++outrowCount; |
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| 291 | ++iter; |
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| 292 | } |
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| 293 | return out; |
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| 294 | } |
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| 295 | |
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[805] | 296 | CountedPtr< Scantable > STMath::getScantable(const CountedPtr< Scantable >& in, |
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| 297 | bool droprows) |
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[185] | 298 | { |
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[805] | 299 | if (insitu_) return in; |
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| 300 | else { |
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| 301 | // clone |
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| 302 | Scantable* tabp = new Scantable(*in, Bool(droprows)); |
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| 303 | return CountedPtr<Scantable>(tabp); |
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[234] | 304 | } |
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[805] | 305 | } |
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[234] | 306 | |
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[805] | 307 | CountedPtr< Scantable > STMath::unaryOperate( const CountedPtr< Scantable >& in, |
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| 308 | float val, |
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| 309 | const std::string& mode, |
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| 310 | bool tsys ) |
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| 311 | { |
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| 312 | CountedPtr< Scantable > out = getScantable(in, false); |
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| 313 | Table& tab = out->table(); |
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| 314 | ArrayColumn<Float> specCol(tab,"SPECTRA"); |
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| 315 | ArrayColumn<Float> tsysCol(tab,"TSYS"); |
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| 316 | for (uInt i=0; i<tab.nrow(); ++i) { |
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| 317 | Vector<Float> spec; |
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| 318 | Vector<Float> ts; |
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| 319 | specCol.get(i, spec); |
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| 320 | tsysCol.get(i, ts); |
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[1308] | 321 | if (mode == "MUL" || mode == "DIV") { |
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| 322 | if (mode == "DIV") val = 1.0/val; |
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[805] | 323 | spec *= val; |
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| 324 | specCol.put(i, spec); |
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| 325 | if ( tsys ) { |
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| 326 | ts *= val; |
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| 327 | tsysCol.put(i, ts); |
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| 328 | } |
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[1308] | 329 | } else if ( mode == "ADD" || mode == "SUB") { |
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| 330 | if (mode == "SUB") val *= -1.0; |
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[805] | 331 | spec += val; |
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| 332 | specCol.put(i, spec); |
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| 333 | if ( tsys ) { |
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| 334 | ts += val; |
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| 335 | tsysCol.put(i, ts); |
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| 336 | } |
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| 337 | } |
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[234] | 338 | } |
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[805] | 339 | return out; |
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| 340 | } |
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[234] | 341 | |
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[1308] | 342 | CountedPtr<Scantable> STMath::binaryOperate(const CountedPtr<Scantable>& left, |
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| 343 | const CountedPtr<Scantable>& right, |
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| 344 | const std::string& mode) |
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| 345 | { |
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| 346 | bool insitu = insitu_; |
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| 347 | if ( ! left->conformant(*right) ) { |
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| 348 | throw(AipsError("'left' and 'right' scantables are not conformant.")); |
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| 349 | } |
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| 350 | setInsitu(false); |
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| 351 | CountedPtr< Scantable > out = getScantable(left, false); |
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| 352 | setInsitu(insitu); |
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| 353 | Table& tout = out->table(); |
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| 354 | Block<String> coln(5); |
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| 355 | coln[0] = "SCANNO"; coln[1] = "CYCLENO"; coln[2] = "BEAMNO"; |
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| 356 | coln[3] = "IFNO"; coln[4] = "POLNO"; |
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| 357 | Table tmpl = tout.sort(coln); |
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| 358 | Table tmpr = right->table().sort(coln); |
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| 359 | ArrayColumn<Float> lspecCol(tmpl,"SPECTRA"); |
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| 360 | ROArrayColumn<Float> rspecCol(tmpr,"SPECTRA"); |
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| 361 | ArrayColumn<uChar> lflagCol(tmpl,"FLAGTRA"); |
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| 362 | ROArrayColumn<uChar> rflagCol(tmpr,"FLAGTRA"); |
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| 363 | |
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| 364 | for (uInt i=0; i<tout.nrow(); ++i) { |
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| 365 | Vector<Float> lspecvec, rspecvec; |
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| 366 | Vector<uChar> lflagvec, rflagvec; |
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| 367 | lspecvec = lspecCol(i); rspecvec = rspecCol(i); |
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| 368 | lflagvec = lflagCol(i); rflagvec = rflagCol(i); |
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| 369 | MaskedArray<Float> mleft = maskedArray(lspecvec, lflagvec); |
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| 370 | MaskedArray<Float> mright = maskedArray(rspecvec, rflagvec); |
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| 371 | if (mode == "ADD") { |
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| 372 | mleft += mright; |
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| 373 | } else if ( mode == "SUB") { |
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| 374 | mleft -= mright; |
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| 375 | } else if ( mode == "MUL") { |
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| 376 | mleft *= mright; |
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| 377 | } else if ( mode == "DIV") { |
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| 378 | mleft /= mright; |
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| 379 | } else { |
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| 380 | throw(AipsError("Illegal binary operator")); |
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| 381 | } |
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| 382 | lspecCol.put(i, mleft.getArray()); |
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| 383 | } |
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| 384 | return out; |
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| 385 | } |
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| 386 | |
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| 387 | |
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| 388 | |
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[805] | 389 | MaskedArray<Float> STMath::maskedArray( const Vector<Float>& s, |
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| 390 | const Vector<uChar>& f) |
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| 391 | { |
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| 392 | Vector<Bool> mask; |
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| 393 | mask.resize(f.shape()); |
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| 394 | convertArray(mask, f); |
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| 395 | return MaskedArray<Float>(s,!mask); |
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| 396 | } |
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[248] | 397 | |
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[805] | 398 | Vector<uChar> STMath::flagsFromMA(const MaskedArray<Float>& ma) |
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| 399 | { |
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| 400 | const Vector<Bool>& m = ma.getMask(); |
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| 401 | Vector<uChar> flags(m.shape()); |
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| 402 | convertArray(flags, !m); |
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| 403 | return flags; |
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| 404 | } |
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[234] | 405 | |
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[1066] | 406 | CountedPtr< Scantable > STMath::autoQuotient( const CountedPtr< Scantable >& in, |
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| 407 | const std::string & mode, |
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| 408 | bool preserve ) |
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[805] | 409 | { |
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| 410 | /// @todo make other modes available |
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| 411 | /// modes should be "nearest", "pair" |
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| 412 | // make this operation non insitu |
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| 413 | const Table& tin = in->table(); |
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| 414 | Table ons = tin(tin.col("SRCTYPE") == Int(0)); |
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| 415 | Table offs = tin(tin.col("SRCTYPE") == Int(1)); |
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| 416 | if ( offs.nrow() == 0 ) |
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| 417 | throw(AipsError("No 'off' scans present.")); |
---|
| 418 | // put all "on" scans into output table |
---|
[701] | 419 | |
---|
[805] | 420 | bool insitu = insitu_; |
---|
| 421 | setInsitu(false); |
---|
| 422 | CountedPtr< Scantable > out = getScantable(in, true); |
---|
| 423 | setInsitu(insitu); |
---|
| 424 | Table& tout = out->table(); |
---|
[248] | 425 | |
---|
[805] | 426 | TableCopy::copyRows(tout, ons); |
---|
| 427 | TableRow row(tout); |
---|
| 428 | ROScalarColumn<Double> offtimeCol(offs, "TIME"); |
---|
| 429 | ArrayColumn<Float> outspecCol(tout, "SPECTRA"); |
---|
| 430 | ROArrayColumn<Float> outtsysCol(tout, "TSYS"); |
---|
| 431 | ArrayColumn<uChar> outflagCol(tout, "FLAGTRA"); |
---|
| 432 | for (uInt i=0; i < tout.nrow(); ++i) { |
---|
| 433 | const TableRecord& rec = row.get(i); |
---|
| 434 | Double ontime = rec.asDouble("TIME"); |
---|
[1321] | 435 | Table presel = offs(offs.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
| 436 | && offs.col("IFNO") == Int(rec.asuInt("IFNO")) |
---|
| 437 | && offs.col("POLNO") == Int(rec.asuInt("POLNO")) ); |
---|
| 438 | ROScalarColumn<Double> offtimeCol(presel, "TIME"); |
---|
| 439 | |
---|
[805] | 440 | Double mindeltat = min(abs(offtimeCol.getColumn() - ontime)); |
---|
[1259] | 441 | // Timestamp may vary within a cycle ???!!! |
---|
[1321] | 442 | // increase this by 0.01 sec in case of rounding errors... |
---|
[1259] | 443 | // There might be a better way to do this. |
---|
[1321] | 444 | // fix to this fix. TIME is MJD, so 1.0d not 1.0s |
---|
| 445 | mindeltat += 0.01/24./60./60.; |
---|
| 446 | Table sel = presel( abs(presel.col("TIME")-ontime) <= mindeltat); |
---|
[780] | 447 | |
---|
[1259] | 448 | if ( sel.nrow() < 1 ) { |
---|
| 449 | throw(AipsError("No closest in time found... This could be a rounding " |
---|
| 450 | "issue. Try quotient instead.")); |
---|
| 451 | } |
---|
[805] | 452 | TableRow offrow(sel); |
---|
| 453 | const TableRecord& offrec = offrow.get(0);//should only be one row |
---|
| 454 | RORecordFieldPtr< Array<Float> > specoff(offrec, "SPECTRA"); |
---|
| 455 | RORecordFieldPtr< Array<Float> > tsysoff(offrec, "TSYS"); |
---|
| 456 | RORecordFieldPtr< Array<uChar> > flagoff(offrec, "FLAGTRA"); |
---|
| 457 | /// @fixme this assumes tsys is a scalar not vector |
---|
| 458 | Float tsysoffscalar = (*tsysoff)(IPosition(1,0)); |
---|
| 459 | Vector<Float> specon, tsyson; |
---|
| 460 | outtsysCol.get(i, tsyson); |
---|
| 461 | outspecCol.get(i, specon); |
---|
| 462 | Vector<uChar> flagon; |
---|
| 463 | outflagCol.get(i, flagon); |
---|
| 464 | MaskedArray<Float> mon = maskedArray(specon, flagon); |
---|
| 465 | MaskedArray<Float> moff = maskedArray(*specoff, *flagoff); |
---|
| 466 | MaskedArray<Float> quot = (tsysoffscalar * mon / moff); |
---|
| 467 | if (preserve) { |
---|
| 468 | quot -= tsysoffscalar; |
---|
| 469 | } else { |
---|
| 470 | quot -= tsyson[0]; |
---|
[701] | 471 | } |
---|
[805] | 472 | outspecCol.put(i, quot.getArray()); |
---|
| 473 | outflagCol.put(i, flagsFromMA(quot)); |
---|
| 474 | } |
---|
[926] | 475 | // renumber scanno |
---|
| 476 | TableIterator it(tout, "SCANNO"); |
---|
| 477 | uInt i = 0; |
---|
| 478 | while ( !it.pastEnd() ) { |
---|
| 479 | Table t = it.table(); |
---|
| 480 | TableVector<uInt> vec(t, "SCANNO"); |
---|
| 481 | vec = i; |
---|
| 482 | ++i; |
---|
| 483 | ++it; |
---|
| 484 | } |
---|
[805] | 485 | return out; |
---|
| 486 | } |
---|
[234] | 487 | |
---|
[1066] | 488 | |
---|
| 489 | CountedPtr< Scantable > STMath::quotient( const CountedPtr< Scantable > & on, |
---|
| 490 | const CountedPtr< Scantable > & off, |
---|
| 491 | bool preserve ) |
---|
| 492 | { |
---|
| 493 | bool insitu = insitu_; |
---|
[1069] | 494 | if ( ! on->conformant(*off) ) { |
---|
| 495 | throw(AipsError("'on' and 'off' scantables are not conformant.")); |
---|
| 496 | } |
---|
[1066] | 497 | setInsitu(false); |
---|
| 498 | CountedPtr< Scantable > out = getScantable(on, false); |
---|
| 499 | setInsitu(insitu); |
---|
| 500 | Table& tout = out->table(); |
---|
| 501 | const Table& toff = off->table(); |
---|
| 502 | TableIterator sit(tout, "SCANNO"); |
---|
| 503 | TableIterator s2it(toff, "SCANNO"); |
---|
| 504 | while ( !sit.pastEnd() ) { |
---|
| 505 | Table ton = sit.table(); |
---|
| 506 | TableRow row(ton); |
---|
| 507 | Table t = s2it.table(); |
---|
| 508 | ArrayColumn<Float> outspecCol(ton, "SPECTRA"); |
---|
| 509 | ROArrayColumn<Float> outtsysCol(ton, "TSYS"); |
---|
| 510 | ArrayColumn<uChar> outflagCol(ton, "FLAGTRA"); |
---|
| 511 | for (uInt i=0; i < ton.nrow(); ++i) { |
---|
| 512 | const TableRecord& rec = row.get(i); |
---|
| 513 | Table offsel = t( t.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
| 514 | && t.col("IFNO") == Int(rec.asuInt("IFNO")) |
---|
| 515 | && t.col("POLNO") == Int(rec.asuInt("POLNO")) ); |
---|
[1145] | 516 | if ( offsel.nrow() == 0 ) |
---|
| 517 | throw AipsError("STMath::quotient: no matching off"); |
---|
[1066] | 518 | TableRow offrow(offsel); |
---|
| 519 | const TableRecord& offrec = offrow.get(0);//should be ncycles - take first |
---|
| 520 | RORecordFieldPtr< Array<Float> > specoff(offrec, "SPECTRA"); |
---|
| 521 | RORecordFieldPtr< Array<Float> > tsysoff(offrec, "TSYS"); |
---|
| 522 | RORecordFieldPtr< Array<uChar> > flagoff(offrec, "FLAGTRA"); |
---|
| 523 | Float tsysoffscalar = (*tsysoff)(IPosition(1,0)); |
---|
| 524 | Vector<Float> specon, tsyson; |
---|
| 525 | outtsysCol.get(i, tsyson); |
---|
| 526 | outspecCol.get(i, specon); |
---|
| 527 | Vector<uChar> flagon; |
---|
| 528 | outflagCol.get(i, flagon); |
---|
| 529 | MaskedArray<Float> mon = maskedArray(specon, flagon); |
---|
| 530 | MaskedArray<Float> moff = maskedArray(*specoff, *flagoff); |
---|
| 531 | MaskedArray<Float> quot = (tsysoffscalar * mon / moff); |
---|
| 532 | if (preserve) { |
---|
| 533 | quot -= tsysoffscalar; |
---|
| 534 | } else { |
---|
| 535 | quot -= tsyson[0]; |
---|
| 536 | } |
---|
| 537 | outspecCol.put(i, quot.getArray()); |
---|
| 538 | outflagCol.put(i, flagsFromMA(quot)); |
---|
| 539 | } |
---|
| 540 | ++sit; |
---|
| 541 | ++s2it; |
---|
| 542 | // take the first off for each on scan which doesn't have a |
---|
| 543 | // matching off scan |
---|
| 544 | // non <= noff: matching pairs, non > noff matching pairs then first off |
---|
| 545 | if ( s2it.pastEnd() ) s2it.reset(); |
---|
| 546 | } |
---|
| 547 | return out; |
---|
| 548 | } |
---|
| 549 | |
---|
[1387] | 550 | // dototalpower (migration of GBTIDL procedure dototalpower.pro) |
---|
| 551 | // calibrate the CAL on-off pair. It calculate Tsys and average CAL on-off subintegrations |
---|
| 552 | // do it for each cycles in a specific scan. |
---|
| 553 | CountedPtr< Scantable > STMath::dototalpower( const CountedPtr< Scantable >& calon, |
---|
| 554 | const CountedPtr< Scantable >& caloff, Float tcal ) |
---|
| 555 | { |
---|
| 556 | if ( ! calon->conformant(*caloff) ) { |
---|
| 557 | throw(AipsError("'CAL on' and 'CAL off' scantables are not conformant.")); |
---|
| 558 | } |
---|
| 559 | setInsitu(false); |
---|
| 560 | CountedPtr< Scantable > out = getScantable(caloff, false); |
---|
| 561 | Table& tout = out->table(); |
---|
| 562 | const Table& tcon = calon->table(); |
---|
| 563 | Vector<Float> tcalout; |
---|
| 564 | Vector<Float> tcalout2; //debug |
---|
[1066] | 565 | |
---|
[1387] | 566 | if ( tout.nrow() != tcon.nrow() ) { |
---|
| 567 | throw(AipsError("Mismatch in number of rows to form cal on - off pair.")); |
---|
| 568 | } |
---|
| 569 | // iteration by scanno or cycle no. |
---|
| 570 | TableIterator sit(tout, "SCANNO"); |
---|
| 571 | TableIterator s2it(tcon, "SCANNO"); |
---|
| 572 | while ( !sit.pastEnd() ) { |
---|
| 573 | Table toff = sit.table(); |
---|
| 574 | TableRow row(toff); |
---|
| 575 | Table t = s2it.table(); |
---|
| 576 | ScalarColumn<Double> outintCol(toff, "INTERVAL"); |
---|
| 577 | ArrayColumn<Float> outspecCol(toff, "SPECTRA"); |
---|
| 578 | ArrayColumn<Float> outtsysCol(toff, "TSYS"); |
---|
| 579 | ArrayColumn<uChar> outflagCol(toff, "FLAGTRA"); |
---|
| 580 | ROScalarColumn<uInt> outtcalIdCol(toff, "TCAL_ID"); |
---|
| 581 | ROScalarColumn<uInt> outpolCol(toff, "POLNO"); |
---|
| 582 | ROScalarColumn<Double> onintCol(t, "INTERVAL"); |
---|
| 583 | ROArrayColumn<Float> onspecCol(t, "SPECTRA"); |
---|
| 584 | ROArrayColumn<Float> ontsysCol(t, "TSYS"); |
---|
| 585 | ROArrayColumn<uChar> onflagCol(t, "FLAGTRA"); |
---|
| 586 | //ROScalarColumn<uInt> ontcalIdCol(t, "TCAL_ID"); |
---|
| 587 | |
---|
| 588 | for (uInt i=0; i < toff.nrow(); ++i) { |
---|
| 589 | //skip these checks -> assumes the data order are the same between the cal on off pairs |
---|
| 590 | // |
---|
| 591 | Vector<Float> specCalon, specCaloff; |
---|
| 592 | // to store scalar (mean) tsys |
---|
| 593 | Vector<Float> tsysout(1); |
---|
| 594 | uInt tcalId, polno; |
---|
| 595 | Double offint, onint; |
---|
| 596 | outpolCol.get(i, polno); |
---|
| 597 | outspecCol.get(i, specCaloff); |
---|
| 598 | onspecCol.get(i, specCalon); |
---|
| 599 | Vector<uChar> flagCaloff, flagCalon; |
---|
| 600 | outflagCol.get(i, flagCaloff); |
---|
| 601 | onflagCol.get(i, flagCalon); |
---|
| 602 | outtcalIdCol.get(i, tcalId); |
---|
| 603 | outintCol.get(i, offint); |
---|
| 604 | onintCol.get(i, onint); |
---|
| 605 | // caluculate mean Tsys |
---|
| 606 | uInt nchan = specCaloff.nelements(); |
---|
| 607 | // percentage of edge cut off |
---|
| 608 | uInt pc = 10; |
---|
| 609 | uInt bchan = nchan/pc; |
---|
| 610 | uInt echan = nchan-bchan; |
---|
| 611 | |
---|
| 612 | Slicer chansl(IPosition(1,bchan-1), IPosition(1,echan-1), IPosition(1,1),Slicer::endIsLast); |
---|
| 613 | Vector<Float> testsubsp = specCaloff(chansl); |
---|
| 614 | MaskedArray<Float> spoff = maskedArray( specCaloff(chansl),flagCaloff(chansl) ); |
---|
| 615 | MaskedArray<Float> spon = maskedArray( specCalon(chansl),flagCalon(chansl) ); |
---|
| 616 | MaskedArray<Float> spdiff = spon-spoff; |
---|
| 617 | uInt noff = spoff.nelementsValid(); |
---|
| 618 | //uInt non = spon.nelementsValid(); |
---|
| 619 | uInt ndiff = spdiff.nelementsValid(); |
---|
| 620 | Float meantsys; |
---|
| 621 | |
---|
| 622 | /** |
---|
| 623 | Double subspec, subdiff; |
---|
| 624 | uInt usednchan; |
---|
| 625 | subspec = 0; |
---|
| 626 | subdiff = 0; |
---|
| 627 | usednchan = 0; |
---|
| 628 | for(uInt k=(bchan-1); k<echan; k++) { |
---|
| 629 | subspec += specCaloff[k]; |
---|
| 630 | subdiff += static_cast<Double>(specCalon[k]-specCaloff[k]); |
---|
| 631 | ++usednchan; |
---|
| 632 | } |
---|
| 633 | **/ |
---|
| 634 | // get tcal if input tcal <= 0 |
---|
| 635 | String tcalt; |
---|
| 636 | Float tcalUsed; |
---|
| 637 | tcalUsed = tcal; |
---|
| 638 | if ( tcal <= 0.0 ) { |
---|
| 639 | caloff->tcal().getEntry(tcalt, tcalout, tcalId); |
---|
| 640 | if (polno<=3) { |
---|
| 641 | tcalUsed = tcalout[polno]; |
---|
| 642 | } |
---|
| 643 | else { |
---|
| 644 | tcalUsed = tcalout[0]; |
---|
| 645 | } |
---|
| 646 | } |
---|
| 647 | |
---|
| 648 | Float meanoff; |
---|
| 649 | Float meandiff; |
---|
| 650 | if (noff && ndiff) { |
---|
| 651 | //Debug |
---|
| 652 | //if(noff!=ndiff) cerr<<"noff and ndiff is not equal"<<endl; |
---|
| 653 | meanoff = sum(spoff)/noff; |
---|
| 654 | meandiff = sum(spdiff)/ndiff; |
---|
| 655 | meantsys= (meanoff/meandiff )*tcalUsed + tcalUsed/2; |
---|
| 656 | } |
---|
| 657 | else { |
---|
| 658 | meantsys=1; |
---|
| 659 | } |
---|
| 660 | |
---|
| 661 | tsysout[0] = Float(meantsys); |
---|
| 662 | MaskedArray<Float> mcaloff = maskedArray(specCaloff, flagCaloff); |
---|
| 663 | MaskedArray<Float> mcalon = maskedArray(specCalon, flagCalon); |
---|
| 664 | MaskedArray<Float> sig = Float(0.5) * (mcaloff + mcalon); |
---|
| 665 | //uInt ncaloff = mcaloff.nelementsValid(); |
---|
| 666 | //uInt ncalon = mcalon.nelementsValid(); |
---|
| 667 | |
---|
| 668 | outintCol.put(i, offint+onint); |
---|
| 669 | outspecCol.put(i, sig.getArray()); |
---|
| 670 | outflagCol.put(i, flagsFromMA(sig)); |
---|
| 671 | outtsysCol.put(i, tsysout); |
---|
| 672 | } |
---|
| 673 | ++sit; |
---|
| 674 | ++s2it; |
---|
| 675 | } |
---|
| 676 | return out; |
---|
| 677 | } |
---|
| 678 | |
---|
| 679 | //dosigref - migrated from GBT IDL's dosigref.pro, do calibration of position switch |
---|
| 680 | // observatiions. |
---|
| 681 | // input: sig and ref scantables, and an optional boxcar smoothing width(default width=0, |
---|
| 682 | // no smoothing). |
---|
| 683 | // output: resultant scantable [= (sig-ref/ref)*tsys] |
---|
| 684 | CountedPtr< Scantable > STMath::dosigref( const CountedPtr < Scantable >& sig, |
---|
| 685 | const CountedPtr < Scantable >& ref, |
---|
| 686 | int smoothref, |
---|
| 687 | casa::Float tsysv, |
---|
| 688 | casa::Float tau ) |
---|
| 689 | { |
---|
| 690 | if ( ! ref->conformant(*sig) ) { |
---|
| 691 | throw(AipsError("'sig' and 'ref' scantables are not conformant.")); |
---|
| 692 | } |
---|
| 693 | setInsitu(false); |
---|
| 694 | CountedPtr< Scantable > out = getScantable(sig, false); |
---|
| 695 | CountedPtr< Scantable > smref; |
---|
| 696 | if ( smoothref > 1 ) { |
---|
| 697 | float fsmoothref = static_cast<float>(smoothref); |
---|
| 698 | std::string inkernel = "boxcar"; |
---|
| 699 | smref = smooth(ref, inkernel, fsmoothref ); |
---|
| 700 | ostringstream oss; |
---|
| 701 | oss<<"Applied smoothing of "<<fsmoothref<<" on the reference."<<endl; |
---|
| 702 | pushLog(String(oss)); |
---|
| 703 | } |
---|
| 704 | else { |
---|
| 705 | smref = ref; |
---|
| 706 | } |
---|
| 707 | Table& tout = out->table(); |
---|
| 708 | const Table& tref = smref->table(); |
---|
| 709 | if ( tout.nrow() != tref.nrow() ) { |
---|
| 710 | throw(AipsError("Mismatch in number of rows to form on-source and reference pair.")); |
---|
| 711 | } |
---|
| 712 | // iteration by scanno? or cycle no. |
---|
| 713 | TableIterator sit(tout, "SCANNO"); |
---|
| 714 | TableIterator s2it(tref, "SCANNO"); |
---|
| 715 | while ( !sit.pastEnd() ) { |
---|
| 716 | Table ton = sit.table(); |
---|
| 717 | Table t = s2it.table(); |
---|
| 718 | ScalarColumn<Double> outintCol(ton, "INTERVAL"); |
---|
| 719 | ArrayColumn<Float> outspecCol(ton, "SPECTRA"); |
---|
| 720 | ArrayColumn<Float> outtsysCol(ton, "TSYS"); |
---|
| 721 | ArrayColumn<uChar> outflagCol(ton, "FLAGTRA"); |
---|
| 722 | ArrayColumn<Float> refspecCol(t, "SPECTRA"); |
---|
| 723 | ROScalarColumn<Double> refintCol(t, "INTERVAL"); |
---|
| 724 | ROArrayColumn<Float> reftsysCol(t, "TSYS"); |
---|
| 725 | ArrayColumn<uChar> refflagCol(t, "FLAGTRA"); |
---|
| 726 | ROScalarColumn<Float> refelevCol(t, "ELEVATION"); |
---|
| 727 | for (uInt i=0; i < ton.nrow(); ++i) { |
---|
| 728 | |
---|
| 729 | Double onint, refint; |
---|
| 730 | Vector<Float> specon, specref; |
---|
| 731 | // to store scalar (mean) tsys |
---|
| 732 | Vector<Float> tsysref; |
---|
| 733 | outintCol.get(i, onint); |
---|
| 734 | refintCol.get(i, refint); |
---|
| 735 | outspecCol.get(i, specon); |
---|
| 736 | refspecCol.get(i, specref); |
---|
| 737 | Vector<uChar> flagref, flagon; |
---|
| 738 | outflagCol.get(i, flagon); |
---|
| 739 | refflagCol.get(i, flagref); |
---|
| 740 | reftsysCol.get(i, tsysref); |
---|
| 741 | |
---|
| 742 | Float tsysrefscalar; |
---|
| 743 | if ( tsysv > 0.0 ) { |
---|
| 744 | ostringstream oss; |
---|
| 745 | Float elev; |
---|
| 746 | refelevCol.get(i, elev); |
---|
| 747 | oss << "user specified Tsys = " << tsysv; |
---|
| 748 | // do recalc elevation if EL = 0 |
---|
| 749 | if ( elev == 0 ) { |
---|
| 750 | throw(AipsError("EL=0, elevation data is missing.")); |
---|
| 751 | } else { |
---|
| 752 | if ( tau <= 0.0 ) { |
---|
| 753 | throw(AipsError("Valid tau is not supplied.")); |
---|
| 754 | } else { |
---|
| 755 | tsysrefscalar = tsysv * exp(tau/elev); |
---|
| 756 | } |
---|
| 757 | } |
---|
| 758 | oss << ", corrected (for El) tsys= "<<tsysrefscalar; |
---|
| 759 | pushLog(String(oss)); |
---|
| 760 | } |
---|
| 761 | else { |
---|
| 762 | tsysrefscalar = tsysref[0]; |
---|
| 763 | } |
---|
| 764 | //get quotient spectrum |
---|
| 765 | MaskedArray<Float> mref = maskedArray(specref, flagref); |
---|
| 766 | MaskedArray<Float> mon = maskedArray(specon, flagon); |
---|
| 767 | MaskedArray<Float> specres = tsysrefscalar*((mon - mref)/mref); |
---|
| 768 | Double resint = onint*refint*smoothref/(onint+refint*smoothref); |
---|
| 769 | |
---|
| 770 | //Debug |
---|
| 771 | //cerr<<"Tsys used="<<tsysrefscalar<<endl; |
---|
| 772 | // fill the result, replay signal tsys by reference tsys |
---|
| 773 | outintCol.put(i, resint); |
---|
| 774 | outspecCol.put(i, specres.getArray()); |
---|
| 775 | outflagCol.put(i, flagsFromMA(specres)); |
---|
| 776 | outtsysCol.put(i, tsysref); |
---|
| 777 | } |
---|
| 778 | ++sit; |
---|
| 779 | ++s2it; |
---|
| 780 | } |
---|
| 781 | return out; |
---|
| 782 | } |
---|
| 783 | |
---|
| 784 | CountedPtr< Scantable > STMath::donod(const casa::CountedPtr<Scantable>& s, |
---|
| 785 | const std::vector<int>& scans, |
---|
| 786 | int smoothref, |
---|
| 787 | casa::Float tsysv, |
---|
| 788 | casa::Float tau, |
---|
| 789 | casa::Float tcal ) |
---|
| 790 | |
---|
| 791 | { |
---|
| 792 | setInsitu(false); |
---|
| 793 | STSelector sel; |
---|
| 794 | std::vector<int> scan1, scan2, beams; |
---|
| 795 | std::vector< vector<int> > scanpair; |
---|
| 796 | std::vector<string> calstate; |
---|
| 797 | String msg; |
---|
| 798 | |
---|
| 799 | CountedPtr< Scantable > s1b1on, s1b1off, s1b2on, s1b2off; |
---|
| 800 | CountedPtr< Scantable > s2b1on, s2b1off, s2b2on, s2b2off; |
---|
| 801 | |
---|
| 802 | std::vector< CountedPtr< Scantable > > sctables; |
---|
| 803 | sctables.push_back(s1b1on); |
---|
| 804 | sctables.push_back(s1b1off); |
---|
| 805 | sctables.push_back(s1b2on); |
---|
| 806 | sctables.push_back(s1b2off); |
---|
| 807 | sctables.push_back(s2b1on); |
---|
| 808 | sctables.push_back(s2b1off); |
---|
| 809 | sctables.push_back(s2b2on); |
---|
| 810 | sctables.push_back(s2b2off); |
---|
| 811 | |
---|
| 812 | //check scanlist |
---|
| 813 | int n=s->checkScanInfo(scans); |
---|
| 814 | if (n==1) { |
---|
| 815 | throw(AipsError("Incorrect scan pairs. ")); |
---|
| 816 | } |
---|
| 817 | |
---|
| 818 | // Assume scans contain only a pair of consecutive scan numbers. |
---|
| 819 | // It is assumed that first beam, b1, is on target. |
---|
| 820 | // There is no check if the first beam is on or not. |
---|
| 821 | if ( scans.size()==1 ) { |
---|
| 822 | scan1.push_back(scans[0]); |
---|
| 823 | scan2.push_back(scans[0]+1); |
---|
| 824 | } else if ( scans.size()==2 ) { |
---|
| 825 | scan1.push_back(scans[0]); |
---|
| 826 | scan2.push_back(scans[1]); |
---|
| 827 | } else { |
---|
| 828 | if ( scans.size()%2 == 0 ) { |
---|
| 829 | for (uInt i=0; i<scans.size(); i++) { |
---|
| 830 | if (i%2 == 0) { |
---|
| 831 | scan1.push_back(scans[i]); |
---|
| 832 | } |
---|
| 833 | else { |
---|
| 834 | scan2.push_back(scans[i]); |
---|
| 835 | } |
---|
| 836 | } |
---|
| 837 | } else { |
---|
| 838 | throw(AipsError("Odd numbers of scans, cannot form pairs.")); |
---|
| 839 | } |
---|
| 840 | } |
---|
| 841 | scanpair.push_back(scan1); |
---|
| 842 | scanpair.push_back(scan2); |
---|
| 843 | calstate.push_back("*calon"); |
---|
| 844 | calstate.push_back("*[^calon]"); |
---|
| 845 | CountedPtr< Scantable > ws = getScantable(s, false); |
---|
| 846 | uInt l=0; |
---|
| 847 | while ( l < sctables.size() ) { |
---|
| 848 | for (uInt i=0; i < 2; i++) { |
---|
| 849 | for (uInt j=0; j < 2; j++) { |
---|
| 850 | for (uInt k=0; k < 2; k++) { |
---|
| 851 | sel.reset(); |
---|
| 852 | sel.setScans(scanpair[i]); |
---|
| 853 | sel.setName(calstate[k]); |
---|
| 854 | beams.clear(); |
---|
| 855 | beams.push_back(j); |
---|
| 856 | sel.setBeams(beams); |
---|
| 857 | ws->setSelection(sel); |
---|
| 858 | sctables[l]= getScantable(ws, false); |
---|
| 859 | l++; |
---|
| 860 | } |
---|
| 861 | } |
---|
| 862 | } |
---|
| 863 | } |
---|
| 864 | |
---|
| 865 | // replace here by splitData or getData functionality |
---|
| 866 | CountedPtr< Scantable > sig1; |
---|
| 867 | CountedPtr< Scantable > ref1; |
---|
| 868 | CountedPtr< Scantable > sig2; |
---|
| 869 | CountedPtr< Scantable > ref2; |
---|
| 870 | CountedPtr< Scantable > calb1; |
---|
| 871 | CountedPtr< Scantable > calb2; |
---|
| 872 | |
---|
| 873 | msg=String("Processing dototalpower for subset of the data"); |
---|
| 874 | ostringstream oss1; |
---|
| 875 | oss1 << msg << endl; |
---|
| 876 | pushLog(String(oss1)); |
---|
| 877 | // Debug for IRC CS data |
---|
| 878 | //float tcal1=7.0; |
---|
| 879 | //float tcal2=4.0; |
---|
| 880 | sig1 = dototalpower(sctables[0], sctables[1], tcal=tcal); |
---|
| 881 | ref1 = dototalpower(sctables[2], sctables[3], tcal=tcal); |
---|
| 882 | ref2 = dototalpower(sctables[4], sctables[5], tcal=tcal); |
---|
| 883 | sig2 = dototalpower(sctables[6], sctables[7], tcal=tcal); |
---|
| 884 | |
---|
| 885 | // correction of user-specified tsys for elevation here |
---|
| 886 | |
---|
| 887 | // dosigref calibration |
---|
| 888 | msg=String("Processing dosigref for subset of the data"); |
---|
| 889 | ostringstream oss2; |
---|
| 890 | oss2 << msg << endl; |
---|
| 891 | pushLog(String(oss2)); |
---|
| 892 | calb1=dosigref(sig1,ref2,smoothref,tsysv,tau); |
---|
| 893 | calb2=dosigref(sig2,ref1,smoothref,tsysv,tau); |
---|
| 894 | |
---|
| 895 | // iteration by scanno or cycle no. |
---|
| 896 | Table& tcalb1 = calb1->table(); |
---|
| 897 | Table& tcalb2 = calb2->table(); |
---|
| 898 | TableIterator sit(tcalb1, "SCANNO"); |
---|
| 899 | TableIterator s2it(tcalb2, "SCANNO"); |
---|
| 900 | while ( !sit.pastEnd() ) { |
---|
| 901 | Table t1 = sit.table(); |
---|
| 902 | Table t2= s2it.table(); |
---|
| 903 | ArrayColumn<Float> outspecCol(t1, "SPECTRA"); |
---|
| 904 | ArrayColumn<Float> outtsysCol(t1, "TSYS"); |
---|
| 905 | ArrayColumn<uChar> outflagCol(t1, "FLAGTRA"); |
---|
| 906 | ScalarColumn<Double> outintCol(t1, "INTERVAL"); |
---|
| 907 | ArrayColumn<Float> t2specCol(t2, "SPECTRA"); |
---|
| 908 | ROArrayColumn<Float> t2tsysCol(t2, "TSYS"); |
---|
| 909 | ArrayColumn<uChar> t2flagCol(t2, "FLAGTRA"); |
---|
| 910 | ROScalarColumn<Double> t2intCol(t2, "INTERVAL"); |
---|
| 911 | for (uInt i=0; i < t1.nrow(); ++i) { |
---|
| 912 | Vector<Float> spec1, spec2; |
---|
| 913 | // to store scalar (mean) tsys |
---|
| 914 | Vector<Float> tsys1, tsys2; |
---|
| 915 | Vector<uChar> flag1, flag2; |
---|
| 916 | Double tint1, tint2; |
---|
| 917 | outspecCol.get(i, spec1); |
---|
| 918 | t2specCol.get(i, spec2); |
---|
| 919 | outflagCol.get(i, flag1); |
---|
| 920 | t2flagCol.get(i, flag2); |
---|
| 921 | outtsysCol.get(i, tsys1); |
---|
| 922 | t2tsysCol.get(i, tsys2); |
---|
| 923 | outintCol.get(i, tint1); |
---|
| 924 | t2intCol.get(i, tint2); |
---|
| 925 | // average |
---|
| 926 | // assume scalar tsys for weights |
---|
| 927 | Float wt1, wt2, tsyssq1, tsyssq2; |
---|
| 928 | tsyssq1 = tsys1[0]*tsys1[0]; |
---|
| 929 | tsyssq2 = tsys2[0]*tsys2[0]; |
---|
| 930 | wt1 = Float(tint1)/tsyssq1; |
---|
| 931 | wt2 = Float(tint2)/tsyssq2; |
---|
| 932 | Float invsumwt=1/(wt1+wt2); |
---|
| 933 | MaskedArray<Float> mspec1 = maskedArray(spec1, flag1); |
---|
| 934 | MaskedArray<Float> mspec2 = maskedArray(spec2, flag2); |
---|
| 935 | MaskedArray<Float> avspec = invsumwt * (wt1*mspec1 + wt2*mspec2); |
---|
| 936 | //Array<Float> avtsys = Float(0.5) * (tsys1 + tsys2); |
---|
| 937 | // cerr<< "Tsys1="<<tsys1<<" Tsys2="<<tsys2<<endl; |
---|
| 938 | tsys1[0] = sqrt(tsyssq1 + tsyssq2); |
---|
| 939 | Array<Float> avtsys = tsys1; |
---|
| 940 | |
---|
| 941 | outspecCol.put(i, avspec.getArray()); |
---|
| 942 | outflagCol.put(i, flagsFromMA(avspec)); |
---|
| 943 | outtsysCol.put(i, avtsys); |
---|
| 944 | } |
---|
| 945 | ++sit; |
---|
| 946 | ++s2it; |
---|
| 947 | } |
---|
| 948 | return calb1; |
---|
| 949 | } |
---|
| 950 | |
---|
| 951 | //GBTIDL version of frequency switched data calibration |
---|
| 952 | CountedPtr< Scantable > STMath::dofs( const CountedPtr< Scantable >& s, |
---|
| 953 | const std::vector<int>& scans, |
---|
| 954 | int smoothref, |
---|
| 955 | casa::Float tsysv, |
---|
| 956 | casa::Float tau, |
---|
| 957 | casa::Float tcal ) |
---|
| 958 | { |
---|
| 959 | |
---|
[1446] | 960 | |
---|
[1387] | 961 | STSelector sel; |
---|
| 962 | CountedPtr< Scantable > ws = getScantable(s, false); |
---|
| 963 | CountedPtr< Scantable > sig, sigwcal, ref, refwcal; |
---|
[1446] | 964 | CountedPtr< Scantable > calsig, calref, out, out1, out2; |
---|
| 965 | Bool nofold=False; |
---|
[1387] | 966 | |
---|
| 967 | //split the data |
---|
| 968 | sel.setName("*_fs"); |
---|
| 969 | ws->setSelection(sel); |
---|
| 970 | sig = getScantable(ws,false); |
---|
| 971 | sel.reset(); |
---|
| 972 | sel.setName("*_fs_calon"); |
---|
| 973 | ws->setSelection(sel); |
---|
| 974 | sigwcal = getScantable(ws,false); |
---|
| 975 | sel.reset(); |
---|
| 976 | sel.setName("*_fsr"); |
---|
| 977 | ws->setSelection(sel); |
---|
| 978 | ref = getScantable(ws,false); |
---|
| 979 | sel.reset(); |
---|
| 980 | sel.setName("*_fsr_calon"); |
---|
| 981 | ws->setSelection(sel); |
---|
| 982 | refwcal = getScantable(ws,false); |
---|
| 983 | |
---|
| 984 | calsig = dototalpower(sigwcal, sig, tcal=tcal); |
---|
| 985 | calref = dototalpower(refwcal, ref, tcal=tcal); |
---|
| 986 | |
---|
[1446] | 987 | out1=dosigref(calsig,calref,smoothref,tsysv,tau); |
---|
| 988 | out2=dosigref(calref,calsig,smoothref,tsysv,tau); |
---|
[1387] | 989 | |
---|
[1446] | 990 | Table& tabout1=out1->table(); |
---|
| 991 | Table& tabout2=out2->table(); |
---|
| 992 | ROScalarColumn<uInt> freqidCol1(tabout1, "FREQ_ID"); |
---|
| 993 | ROScalarColumn<uInt> freqidCol2(tabout2, "FREQ_ID"); |
---|
| 994 | ROArrayColumn<Float> specCol(tabout2, "SPECTRA"); |
---|
| 995 | Vector<Float> spec; specCol.get(0, spec); |
---|
| 996 | uInt nchan = spec.nelements(); |
---|
| 997 | uInt freqid1; freqidCol1.get(0,freqid1); |
---|
| 998 | uInt freqid2; freqidCol2.get(0,freqid2); |
---|
| 999 | Double rp1, rp2, rv1, rv2, inc1, inc2; |
---|
| 1000 | out1->frequencies().getEntry(rp1, rv1, inc1, freqid1); |
---|
| 1001 | out2->frequencies().getEntry(rp2, rv2, inc2, freqid2); |
---|
| 1002 | if (rp1==rp2) { |
---|
| 1003 | Double foffset = rv1 - rv2; |
---|
| 1004 | uInt choffset = static_cast<uInt>(foffset/abs(inc2)); |
---|
| 1005 | if (choffset >= nchan) { |
---|
| 1006 | cerr<<"out-band frequency switching, no folding"<<endl; |
---|
| 1007 | nofold = True; |
---|
| 1008 | } |
---|
| 1009 | } |
---|
| 1010 | |
---|
| 1011 | if (nofold) { |
---|
| 1012 | std::vector< CountedPtr< Scantable > > tabs; |
---|
| 1013 | tabs.push_back(out1); |
---|
| 1014 | tabs.push_back(out2); |
---|
| 1015 | out = merge(tabs); |
---|
| 1016 | } |
---|
| 1017 | else { //folding is not implemented yet |
---|
| 1018 | out = out1; |
---|
| 1019 | } |
---|
| 1020 | |
---|
[1387] | 1021 | return out; |
---|
| 1022 | } |
---|
| 1023 | |
---|
[805] | 1024 | CountedPtr< Scantable > STMath::freqSwitch( const CountedPtr< Scantable >& in ) |
---|
| 1025 | { |
---|
| 1026 | // make copy or reference |
---|
| 1027 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
| 1028 | Table& tout = out->table(); |
---|
[1008] | 1029 | Block<String> cols(4); |
---|
[805] | 1030 | cols[0] = String("SCANNO"); |
---|
[1008] | 1031 | cols[1] = String("CYCLENO"); |
---|
| 1032 | cols[2] = String("BEAMNO"); |
---|
| 1033 | cols[3] = String("POLNO"); |
---|
[805] | 1034 | TableIterator iter(tout, cols); |
---|
| 1035 | while (!iter.pastEnd()) { |
---|
| 1036 | Table subt = iter.table(); |
---|
| 1037 | // this should leave us with two rows for the two IFs....if not ignore |
---|
| 1038 | if (subt.nrow() != 2 ) { |
---|
| 1039 | continue; |
---|
[701] | 1040 | } |
---|
[1008] | 1041 | ArrayColumn<Float> specCol(subt, "SPECTRA"); |
---|
| 1042 | ArrayColumn<Float> tsysCol(subt, "TSYS"); |
---|
| 1043 | ArrayColumn<uChar> flagCol(subt, "FLAGTRA"); |
---|
[805] | 1044 | Vector<Float> onspec,offspec, ontsys, offtsys; |
---|
| 1045 | Vector<uChar> onflag, offflag; |
---|
| 1046 | tsysCol.get(0, ontsys); tsysCol.get(1, offtsys); |
---|
| 1047 | specCol.get(0, onspec); specCol.get(1, offspec); |
---|
| 1048 | flagCol.get(0, onflag); flagCol.get(1, offflag); |
---|
| 1049 | MaskedArray<Float> on = maskedArray(onspec, onflag); |
---|
| 1050 | MaskedArray<Float> off = maskedArray(offspec, offflag); |
---|
| 1051 | MaskedArray<Float> oncopy = on.copy(); |
---|
[248] | 1052 | |
---|
[805] | 1053 | on /= off; on -= 1.0f; |
---|
| 1054 | on *= ontsys[0]; |
---|
| 1055 | off /= oncopy; off -= 1.0f; |
---|
| 1056 | off *= offtsys[0]; |
---|
| 1057 | specCol.put(0, on.getArray()); |
---|
| 1058 | const Vector<Bool>& m0 = on.getMask(); |
---|
| 1059 | Vector<uChar> flags0(m0.shape()); |
---|
| 1060 | convertArray(flags0, !m0); |
---|
| 1061 | flagCol.put(0, flags0); |
---|
[234] | 1062 | |
---|
[805] | 1063 | specCol.put(1, off.getArray()); |
---|
| 1064 | const Vector<Bool>& m1 = off.getMask(); |
---|
| 1065 | Vector<uChar> flags1(m1.shape()); |
---|
| 1066 | convertArray(flags1, !m1); |
---|
| 1067 | flagCol.put(1, flags1); |
---|
[867] | 1068 | ++iter; |
---|
[130] | 1069 | } |
---|
[780] | 1070 | |
---|
[805] | 1071 | return out; |
---|
[9] | 1072 | } |
---|
[48] | 1073 | |
---|
[805] | 1074 | std::vector< float > STMath::statistic( const CountedPtr< Scantable > & in, |
---|
| 1075 | const std::vector< bool > & mask, |
---|
| 1076 | const std::string& which ) |
---|
[130] | 1077 | { |
---|
| 1078 | |
---|
[805] | 1079 | Vector<Bool> m(mask); |
---|
| 1080 | const Table& tab = in->table(); |
---|
| 1081 | ROArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
| 1082 | ROArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
| 1083 | std::vector<float> out; |
---|
| 1084 | for (uInt i=0; i < tab.nrow(); ++i ) { |
---|
| 1085 | Vector<Float> spec; specCol.get(i, spec); |
---|
[867] | 1086 | Vector<uChar> flag; flagCol.get(i, flag); |
---|
| 1087 | MaskedArray<Float> ma = maskedArray(spec, flag); |
---|
| 1088 | float outstat = 0.0; |
---|
[805] | 1089 | if ( spec.nelements() == m.nelements() ) { |
---|
| 1090 | outstat = mathutil::statistics(which, ma(m)); |
---|
| 1091 | } else { |
---|
| 1092 | outstat = mathutil::statistics(which, ma); |
---|
| 1093 | } |
---|
| 1094 | out.push_back(outstat); |
---|
[234] | 1095 | } |
---|
[805] | 1096 | return out; |
---|
[130] | 1097 | } |
---|
| 1098 | |
---|
[1516] | 1099 | std::vector< int > STMath::minMaxChan( const CountedPtr< Scantable > & in, |
---|
[1514] | 1100 | const std::vector< bool > & mask, |
---|
| 1101 | const std::string& which ) |
---|
| 1102 | { |
---|
| 1103 | |
---|
| 1104 | Vector<Bool> m(mask); |
---|
| 1105 | const Table& tab = in->table(); |
---|
| 1106 | ROArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
| 1107 | ROArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
| 1108 | std::vector<int> out; |
---|
| 1109 | for (uInt i=0; i < tab.nrow(); ++i ) { |
---|
| 1110 | Vector<Float> spec; specCol.get(i, spec); |
---|
| 1111 | Vector<uChar> flag; flagCol.get(i, flag); |
---|
| 1112 | MaskedArray<Float> ma = maskedArray(spec, flag); |
---|
| 1113 | if (ma.ndim() != 1) { |
---|
| 1114 | throw (ArrayError( |
---|
[1516] | 1115 | "std::vector<int> STMath::minMaxChan(" |
---|
[1514] | 1116 | "ContedPtr<Scantable> &in, std::vector<bool> &mask, " |
---|
| 1117 | " std::string &which)" |
---|
| 1118 | " - MaskedArray is not 1D")); |
---|
| 1119 | } |
---|
| 1120 | IPosition outpos(1,0); |
---|
| 1121 | if ( spec.nelements() == m.nelements() ) { |
---|
| 1122 | outpos = mathutil::minMaxPos(which, ma(m)); |
---|
| 1123 | } else { |
---|
| 1124 | outpos = mathutil::minMaxPos(which, ma); |
---|
| 1125 | } |
---|
| 1126 | out.push_back(outpos[0]); |
---|
| 1127 | } |
---|
| 1128 | return out; |
---|
| 1129 | } |
---|
| 1130 | |
---|
[805] | 1131 | CountedPtr< Scantable > STMath::bin( const CountedPtr< Scantable > & in, |
---|
| 1132 | int width ) |
---|
[144] | 1133 | { |
---|
[841] | 1134 | if ( !in->getSelection().empty() ) throw(AipsError("Can't bin subset of the data.")); |
---|
[805] | 1135 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
| 1136 | Table& tout = out->table(); |
---|
| 1137 | out->frequencies().rescale(width, "BIN"); |
---|
| 1138 | ArrayColumn<Float> specCol(tout, "SPECTRA"); |
---|
| 1139 | ArrayColumn<uChar> flagCol(tout, "FLAGTRA"); |
---|
| 1140 | for (uInt i=0; i < tout.nrow(); ++i ) { |
---|
| 1141 | MaskedArray<Float> main = maskedArray(specCol(i), flagCol(i)); |
---|
| 1142 | MaskedArray<Float> maout; |
---|
| 1143 | LatticeUtilities::bin(maout, main, 0, Int(width)); |
---|
| 1144 | /// @todo implement channel based tsys binning |
---|
| 1145 | specCol.put(i, maout.getArray()); |
---|
| 1146 | flagCol.put(i, flagsFromMA(maout)); |
---|
| 1147 | // take only the first binned spectrum's length for the deprecated |
---|
| 1148 | // global header item nChan |
---|
| 1149 | if (i==0) tout.rwKeywordSet().define(String("nChan"), |
---|
| 1150 | Int(maout.getArray().nelements())); |
---|
[169] | 1151 | } |
---|
[805] | 1152 | return out; |
---|
[146] | 1153 | } |
---|
| 1154 | |
---|
[805] | 1155 | CountedPtr< Scantable > STMath::resample( const CountedPtr< Scantable >& in, |
---|
| 1156 | const std::string& method, |
---|
| 1157 | float width ) |
---|
[299] | 1158 | // |
---|
| 1159 | // Should add the possibility of width being specified in km/s. This means |
---|
[780] | 1160 | // that for each freqID (SpectralCoordinate) we will need to convert to an |
---|
| 1161 | // average channel width (say at the reference pixel). Then we would need |
---|
| 1162 | // to be careful to make sure each spectrum (of different freqID) |
---|
[299] | 1163 | // is the same length. |
---|
| 1164 | // |
---|
| 1165 | { |
---|
[996] | 1166 | //InterpolateArray1D<Double,Float>::InterpolationMethod interp; |
---|
[805] | 1167 | Int interpMethod(stringToIMethod(method)); |
---|
[299] | 1168 | |
---|
[805] | 1169 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
| 1170 | Table& tout = out->table(); |
---|
[299] | 1171 | |
---|
| 1172 | // Resample SpectralCoordinates (one per freqID) |
---|
[805] | 1173 | out->frequencies().rescale(width, "RESAMPLE"); |
---|
| 1174 | TableIterator iter(tout, "IFNO"); |
---|
| 1175 | TableRow row(tout); |
---|
| 1176 | while ( !iter.pastEnd() ) { |
---|
| 1177 | Table tab = iter.table(); |
---|
| 1178 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
| 1179 | //ArrayColumn<Float> tsysCol(tout, "TSYS"); |
---|
| 1180 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
| 1181 | Vector<Float> spec; |
---|
| 1182 | Vector<uChar> flag; |
---|
| 1183 | specCol.get(0,spec); // the number of channels should be constant per IF |
---|
| 1184 | uInt nChanIn = spec.nelements(); |
---|
| 1185 | Vector<Float> xIn(nChanIn); indgen(xIn); |
---|
| 1186 | Int fac = Int(nChanIn/width); |
---|
| 1187 | Vector<Float> xOut(fac+10); // 10 to be safe - resize later |
---|
| 1188 | uInt k = 0; |
---|
| 1189 | Float x = 0.0; |
---|
| 1190 | while (x < Float(nChanIn) ) { |
---|
| 1191 | xOut(k) = x; |
---|
| 1192 | k++; |
---|
| 1193 | x += width; |
---|
| 1194 | } |
---|
| 1195 | uInt nChanOut = k; |
---|
| 1196 | xOut.resize(nChanOut, True); |
---|
| 1197 | // process all rows for this IFNO |
---|
| 1198 | Vector<Float> specOut; |
---|
| 1199 | Vector<Bool> maskOut; |
---|
| 1200 | Vector<uChar> flagOut; |
---|
| 1201 | for (uInt i=0; i < tab.nrow(); ++i) { |
---|
| 1202 | specCol.get(i, spec); |
---|
| 1203 | flagCol.get(i, flag); |
---|
| 1204 | Vector<Bool> mask(flag.nelements()); |
---|
| 1205 | convertArray(mask, flag); |
---|
[299] | 1206 | |
---|
[805] | 1207 | IPosition shapeIn(spec.shape()); |
---|
| 1208 | //sh.nchan = nChanOut; |
---|
| 1209 | InterpolateArray1D<Float,Float>::interpolate(specOut, maskOut, xOut, |
---|
| 1210 | xIn, spec, mask, |
---|
| 1211 | interpMethod, True, True); |
---|
| 1212 | /// @todo do the same for channel based Tsys |
---|
| 1213 | flagOut.resize(maskOut.nelements()); |
---|
| 1214 | convertArray(flagOut, maskOut); |
---|
| 1215 | specCol.put(i, specOut); |
---|
| 1216 | flagCol.put(i, flagOut); |
---|
| 1217 | } |
---|
| 1218 | ++iter; |
---|
[299] | 1219 | } |
---|
| 1220 | |
---|
[805] | 1221 | return out; |
---|
| 1222 | } |
---|
[299] | 1223 | |
---|
[805] | 1224 | STMath::imethod STMath::stringToIMethod(const std::string& in) |
---|
| 1225 | { |
---|
| 1226 | static STMath::imap lookup; |
---|
[299] | 1227 | |
---|
[805] | 1228 | // initialize the lookup table if necessary |
---|
| 1229 | if ( lookup.empty() ) { |
---|
[926] | 1230 | lookup["nearest"] = InterpolateArray1D<Double,Float>::nearestNeighbour; |
---|
| 1231 | lookup["linear"] = InterpolateArray1D<Double,Float>::linear; |
---|
| 1232 | lookup["cubic"] = InterpolateArray1D<Double,Float>::cubic; |
---|
| 1233 | lookup["spline"] = InterpolateArray1D<Double,Float>::spline; |
---|
[299] | 1234 | } |
---|
| 1235 | |
---|
[805] | 1236 | STMath::imap::const_iterator iter = lookup.find(in); |
---|
[299] | 1237 | |
---|
[805] | 1238 | if ( lookup.end() == iter ) { |
---|
| 1239 | std::string message = in; |
---|
| 1240 | message += " is not a valid interpolation mode"; |
---|
| 1241 | throw(AipsError(message)); |
---|
[299] | 1242 | } |
---|
[805] | 1243 | return iter->second; |
---|
[299] | 1244 | } |
---|
| 1245 | |
---|
[805] | 1246 | WeightType STMath::stringToWeight(const std::string& in) |
---|
[146] | 1247 | { |
---|
[805] | 1248 | static std::map<std::string, WeightType> lookup; |
---|
[434] | 1249 | |
---|
[805] | 1250 | // initialize the lookup table if necessary |
---|
| 1251 | if ( lookup.empty() ) { |
---|
| 1252 | lookup["NONE"] = asap::NONE; |
---|
| 1253 | lookup["TINT"] = asap::TINT; |
---|
| 1254 | lookup["TINTSYS"] = asap::TINTSYS; |
---|
| 1255 | lookup["TSYS"] = asap::TSYS; |
---|
| 1256 | lookup["VAR"] = asap::VAR; |
---|
| 1257 | } |
---|
[434] | 1258 | |
---|
[805] | 1259 | std::map<std::string, WeightType>::const_iterator iter = lookup.find(in); |
---|
[294] | 1260 | |
---|
[805] | 1261 | if ( lookup.end() == iter ) { |
---|
| 1262 | std::string message = in; |
---|
| 1263 | message += " is not a valid weighting mode"; |
---|
| 1264 | throw(AipsError(message)); |
---|
| 1265 | } |
---|
| 1266 | return iter->second; |
---|
[146] | 1267 | } |
---|
| 1268 | |
---|
[805] | 1269 | CountedPtr< Scantable > STMath::gainElevation( const CountedPtr< Scantable >& in, |
---|
[867] | 1270 | const vector< float > & coeff, |
---|
[805] | 1271 | const std::string & filename, |
---|
| 1272 | const std::string& method) |
---|
[165] | 1273 | { |
---|
[805] | 1274 | // Get elevation data from Scantable and convert to degrees |
---|
| 1275 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
[926] | 1276 | Table& tab = out->table(); |
---|
[805] | 1277 | ROScalarColumn<Float> elev(tab, "ELEVATION"); |
---|
| 1278 | Vector<Float> x = elev.getColumn(); |
---|
| 1279 | x *= Float(180 / C::pi); // Degrees |
---|
[165] | 1280 | |
---|
[867] | 1281 | Vector<Float> coeffs(coeff); |
---|
[805] | 1282 | const uInt nc = coeffs.nelements(); |
---|
| 1283 | if ( filename.length() > 0 && nc > 0 ) { |
---|
| 1284 | throw(AipsError("You must choose either polynomial coefficients or an ascii file, not both")); |
---|
[315] | 1285 | } |
---|
[165] | 1286 | |
---|
[805] | 1287 | // Correct |
---|
| 1288 | if ( nc > 0 || filename.length() == 0 ) { |
---|
| 1289 | // Find instrument |
---|
| 1290 | Bool throwit = True; |
---|
| 1291 | Instrument inst = |
---|
[878] | 1292 | STAttr::convertInstrument(tab.keywordSet().asString("AntennaName"), |
---|
[805] | 1293 | throwit); |
---|
[165] | 1294 | |
---|
[805] | 1295 | // Set polynomial |
---|
| 1296 | Polynomial<Float>* ppoly = 0; |
---|
| 1297 | Vector<Float> coeff; |
---|
| 1298 | String msg; |
---|
| 1299 | if ( nc > 0 ) { |
---|
| 1300 | ppoly = new Polynomial<Float>(nc); |
---|
| 1301 | coeff = coeffs; |
---|
| 1302 | msg = String("user"); |
---|
| 1303 | } else { |
---|
[878] | 1304 | STAttr sdAttr; |
---|
[805] | 1305 | coeff = sdAttr.gainElevationPoly(inst); |
---|
| 1306 | ppoly = new Polynomial<Float>(3); |
---|
| 1307 | msg = String("built in"); |
---|
| 1308 | } |
---|
[532] | 1309 | |
---|
[805] | 1310 | if ( coeff.nelements() > 0 ) { |
---|
| 1311 | ppoly->setCoefficients(coeff); |
---|
| 1312 | } else { |
---|
| 1313 | delete ppoly; |
---|
| 1314 | throw(AipsError("There is no known gain-elevation polynomial known for this instrument")); |
---|
| 1315 | } |
---|
| 1316 | ostringstream oss; |
---|
| 1317 | oss << "Making polynomial correction with " << msg << " coefficients:" << endl; |
---|
| 1318 | oss << " " << coeff; |
---|
| 1319 | pushLog(String(oss)); |
---|
| 1320 | const uInt nrow = tab.nrow(); |
---|
| 1321 | Vector<Float> factor(nrow); |
---|
| 1322 | for ( uInt i=0; i < nrow; ++i ) { |
---|
| 1323 | factor[i] = 1.0 / (*ppoly)(x[i]); |
---|
| 1324 | } |
---|
| 1325 | delete ppoly; |
---|
| 1326 | scaleByVector(tab, factor, true); |
---|
[532] | 1327 | |
---|
[805] | 1328 | } else { |
---|
| 1329 | // Read and correct |
---|
| 1330 | pushLog("Making correction from ascii Table"); |
---|
| 1331 | scaleFromAsciiTable(tab, filename, method, x, true); |
---|
[532] | 1332 | } |
---|
[805] | 1333 | return out; |
---|
| 1334 | } |
---|
[165] | 1335 | |
---|
[805] | 1336 | void STMath::scaleFromAsciiTable(Table& in, const std::string& filename, |
---|
| 1337 | const std::string& method, |
---|
| 1338 | const Vector<Float>& xout, bool dotsys) |
---|
| 1339 | { |
---|
[165] | 1340 | |
---|
[805] | 1341 | // Read gain-elevation ascii file data into a Table. |
---|
[165] | 1342 | |
---|
[805] | 1343 | String formatString; |
---|
| 1344 | Table tbl = readAsciiTable(formatString, Table::Memory, filename, "", "", False); |
---|
| 1345 | scaleFromTable(in, tbl, method, xout, dotsys); |
---|
| 1346 | } |
---|
[165] | 1347 | |
---|
[805] | 1348 | void STMath::scaleFromTable(Table& in, |
---|
| 1349 | const Table& table, |
---|
| 1350 | const std::string& method, |
---|
| 1351 | const Vector<Float>& xout, bool dotsys) |
---|
| 1352 | { |
---|
[780] | 1353 | |
---|
[805] | 1354 | ROScalarColumn<Float> geElCol(table, "ELEVATION"); |
---|
| 1355 | ROScalarColumn<Float> geFacCol(table, "FACTOR"); |
---|
| 1356 | Vector<Float> xin = geElCol.getColumn(); |
---|
| 1357 | Vector<Float> yin = geFacCol.getColumn(); |
---|
| 1358 | Vector<Bool> maskin(xin.nelements(),True); |
---|
[165] | 1359 | |
---|
[805] | 1360 | // Interpolate (and extrapolate) with desired method |
---|
[532] | 1361 | |
---|
[996] | 1362 | InterpolateArray1D<Double,Float>::InterpolationMethod interp = stringToIMethod(method); |
---|
[165] | 1363 | |
---|
[805] | 1364 | Vector<Float> yout; |
---|
| 1365 | Vector<Bool> maskout; |
---|
| 1366 | InterpolateArray1D<Float,Float>::interpolate(yout, maskout, xout, |
---|
[996] | 1367 | xin, yin, maskin, interp, |
---|
[805] | 1368 | True, True); |
---|
[165] | 1369 | |
---|
[805] | 1370 | scaleByVector(in, Float(1.0)/yout, dotsys); |
---|
[165] | 1371 | } |
---|
[167] | 1372 | |
---|
[805] | 1373 | void STMath::scaleByVector( Table& in, |
---|
| 1374 | const Vector< Float >& factor, |
---|
| 1375 | bool dotsys ) |
---|
[177] | 1376 | { |
---|
[805] | 1377 | uInt nrow = in.nrow(); |
---|
| 1378 | if ( factor.nelements() != nrow ) { |
---|
| 1379 | throw(AipsError("factors.nelements() != table.nelements()")); |
---|
| 1380 | } |
---|
| 1381 | ArrayColumn<Float> specCol(in, "SPECTRA"); |
---|
| 1382 | ArrayColumn<uChar> flagCol(in, "FLAGTRA"); |
---|
| 1383 | ArrayColumn<Float> tsysCol(in, "TSYS"); |
---|
| 1384 | for (uInt i=0; i < nrow; ++i) { |
---|
| 1385 | MaskedArray<Float> ma = maskedArray(specCol(i), flagCol(i)); |
---|
| 1386 | ma *= factor[i]; |
---|
| 1387 | specCol.put(i, ma.getArray()); |
---|
| 1388 | flagCol.put(i, flagsFromMA(ma)); |
---|
| 1389 | if ( dotsys ) { |
---|
[926] | 1390 | Vector<Float> tsys = tsysCol(i); |
---|
[805] | 1391 | tsys *= factor[i]; |
---|
[926] | 1392 | tsysCol.put(i,tsys); |
---|
[805] | 1393 | } |
---|
| 1394 | } |
---|
[177] | 1395 | } |
---|
| 1396 | |
---|
[805] | 1397 | CountedPtr< Scantable > STMath::convertFlux( const CountedPtr< Scantable >& in, |
---|
| 1398 | float d, float etaap, |
---|
| 1399 | float jyperk ) |
---|
[221] | 1400 | { |
---|
[805] | 1401 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
| 1402 | Table& tab = in->table(); |
---|
| 1403 | Unit fluxUnit(tab.keywordSet().asString("FluxUnit")); |
---|
[221] | 1404 | Unit K(String("K")); |
---|
| 1405 | Unit JY(String("Jy")); |
---|
[701] | 1406 | |
---|
[805] | 1407 | bool tokelvin = true; |
---|
| 1408 | Double cfac = 1.0; |
---|
[716] | 1409 | |
---|
[805] | 1410 | if ( fluxUnit == JY ) { |
---|
[716] | 1411 | pushLog("Converting to K"); |
---|
[701] | 1412 | Quantum<Double> t(1.0,fluxUnit); |
---|
| 1413 | Quantum<Double> t2 = t.get(JY); |
---|
[805] | 1414 | cfac = (t2 / t).getValue(); // value to Jy |
---|
[780] | 1415 | |
---|
[805] | 1416 | tokelvin = true; |
---|
| 1417 | out->setFluxUnit("K"); |
---|
| 1418 | } else if ( fluxUnit == K ) { |
---|
[716] | 1419 | pushLog("Converting to Jy"); |
---|
[701] | 1420 | Quantum<Double> t(1.0,fluxUnit); |
---|
| 1421 | Quantum<Double> t2 = t.get(K); |
---|
[805] | 1422 | cfac = (t2 / t).getValue(); // value to K |
---|
[780] | 1423 | |
---|
[805] | 1424 | tokelvin = false; |
---|
| 1425 | out->setFluxUnit("Jy"); |
---|
[221] | 1426 | } else { |
---|
[701] | 1427 | throw(AipsError("Unrecognized brightness units in Table - must be consistent with Jy or K")); |
---|
[221] | 1428 | } |
---|
[701] | 1429 | // Make sure input values are converted to either Jy or K first... |
---|
[805] | 1430 | Float factor = cfac; |
---|
[221] | 1431 | |
---|
[701] | 1432 | // Select method |
---|
[805] | 1433 | if (jyperk > 0.0) { |
---|
| 1434 | factor *= jyperk; |
---|
| 1435 | if ( tokelvin ) factor = 1.0 / jyperk; |
---|
[716] | 1436 | ostringstream oss; |
---|
[805] | 1437 | oss << "Jy/K = " << jyperk; |
---|
[716] | 1438 | pushLog(String(oss)); |
---|
[805] | 1439 | Vector<Float> factors(tab.nrow(), factor); |
---|
| 1440 | scaleByVector(tab,factors, false); |
---|
| 1441 | } else if ( etaap > 0.0) { |
---|
[1319] | 1442 | if (d < 0) { |
---|
| 1443 | Instrument inst = |
---|
| 1444 | STAttr::convertInstrument(tab.keywordSet().asString("AntennaName"), |
---|
| 1445 | True); |
---|
| 1446 | STAttr sda; |
---|
| 1447 | d = sda.diameter(inst); |
---|
| 1448 | } |
---|
[996] | 1449 | jyperk = STAttr::findJyPerK(etaap, d); |
---|
[716] | 1450 | ostringstream oss; |
---|
[805] | 1451 | oss << "Jy/K = " << jyperk; |
---|
[716] | 1452 | pushLog(String(oss)); |
---|
[805] | 1453 | factor *= jyperk; |
---|
| 1454 | if ( tokelvin ) { |
---|
[701] | 1455 | factor = 1.0 / factor; |
---|
| 1456 | } |
---|
[805] | 1457 | Vector<Float> factors(tab.nrow(), factor); |
---|
| 1458 | scaleByVector(tab, factors, False); |
---|
[354] | 1459 | } else { |
---|
[780] | 1460 | |
---|
[701] | 1461 | // OK now we must deal with automatic look up of values. |
---|
| 1462 | // We must also deal with the fact that the factors need |
---|
| 1463 | // to be computed per IF and may be different and may |
---|
| 1464 | // change per integration. |
---|
[780] | 1465 | |
---|
[716] | 1466 | pushLog("Looking up conversion factors"); |
---|
[805] | 1467 | convertBrightnessUnits(out, tokelvin, cfac); |
---|
[701] | 1468 | } |
---|
[805] | 1469 | |
---|
| 1470 | return out; |
---|
[221] | 1471 | } |
---|
| 1472 | |
---|
[805] | 1473 | void STMath::convertBrightnessUnits( CountedPtr<Scantable>& in, |
---|
| 1474 | bool tokelvin, float cfac ) |
---|
[227] | 1475 | { |
---|
[805] | 1476 | Table& table = in->table(); |
---|
| 1477 | Instrument inst = |
---|
[878] | 1478 | STAttr::convertInstrument(table.keywordSet().asString("AntennaName"), True); |
---|
[805] | 1479 | TableIterator iter(table, "FREQ_ID"); |
---|
| 1480 | STFrequencies stfreqs = in->frequencies(); |
---|
[878] | 1481 | STAttr sdAtt; |
---|
[805] | 1482 | while (!iter.pastEnd()) { |
---|
| 1483 | Table tab = iter.table(); |
---|
| 1484 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
| 1485 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
| 1486 | ROScalarColumn<uInt> freqidCol(tab, "FREQ_ID"); |
---|
| 1487 | MEpoch::ROScalarColumn timeCol(tab, "TIME"); |
---|
[234] | 1488 | |
---|
[805] | 1489 | uInt freqid; freqidCol.get(0, freqid); |
---|
| 1490 | Vector<Float> tmpspec; specCol.get(0, tmpspec); |
---|
[878] | 1491 | // STAttr.JyPerK has a Vector interface... change sometime. |
---|
[805] | 1492 | Vector<Float> freqs(1,stfreqs.getRefFreq(freqid, tmpspec.nelements())); |
---|
| 1493 | for ( uInt i=0; i<tab.nrow(); ++i) { |
---|
| 1494 | Float jyperk = (sdAtt.JyPerK(inst, timeCol(i), freqs))[0]; |
---|
| 1495 | Float factor = cfac * jyperk; |
---|
| 1496 | if ( tokelvin ) factor = Float(1.0) / factor; |
---|
| 1497 | MaskedArray<Float> ma = maskedArray(specCol(i), flagCol(i)); |
---|
| 1498 | ma *= factor; |
---|
| 1499 | specCol.put(i, ma.getArray()); |
---|
| 1500 | flagCol.put(i, flagsFromMA(ma)); |
---|
| 1501 | } |
---|
[867] | 1502 | ++iter; |
---|
[234] | 1503 | } |
---|
[230] | 1504 | } |
---|
[227] | 1505 | |
---|
[805] | 1506 | CountedPtr< Scantable > STMath::opacity( const CountedPtr< Scantable > & in, |
---|
| 1507 | float tau ) |
---|
[234] | 1508 | { |
---|
[805] | 1509 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
[926] | 1510 | |
---|
| 1511 | Table tab = out->table(); |
---|
[234] | 1512 | ROScalarColumn<Float> elev(tab, "ELEVATION"); |
---|
[805] | 1513 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
| 1514 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
| 1515 | for ( uInt i=0; i<tab.nrow(); ++i) { |
---|
| 1516 | Float zdist = Float(C::pi_2) - elev(i); |
---|
[1318] | 1517 | Float factor = exp(tau/cos(zdist)); |
---|
[926] | 1518 | MaskedArray<Float> ma = maskedArray(specCol(i), flagCol(i)); |
---|
[805] | 1519 | ma *= factor; |
---|
| 1520 | specCol.put(i, ma.getArray()); |
---|
| 1521 | flagCol.put(i, flagsFromMA(ma)); |
---|
[234] | 1522 | } |
---|
[805] | 1523 | return out; |
---|
[234] | 1524 | } |
---|
| 1525 | |
---|
[1373] | 1526 | CountedPtr< Scantable > STMath::smoothOther( const CountedPtr< Scantable >& in, |
---|
| 1527 | const std::string& kernel, |
---|
| 1528 | float width ) |
---|
| 1529 | { |
---|
| 1530 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
| 1531 | Table& table = out->table(); |
---|
| 1532 | ArrayColumn<Float> specCol(table, "SPECTRA"); |
---|
| 1533 | ArrayColumn<uChar> flagCol(table, "FLAGTRA"); |
---|
| 1534 | Vector<Float> spec; |
---|
| 1535 | Vector<uChar> flag; |
---|
| 1536 | for ( uInt i=0; i<table.nrow(); ++i) { |
---|
| 1537 | specCol.get(i, spec); |
---|
| 1538 | flagCol.get(i, flag); |
---|
| 1539 | Vector<Bool> mask(flag.nelements()); |
---|
| 1540 | convertArray(mask, flag); |
---|
| 1541 | Vector<Float> specout; |
---|
| 1542 | Vector<Bool> maskout; |
---|
| 1543 | if ( kernel == "hanning" ) { |
---|
| 1544 | mathutil::hanning(specout, maskout, spec , !mask); |
---|
| 1545 | convertArray(flag, !maskout); |
---|
| 1546 | } else if ( kernel == "rmedian" ) { |
---|
| 1547 | mathutil::runningMedian(specout, maskout, spec , mask, width); |
---|
| 1548 | convertArray(flag, maskout); |
---|
| 1549 | } |
---|
| 1550 | flagCol.put(i, flag); |
---|
| 1551 | specCol.put(i, specout); |
---|
| 1552 | } |
---|
| 1553 | return out; |
---|
| 1554 | } |
---|
| 1555 | |
---|
[805] | 1556 | CountedPtr< Scantable > STMath::smooth( const CountedPtr< Scantable >& in, |
---|
| 1557 | const std::string& kernel, float width ) |
---|
[457] | 1558 | { |
---|
[1373] | 1559 | if (kernel == "rmedian" || kernel == "hanning") { |
---|
| 1560 | return smoothOther(in, kernel, width); |
---|
| 1561 | } |
---|
[805] | 1562 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
[1033] | 1563 | Table& table = out->table(); |
---|
[805] | 1564 | VectorKernel::KernelTypes type = VectorKernel::toKernelType(kernel); |
---|
| 1565 | // same IFNO should have same no of channels |
---|
| 1566 | // this saves overhead |
---|
| 1567 | TableIterator iter(table, "IFNO"); |
---|
| 1568 | while (!iter.pastEnd()) { |
---|
| 1569 | Table tab = iter.table(); |
---|
| 1570 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
| 1571 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
| 1572 | Vector<Float> tmpspec; specCol.get(0, tmpspec); |
---|
| 1573 | uInt nchan = tmpspec.nelements(); |
---|
| 1574 | Vector<Float> kvec = VectorKernel::make(type, width, nchan, True, False); |
---|
| 1575 | Convolver<Float> conv(kvec, IPosition(1,nchan)); |
---|
| 1576 | Vector<Float> spec; |
---|
| 1577 | Vector<uChar> flag; |
---|
| 1578 | for ( uInt i=0; i<tab.nrow(); ++i) { |
---|
| 1579 | specCol.get(i, spec); |
---|
| 1580 | flagCol.get(i, flag); |
---|
| 1581 | Vector<Bool> mask(flag.nelements()); |
---|
| 1582 | convertArray(mask, flag); |
---|
| 1583 | Vector<Float> specout; |
---|
[1373] | 1584 | mathutil::replaceMaskByZero(specout, mask); |
---|
| 1585 | conv.linearConv(specout, spec); |
---|
| 1586 | specCol.put(i, specout); |
---|
[805] | 1587 | } |
---|
[867] | 1588 | ++iter; |
---|
[701] | 1589 | } |
---|
[805] | 1590 | return out; |
---|
[701] | 1591 | } |
---|
[841] | 1592 | |
---|
| 1593 | CountedPtr< Scantable > |
---|
| 1594 | STMath::merge( const std::vector< CountedPtr < Scantable > >& in ) |
---|
| 1595 | { |
---|
| 1596 | if ( in.size() < 2 ) { |
---|
[862] | 1597 | throw(AipsError("Need at least two scantables to perform a merge.")); |
---|
[841] | 1598 | } |
---|
| 1599 | std::vector<CountedPtr < Scantable > >::const_iterator it = in.begin(); |
---|
| 1600 | bool insitu = insitu_; |
---|
| 1601 | setInsitu(false); |
---|
[862] | 1602 | CountedPtr< Scantable > out = getScantable(*it, false); |
---|
[841] | 1603 | setInsitu(insitu); |
---|
| 1604 | Table& tout = out->table(); |
---|
| 1605 | ScalarColumn<uInt> freqidcol(tout,"FREQ_ID"), molidcol(tout, "MOLECULE_ID"); |
---|
[917] | 1606 | ScalarColumn<uInt> scannocol(tout,"SCANNO"), focusidcol(tout,"FOCUS_ID"); |
---|
| 1607 | // Renumber SCANNO to be 0-based |
---|
[926] | 1608 | Vector<uInt> scannos = scannocol.getColumn(); |
---|
| 1609 | uInt offset = min(scannos); |
---|
[917] | 1610 | scannos -= offset; |
---|
[926] | 1611 | scannocol.putColumn(scannos); |
---|
| 1612 | uInt newscanno = max(scannos)+1; |
---|
[862] | 1613 | ++it; |
---|
[841] | 1614 | while ( it != in.end() ){ |
---|
| 1615 | if ( ! (*it)->conformant(*out) ) { |
---|
| 1616 | // log message: "ignoring scantable i, as it isn't |
---|
| 1617 | // conformant with the other(s)" |
---|
| 1618 | cerr << "oh oh" << endl; |
---|
| 1619 | ++it; |
---|
| 1620 | continue; |
---|
| 1621 | } |
---|
[862] | 1622 | out->appendToHistoryTable((*it)->history()); |
---|
[841] | 1623 | const Table& tab = (*it)->table(); |
---|
| 1624 | TableIterator scanit(tab, "SCANNO"); |
---|
| 1625 | while (!scanit.pastEnd()) { |
---|
| 1626 | TableIterator freqit(scanit.table(), "FREQ_ID"); |
---|
| 1627 | while ( !freqit.pastEnd() ) { |
---|
| 1628 | Table thetab = freqit.table(); |
---|
| 1629 | uInt nrow = tout.nrow(); |
---|
| 1630 | //tout.addRow(thetab.nrow()); |
---|
| 1631 | TableCopy::copyRows(tout, thetab, nrow, 0, thetab.nrow()); |
---|
| 1632 | ROTableRow row(thetab); |
---|
| 1633 | for ( uInt i=0; i<thetab.nrow(); ++i) { |
---|
| 1634 | uInt k = nrow+i; |
---|
| 1635 | scannocol.put(k, newscanno); |
---|
| 1636 | const TableRecord& rec = row.get(i); |
---|
| 1637 | Double rv,rp,inc; |
---|
| 1638 | (*it)->frequencies().getEntry(rp, rv, inc, rec.asuInt("FREQ_ID")); |
---|
| 1639 | uInt id; |
---|
| 1640 | id = out->frequencies().addEntry(rp, rv, inc); |
---|
| 1641 | freqidcol.put(k,id); |
---|
[1446] | 1642 | //String name,fname;Double rf; |
---|
| 1643 | Vector<String> name,fname;Vector<Double> rf; |
---|
[841] | 1644 | (*it)->molecules().getEntry(rf, name, fname, rec.asuInt("MOLECULE_ID")); |
---|
| 1645 | id = out->molecules().addEntry(rf, name, fname); |
---|
| 1646 | molidcol.put(k, id); |
---|
[961] | 1647 | Float frot,fax,ftan,fhand,fmount,fuser, fxy, fxyp; |
---|
| 1648 | (*it)->focus().getEntry(fax, ftan, frot, fhand, |
---|
| 1649 | fmount,fuser, fxy, fxyp, |
---|
| 1650 | rec.asuInt("FOCUS_ID")); |
---|
| 1651 | id = out->focus().addEntry(fax, ftan, frot, fhand, |
---|
| 1652 | fmount,fuser, fxy, fxyp); |
---|
[841] | 1653 | focusidcol.put(k, id); |
---|
| 1654 | } |
---|
| 1655 | ++freqit; |
---|
| 1656 | } |
---|
| 1657 | ++newscanno; |
---|
| 1658 | ++scanit; |
---|
| 1659 | } |
---|
| 1660 | ++it; |
---|
| 1661 | } |
---|
| 1662 | return out; |
---|
| 1663 | } |
---|
[896] | 1664 | |
---|
| 1665 | CountedPtr< Scantable > |
---|
| 1666 | STMath::invertPhase( const CountedPtr < Scantable >& in ) |
---|
| 1667 | { |
---|
[996] | 1668 | return applyToPol(in, &STPol::invertPhase, Float(0.0)); |
---|
[896] | 1669 | } |
---|
| 1670 | |
---|
| 1671 | CountedPtr< Scantable > |
---|
| 1672 | STMath::rotateXYPhase( const CountedPtr < Scantable >& in, float phase ) |
---|
| 1673 | { |
---|
| 1674 | return applyToPol(in, &STPol::rotatePhase, Float(phase)); |
---|
| 1675 | } |
---|
| 1676 | |
---|
| 1677 | CountedPtr< Scantable > |
---|
| 1678 | STMath::rotateLinPolPhase( const CountedPtr < Scantable >& in, float phase ) |
---|
| 1679 | { |
---|
| 1680 | return applyToPol(in, &STPol::rotateLinPolPhase, Float(phase)); |
---|
| 1681 | } |
---|
| 1682 | |
---|
| 1683 | CountedPtr< Scantable > STMath::applyToPol( const CountedPtr<Scantable>& in, |
---|
| 1684 | STPol::polOperation fptr, |
---|
| 1685 | Float phase ) |
---|
| 1686 | { |
---|
| 1687 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
| 1688 | Table& tout = out->table(); |
---|
| 1689 | Block<String> cols(4); |
---|
| 1690 | cols[0] = String("SCANNO"); |
---|
| 1691 | cols[1] = String("BEAMNO"); |
---|
| 1692 | cols[2] = String("IFNO"); |
---|
| 1693 | cols[3] = String("CYCLENO"); |
---|
| 1694 | TableIterator iter(tout, cols); |
---|
[1384] | 1695 | CountedPtr<STPol> stpol = STPol::getPolClass(out->factories_, |
---|
| 1696 | out->getPolType() ); |
---|
[896] | 1697 | while (!iter.pastEnd()) { |
---|
| 1698 | Table t = iter.table(); |
---|
| 1699 | ArrayColumn<Float> speccol(t, "SPECTRA"); |
---|
[1015] | 1700 | ScalarColumn<uInt> focidcol(t, "FOCUS_ID"); |
---|
| 1701 | ScalarColumn<Float> parancol(t, "PARANGLE"); |
---|
[1384] | 1702 | Matrix<Float> pols(speccol.getColumn()); |
---|
[896] | 1703 | try { |
---|
| 1704 | stpol->setSpectra(pols); |
---|
[1015] | 1705 | Float fang,fhand,parang; |
---|
| 1706 | fang = in->focusTable_.getTotalFeedAngle(focidcol(0)); |
---|
| 1707 | fhand = in->focusTable_.getFeedHand(focidcol(0)); |
---|
| 1708 | parang = parancol(0); |
---|
| 1709 | /// @todo re-enable this |
---|
| 1710 | // disable total feed angle to support paralactifying Caswell style |
---|
| 1711 | stpol->setPhaseCorrections(parang, -parang, fhand); |
---|
[1384] | 1712 | // use a member function pointer in STPol. This only works on |
---|
| 1713 | // the STPol pointer itself, not the Counted Pointer so |
---|
| 1714 | // derefernce it. |
---|
| 1715 | (&(*(stpol))->*fptr)(phase); |
---|
[896] | 1716 | speccol.putColumn(stpol->getSpectra()); |
---|
| 1717 | } catch (AipsError& e) { |
---|
[1384] | 1718 | //delete stpol;stpol=0; |
---|
[896] | 1719 | throw(e); |
---|
| 1720 | } |
---|
| 1721 | ++iter; |
---|
| 1722 | } |
---|
[1384] | 1723 | //delete stpol;stpol=0; |
---|
[896] | 1724 | return out; |
---|
| 1725 | } |
---|
| 1726 | |
---|
| 1727 | CountedPtr< Scantable > |
---|
| 1728 | STMath::swapPolarisations( const CountedPtr< Scantable > & in ) |
---|
| 1729 | { |
---|
| 1730 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
| 1731 | Table& tout = out->table(); |
---|
| 1732 | Table t0 = tout(tout.col("POLNO") == 0); |
---|
| 1733 | Table t1 = tout(tout.col("POLNO") == 1); |
---|
| 1734 | if ( t0.nrow() != t1.nrow() ) |
---|
| 1735 | throw(AipsError("Inconsistent number of polarisations")); |
---|
| 1736 | ArrayColumn<Float> speccol0(t0, "SPECTRA"); |
---|
| 1737 | ArrayColumn<uChar> flagcol0(t0, "FLAGTRA"); |
---|
| 1738 | ArrayColumn<Float> speccol1(t1, "SPECTRA"); |
---|
| 1739 | ArrayColumn<uChar> flagcol1(t1, "FLAGTRA"); |
---|
| 1740 | Matrix<Float> s0 = speccol0.getColumn(); |
---|
| 1741 | Matrix<uChar> f0 = flagcol0.getColumn(); |
---|
| 1742 | speccol0.putColumn(speccol1.getColumn()); |
---|
| 1743 | flagcol0.putColumn(flagcol1.getColumn()); |
---|
| 1744 | speccol1.putColumn(s0); |
---|
| 1745 | flagcol1.putColumn(f0); |
---|
| 1746 | return out; |
---|
| 1747 | } |
---|
[917] | 1748 | |
---|
| 1749 | CountedPtr< Scantable > |
---|
[940] | 1750 | STMath::averagePolarisations( const CountedPtr< Scantable > & in, |
---|
| 1751 | const std::vector<bool>& mask, |
---|
| 1752 | const std::string& weight ) |
---|
| 1753 | { |
---|
[1232] | 1754 | if (in->npol() < 2 ) |
---|
| 1755 | throw(AipsError("averagePolarisations can only be applied to two or more" |
---|
| 1756 | "polarisations")); |
---|
[1010] | 1757 | bool insitu = insitu_; |
---|
| 1758 | setInsitu(false); |
---|
[1232] | 1759 | CountedPtr< Scantable > pols = getScantable(in, true); |
---|
[1010] | 1760 | setInsitu(insitu); |
---|
| 1761 | Table& tout = pols->table(); |
---|
[1232] | 1762 | std::string taql = "SELECT FROM $1 WHERE POLNO IN [0,1]"; |
---|
| 1763 | Table tab = tableCommand(taql, in->table()); |
---|
| 1764 | if (tab.nrow() == 0 ) |
---|
| 1765 | throw(AipsError("Could not find any rows with POLNO==0 and POLNO==1")); |
---|
| 1766 | TableCopy::copyRows(tout, tab); |
---|
[1145] | 1767 | TableVector<uInt> vec(tout, "POLNO"); |
---|
[940] | 1768 | vec = 0; |
---|
[1145] | 1769 | pols->table_.rwKeywordSet().define("nPol", Int(1)); |
---|
[1387] | 1770 | //pols->table_.rwKeywordSet().define("POLTYPE", String("stokes")); |
---|
| 1771 | pols->table_.rwKeywordSet().define("POLTYPE", in->getPolType()); |
---|
[1010] | 1772 | std::vector<CountedPtr<Scantable> > vpols; |
---|
| 1773 | vpols.push_back(pols); |
---|
[1232] | 1774 | CountedPtr< Scantable > out = average(vpols, mask, weight, "SCAN"); |
---|
[940] | 1775 | return out; |
---|
| 1776 | } |
---|
| 1777 | |
---|
[1145] | 1778 | CountedPtr< Scantable > |
---|
| 1779 | STMath::averageBeams( const CountedPtr< Scantable > & in, |
---|
| 1780 | const std::vector<bool>& mask, |
---|
| 1781 | const std::string& weight ) |
---|
| 1782 | { |
---|
| 1783 | bool insitu = insitu_; |
---|
| 1784 | setInsitu(false); |
---|
| 1785 | CountedPtr< Scantable > beams = getScantable(in, false); |
---|
| 1786 | setInsitu(insitu); |
---|
| 1787 | Table& tout = beams->table(); |
---|
| 1788 | // give all rows the same BEAMNO |
---|
| 1789 | TableVector<uInt> vec(tout, "BEAMNO"); |
---|
| 1790 | vec = 0; |
---|
| 1791 | beams->table_.rwKeywordSet().define("nBeam", Int(1)); |
---|
| 1792 | std::vector<CountedPtr<Scantable> > vbeams; |
---|
| 1793 | vbeams.push_back(beams); |
---|
[1232] | 1794 | CountedPtr< Scantable > out = average(vbeams, mask, weight, "SCAN"); |
---|
[1145] | 1795 | return out; |
---|
| 1796 | } |
---|
[940] | 1797 | |
---|
[1145] | 1798 | |
---|
[940] | 1799 | CountedPtr< Scantable > |
---|
[917] | 1800 | asap::STMath::frequencyAlign( const CountedPtr< Scantable > & in, |
---|
| 1801 | const std::string & refTime, |
---|
[926] | 1802 | const std::string & method) |
---|
[917] | 1803 | { |
---|
[940] | 1804 | // clone as this is not working insitu |
---|
| 1805 | bool insitu = insitu_; |
---|
| 1806 | setInsitu(false); |
---|
[917] | 1807 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
[940] | 1808 | setInsitu(insitu); |
---|
[917] | 1809 | Table& tout = out->table(); |
---|
| 1810 | // Get reference Epoch to time of first row or given String |
---|
| 1811 | Unit DAY(String("d")); |
---|
| 1812 | MEpoch::Ref epochRef(in->getTimeReference()); |
---|
| 1813 | MEpoch refEpoch; |
---|
| 1814 | if (refTime.length()>0) { |
---|
| 1815 | Quantum<Double> qt; |
---|
| 1816 | if (MVTime::read(qt,refTime)) { |
---|
| 1817 | MVEpoch mv(qt); |
---|
| 1818 | refEpoch = MEpoch(mv, epochRef); |
---|
| 1819 | } else { |
---|
| 1820 | throw(AipsError("Invalid format for Epoch string")); |
---|
| 1821 | } |
---|
| 1822 | } else { |
---|
| 1823 | refEpoch = in->timeCol_(0); |
---|
| 1824 | } |
---|
| 1825 | MPosition refPos = in->getAntennaPosition(); |
---|
[940] | 1826 | |
---|
[996] | 1827 | InterpolateArray1D<Double,Float>::InterpolationMethod interp = stringToIMethod(method); |
---|
[917] | 1828 | // test if user frame is different to base frame |
---|
| 1829 | if ( in->frequencies().getFrameString(true) |
---|
| 1830 | == in->frequencies().getFrameString(false) ) { |
---|
[985] | 1831 | throw(AipsError("Can't convert as no output frame has been set" |
---|
| 1832 | " (use set_freqframe) or it is aligned already.")); |
---|
[917] | 1833 | } |
---|
| 1834 | MFrequency::Types system = in->frequencies().getFrame(); |
---|
[940] | 1835 | MVTime mvt(refEpoch.getValue()); |
---|
| 1836 | String epochout = mvt.string(MVTime::YMD) + String(" (") + refEpoch.getRefString() + String(")"); |
---|
| 1837 | ostringstream oss; |
---|
| 1838 | oss << "Aligned at reference Epoch " << epochout |
---|
| 1839 | << " in frame " << MFrequency::showType(system); |
---|
| 1840 | pushLog(String(oss)); |
---|
[917] | 1841 | // set up the iterator |
---|
[926] | 1842 | Block<String> cols(4); |
---|
| 1843 | // select by constant direction |
---|
[917] | 1844 | cols[0] = String("SRCNAME"); |
---|
| 1845 | cols[1] = String("BEAMNO"); |
---|
| 1846 | // select by IF ( no of channels varies over this ) |
---|
| 1847 | cols[2] = String("IFNO"); |
---|
[926] | 1848 | // select by restfrequency |
---|
| 1849 | cols[3] = String("MOLECULE_ID"); |
---|
[917] | 1850 | TableIterator iter(tout, cols); |
---|
[926] | 1851 | while ( !iter.pastEnd() ) { |
---|
[917] | 1852 | Table t = iter.table(); |
---|
| 1853 | MDirection::ROScalarColumn dirCol(t, "DIRECTION"); |
---|
[926] | 1854 | TableIterator fiter(t, "FREQ_ID"); |
---|
[917] | 1855 | // determine nchan from the first row. This should work as |
---|
[926] | 1856 | // we are iterating over BEAMNO and IFNO // we should have constant direction |
---|
| 1857 | |
---|
[917] | 1858 | ROArrayColumn<Float> sCol(t, "SPECTRA"); |
---|
[926] | 1859 | MDirection direction = dirCol(0); |
---|
[917] | 1860 | uInt nchan = sCol(0).nelements(); |
---|
[926] | 1861 | while ( !fiter.pastEnd() ) { |
---|
| 1862 | Table ftab = fiter.table(); |
---|
| 1863 | ScalarColumn<uInt> freqidCol(ftab, "FREQ_ID"); |
---|
| 1864 | // get the SpectralCoordinate for the freqid, which we are iterating over |
---|
| 1865 | SpectralCoordinate sC = in->frequencies().getSpectralCoordinate(freqidCol(0)); |
---|
| 1866 | FrequencyAligner<Float> fa( sC, nchan, refEpoch, |
---|
| 1867 | direction, refPos, system ); |
---|
| 1868 | // realign the SpectralCoordinate and put into the output Scantable |
---|
| 1869 | Vector<String> units(1); |
---|
| 1870 | units = String("Hz"); |
---|
| 1871 | Bool linear=True; |
---|
| 1872 | SpectralCoordinate sc2 = fa.alignedSpectralCoordinate(linear); |
---|
| 1873 | sc2.setWorldAxisUnits(units); |
---|
[934] | 1874 | uInt id = out->frequencies().addEntry(sc2.referencePixel()[0], |
---|
| 1875 | sc2.referenceValue()[0], |
---|
| 1876 | sc2.increment()[0]); |
---|
| 1877 | TableVector<uInt> tvec(ftab, "FREQ_ID"); |
---|
| 1878 | tvec = id; |
---|
[926] | 1879 | // create the "global" abcissa for alignment with same FREQ_ID |
---|
| 1880 | Vector<Double> abc(nchan); |
---|
[917] | 1881 | Double w; |
---|
| 1882 | for (uInt i=0; i<nchan; i++) { |
---|
| 1883 | sC.toWorld(w,Double(i)); |
---|
| 1884 | abc[i] = w; |
---|
| 1885 | } |
---|
[926] | 1886 | // cache abcissa for same time stamps, so iterate over those |
---|
| 1887 | TableIterator timeiter(ftab, "TIME"); |
---|
| 1888 | while ( !timeiter.pastEnd() ) { |
---|
| 1889 | Table tab = timeiter.table(); |
---|
| 1890 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
| 1891 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
| 1892 | MEpoch::ROScalarColumn timeCol(tab, "TIME"); |
---|
| 1893 | // use align abcissa cache after the first row |
---|
| 1894 | bool first = true; |
---|
| 1895 | // these rows should be just be POLNO |
---|
[996] | 1896 | for (int i=0; i<int(tab.nrow()); ++i) { |
---|
[926] | 1897 | // input values |
---|
| 1898 | Vector<uChar> flag = flagCol(i); |
---|
| 1899 | Vector<Bool> mask(flag.shape()); |
---|
| 1900 | Vector<Float> specOut, spec; |
---|
| 1901 | spec = specCol(i); |
---|
| 1902 | Vector<Bool> maskOut;Vector<uChar> flagOut; |
---|
| 1903 | convertArray(mask, flag); |
---|
| 1904 | // alignment |
---|
| 1905 | Bool ok = fa.align(specOut, maskOut, abc, spec, |
---|
| 1906 | mask, timeCol(i), !first, |
---|
| 1907 | interp, False); |
---|
| 1908 | // back into scantable |
---|
| 1909 | flagOut.resize(maskOut.nelements()); |
---|
| 1910 | convertArray(flagOut, maskOut); |
---|
| 1911 | flagCol.put(i, flagOut); |
---|
| 1912 | specCol.put(i, specOut); |
---|
| 1913 | // start abcissa caching |
---|
| 1914 | first = false; |
---|
[917] | 1915 | } |
---|
[926] | 1916 | // next timestamp |
---|
| 1917 | ++timeiter; |
---|
[917] | 1918 | } |
---|
[940] | 1919 | // next FREQ_ID |
---|
[926] | 1920 | ++fiter; |
---|
[917] | 1921 | } |
---|
| 1922 | // next aligner |
---|
| 1923 | ++iter; |
---|
| 1924 | } |
---|
[940] | 1925 | // set this afterwards to ensure we are doing insitu correctly. |
---|
| 1926 | out->frequencies().setFrame(system, true); |
---|
[917] | 1927 | return out; |
---|
| 1928 | } |
---|
[992] | 1929 | |
---|
| 1930 | CountedPtr<Scantable> |
---|
| 1931 | asap::STMath::convertPolarisation( const CountedPtr<Scantable>& in, |
---|
| 1932 | const std::string & newtype ) |
---|
| 1933 | { |
---|
| 1934 | if (in->npol() != 2 && in->npol() != 4) |
---|
| 1935 | throw(AipsError("Can only convert two or four polarisations.")); |
---|
| 1936 | if ( in->getPolType() == newtype ) |
---|
| 1937 | throw(AipsError("No need to convert.")); |
---|
[1000] | 1938 | if ( ! in->selector_.empty() ) |
---|
| 1939 | throw(AipsError("Can only convert whole scantable. Unset the selection.")); |
---|
[992] | 1940 | bool insitu = insitu_; |
---|
| 1941 | setInsitu(false); |
---|
| 1942 | CountedPtr< Scantable > out = getScantable(in, true); |
---|
| 1943 | setInsitu(insitu); |
---|
| 1944 | Table& tout = out->table(); |
---|
| 1945 | tout.rwKeywordSet().define("POLTYPE", String(newtype)); |
---|
| 1946 | |
---|
| 1947 | Block<String> cols(4); |
---|
| 1948 | cols[0] = "SCANNO"; |
---|
| 1949 | cols[1] = "CYCLENO"; |
---|
| 1950 | cols[2] = "BEAMNO"; |
---|
| 1951 | cols[3] = "IFNO"; |
---|
| 1952 | TableIterator it(in->originalTable_, cols); |
---|
| 1953 | String basetype = in->getPolType(); |
---|
| 1954 | STPol* stpol = STPol::getPolClass(in->factories_, basetype); |
---|
| 1955 | try { |
---|
| 1956 | while ( !it.pastEnd() ) { |
---|
| 1957 | Table tab = it.table(); |
---|
| 1958 | uInt row = tab.rowNumbers()[0]; |
---|
| 1959 | stpol->setSpectra(in->getPolMatrix(row)); |
---|
| 1960 | Float fang,fhand,parang; |
---|
| 1961 | fang = in->focusTable_.getTotalFeedAngle(in->mfocusidCol_(row)); |
---|
| 1962 | fhand = in->focusTable_.getFeedHand(in->mfocusidCol_(row)); |
---|
| 1963 | parang = in->paraCol_(row); |
---|
| 1964 | /// @todo re-enable this |
---|
| 1965 | // disable total feed angle to support paralactifying Caswell style |
---|
| 1966 | stpol->setPhaseCorrections(parang, -parang, fhand); |
---|
| 1967 | Int npolout = 0; |
---|
| 1968 | for (uInt i=0; i<tab.nrow(); ++i) { |
---|
| 1969 | Vector<Float> outvec = stpol->getSpectrum(i, newtype); |
---|
| 1970 | if ( outvec.nelements() > 0 ) { |
---|
| 1971 | tout.addRow(); |
---|
| 1972 | TableCopy::copyRows(tout, tab, tout.nrow()-1, 0, 1); |
---|
| 1973 | ArrayColumn<Float> sCol(tout,"SPECTRA"); |
---|
| 1974 | ScalarColumn<uInt> pCol(tout,"POLNO"); |
---|
| 1975 | sCol.put(tout.nrow()-1 ,outvec); |
---|
| 1976 | pCol.put(tout.nrow()-1 ,uInt(npolout)); |
---|
| 1977 | npolout++; |
---|
| 1978 | } |
---|
| 1979 | } |
---|
| 1980 | tout.rwKeywordSet().define("nPol", npolout); |
---|
| 1981 | ++it; |
---|
| 1982 | } |
---|
| 1983 | } catch (AipsError& e) { |
---|
| 1984 | delete stpol; |
---|
| 1985 | throw(e); |
---|
| 1986 | } |
---|
| 1987 | delete stpol; |
---|
| 1988 | return out; |
---|
| 1989 | } |
---|
[1066] | 1990 | |
---|
[1143] | 1991 | CountedPtr< Scantable > |
---|
[1140] | 1992 | asap::STMath::mxExtract( const CountedPtr< Scantable > & in, |
---|
| 1993 | const std::string & scantype ) |
---|
| 1994 | { |
---|
| 1995 | bool insitu = insitu_; |
---|
| 1996 | setInsitu(false); |
---|
| 1997 | CountedPtr< Scantable > out = getScantable(in, true); |
---|
| 1998 | setInsitu(insitu); |
---|
| 1999 | Table& tout = out->table(); |
---|
| 2000 | std::string taql = "SELECT FROM $1 WHERE BEAMNO != REFBEAMNO"; |
---|
| 2001 | if (scantype == "on") { |
---|
| 2002 | taql = "SELECT FROM $1 WHERE BEAMNO == REFBEAMNO"; |
---|
| 2003 | } |
---|
| 2004 | Table tab = tableCommand(taql, in->table()); |
---|
| 2005 | TableCopy::copyRows(tout, tab); |
---|
| 2006 | if (scantype == "on") { |
---|
[1143] | 2007 | // re-index SCANNO to 0 |
---|
[1140] | 2008 | TableVector<uInt> vec(tout, "SCANNO"); |
---|
| 2009 | vec = 0; |
---|
| 2010 | } |
---|
| 2011 | return out; |
---|
| 2012 | } |
---|
[1192] | 2013 | |
---|
| 2014 | CountedPtr< Scantable > |
---|
| 2015 | asap::STMath::lagFlag( const CountedPtr< Scantable > & in, |
---|
[1200] | 2016 | double frequency, double width ) |
---|
[1192] | 2017 | { |
---|
| 2018 | CountedPtr< Scantable > out = getScantable(in, false); |
---|
| 2019 | Table& tout = out->table(); |
---|
| 2020 | TableIterator iter(tout, "FREQ_ID"); |
---|
| 2021 | FFTServer<Float,Complex> ffts; |
---|
| 2022 | while ( !iter.pastEnd() ) { |
---|
| 2023 | Table tab = iter.table(); |
---|
| 2024 | Double rp,rv,inc; |
---|
| 2025 | ROTableRow row(tab); |
---|
| 2026 | const TableRecord& rec = row.get(0); |
---|
| 2027 | uInt freqid = rec.asuInt("FREQ_ID"); |
---|
| 2028 | out->frequencies().getEntry(rp, rv, inc, freqid); |
---|
| 2029 | ArrayColumn<Float> specCol(tab, "SPECTRA"); |
---|
| 2030 | ArrayColumn<uChar> flagCol(tab, "FLAGTRA"); |
---|
| 2031 | for (int i=0; i<int(tab.nrow()); ++i) { |
---|
| 2032 | Vector<Float> spec = specCol(i); |
---|
| 2033 | Vector<uChar> flag = flagCol(i); |
---|
[1200] | 2034 | Int lag0 = Int(spec.nelements()*abs(inc)/(frequency+width)+0.5); |
---|
| 2035 | Int lag1 = Int(spec.nelements()*abs(inc)/(frequency-width)+0.5); |
---|
[1192] | 2036 | for (int k=0; k < flag.nelements(); ++k ) { |
---|
| 2037 | if (flag[k] > 0) { |
---|
| 2038 | spec[k] = 0.0; |
---|
| 2039 | } |
---|
| 2040 | } |
---|
| 2041 | Vector<Complex> lags; |
---|
[1203] | 2042 | ffts.fft0(lags, spec); |
---|
[1200] | 2043 | Int start = max(0, lag0); |
---|
| 2044 | Int end = min(Int(lags.nelements()-1), lag1); |
---|
[1192] | 2045 | if (start == end) { |
---|
| 2046 | lags[start] = Complex(0.0); |
---|
| 2047 | } else { |
---|
| 2048 | for (int j=start; j <=end ;++j) { |
---|
| 2049 | lags[j] = Complex(0.0); |
---|
| 2050 | } |
---|
| 2051 | } |
---|
[1203] | 2052 | ffts.fft0(spec, lags); |
---|
[1192] | 2053 | specCol.put(i, spec); |
---|
| 2054 | } |
---|
| 2055 | ++iter; |
---|
| 2056 | } |
---|
| 2057 | return out; |
---|
| 2058 | } |
---|
[1446] | 2059 | |
---|
| 2060 | // Averaging spectra with different channel/resolution |
---|
| 2061 | CountedPtr<Scantable> |
---|
| 2062 | STMath::new_average( const std::vector<CountedPtr<Scantable> >& in, |
---|
| 2063 | const bool& compel, |
---|
| 2064 | const std::vector<bool>& mask, |
---|
| 2065 | const std::string& weight, |
---|
| 2066 | const std::string& avmode ) |
---|
| 2067 | throw ( casa::AipsError ) |
---|
| 2068 | { |
---|
| 2069 | if ( avmode == "SCAN" && in.size() != 1 ) |
---|
| 2070 | throw(AipsError("Can't perform 'SCAN' averaging on multiple tables.\n" |
---|
| 2071 | "Use merge first.")); |
---|
| 2072 | |
---|
| 2073 | CountedPtr<Scantable> out ; // processed result |
---|
| 2074 | if ( compel ) { |
---|
| 2075 | std::vector< CountedPtr<Scantable> > newin ; // input for average process |
---|
| 2076 | uInt insize = in.size() ; // number of scantables |
---|
| 2077 | |
---|
| 2078 | // TEST: do normal average in each table before IF grouping |
---|
| 2079 | cout << "Do preliminary averaging" << endl ; |
---|
| 2080 | vector< CountedPtr<Scantable> > tmpin( insize ) ; |
---|
| 2081 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
| 2082 | vector< CountedPtr<Scantable> > v( 1, in[itable] ) ; |
---|
| 2083 | tmpin[itable] = average( v, mask, weight, avmode ) ; |
---|
| 2084 | } |
---|
| 2085 | |
---|
| 2086 | // warning |
---|
| 2087 | cout << "Average spectra with different spectral resolution" << endl ; |
---|
| 2088 | cout << endl ; |
---|
| 2089 | |
---|
| 2090 | // temporarily set coordinfo |
---|
| 2091 | vector<string> oldinfo( insize ) ; |
---|
| 2092 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
| 2093 | vector<string> coordinfo = in[itable]->getCoordInfo() ; |
---|
| 2094 | oldinfo[itable] = coordinfo[0] ; |
---|
| 2095 | coordinfo[0] = "Hz" ; |
---|
| 2096 | tmpin[itable]->setCoordInfo( coordinfo ) ; |
---|
| 2097 | } |
---|
| 2098 | |
---|
| 2099 | // columns |
---|
| 2100 | ScalarColumn<uInt> freqIDCol ; |
---|
| 2101 | ScalarColumn<uInt> ifnoCol ; |
---|
| 2102 | ScalarColumn<uInt> scannoCol ; |
---|
| 2103 | |
---|
| 2104 | |
---|
| 2105 | // check IF frequency coverage |
---|
| 2106 | //cout << "Check IF settings in each table" << endl ; |
---|
| 2107 | vector< vector<uInt> > freqid( insize ); |
---|
| 2108 | vector< vector<double> > iffreq( insize ) ; |
---|
| 2109 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
| 2110 | uInt rows = tmpin[itable]->nrow() ; |
---|
| 2111 | uInt freqnrows = tmpin[itable]->frequencies().table().nrow() ; |
---|
| 2112 | for ( uInt irow = 0 ; irow < rows ; irow++ ) { |
---|
| 2113 | if ( freqid[itable].size() == freqnrows ) { |
---|
| 2114 | break ; |
---|
| 2115 | } |
---|
| 2116 | else { |
---|
| 2117 | freqIDCol.attach( tmpin[itable]->table(), "FREQ_ID" ) ; |
---|
| 2118 | ifnoCol.attach( tmpin[itable]->table(), "IFNO" ) ; |
---|
| 2119 | uInt id = freqIDCol( irow ) ; |
---|
| 2120 | if ( freqid[itable].size() == 0 || count( freqid[itable].begin(), freqid[itable].end(), id ) == 0 ) { |
---|
| 2121 | //cout << "itable = " << itable << ": IF " << id << " is included in the list" << endl ; |
---|
| 2122 | vector<double> abcissa = tmpin[itable]->getAbcissa( irow ) ; |
---|
| 2123 | freqid[itable].push_back( id ) ; |
---|
| 2124 | iffreq[itable].push_back( abcissa[0] - 0.5 * ( abcissa[1] - abcissa[0] ) ) ; |
---|
| 2125 | iffreq[itable].push_back( abcissa[abcissa.size()-1] + 0.5 * ( abcissa[1] - abcissa[0] ) ) ; |
---|
| 2126 | } |
---|
| 2127 | } |
---|
| 2128 | } |
---|
| 2129 | } |
---|
| 2130 | |
---|
| 2131 | // debug |
---|
| 2132 | //cout << "IF settings summary:" << endl ; |
---|
| 2133 | //for ( uInt i = 0 ; i < freqid.size() ; i++ ) { |
---|
| 2134 | //cout << " Table" << i << endl ; |
---|
| 2135 | //for ( uInt j = 0 ; j < freqid[i].size() ; j++ ) { |
---|
| 2136 | //cout << " id = " << freqid[i][j] << " (min,max) = (" << iffreq[i][2*j] << "," << iffreq[i][2*j+1] << ")" << endl ; |
---|
| 2137 | //} |
---|
| 2138 | //} |
---|
| 2139 | //cout << endl ; |
---|
| 2140 | |
---|
| 2141 | // IF grouping based on their frequency coverage |
---|
| 2142 | //cout << "IF grouping based on their frequency coverage" << endl ; |
---|
| 2143 | |
---|
| 2144 | // IF group |
---|
| 2145 | // ifgrp[numgrp][nummember*2] |
---|
| 2146 | // ifgrp = [table00, freqrow00, table01, freqrow01, ...], |
---|
| 2147 | // [table11, freqrow11, table11, freqrow11, ...], |
---|
| 2148 | // ... |
---|
| 2149 | // ifgfreq[numgrp*2] |
---|
| 2150 | // ifgfreq = [min0, max0, min1, max1, ...] |
---|
| 2151 | vector< vector<uInt> > ifgrp ; |
---|
| 2152 | vector<double> ifgfreq ; |
---|
| 2153 | |
---|
| 2154 | // parameter for IF grouping |
---|
| 2155 | // groupmode = OR retrieve all region |
---|
| 2156 | // AND only retrieve overlaped region |
---|
| 2157 | //string groupmode = "AND" ; |
---|
| 2158 | string groupmode = "OR" ; |
---|
| 2159 | uInt sizecr = 0 ; |
---|
| 2160 | if ( groupmode == "AND" ) |
---|
| 2161 | sizecr = 2 ; |
---|
| 2162 | else if ( groupmode == "OR" ) |
---|
| 2163 | sizecr = 0 ; |
---|
| 2164 | |
---|
| 2165 | vector<double> sortedfreq ; |
---|
| 2166 | for ( uInt i = 0 ; i < iffreq.size() ; i++ ) { |
---|
| 2167 | for ( uInt j = 0 ; j < iffreq[i].size() ; j++ ) { |
---|
| 2168 | if ( count( sortedfreq.begin(), sortedfreq.end(), iffreq[i][j] ) == 0 ) |
---|
| 2169 | sortedfreq.push_back( iffreq[i][j] ) ; |
---|
| 2170 | } |
---|
| 2171 | } |
---|
| 2172 | sort( sortedfreq.begin(), sortedfreq.end() ) ; |
---|
| 2173 | for ( vector<double>::iterator i = sortedfreq.begin() ; i != sortedfreq.end()-1 ; i++ ) { |
---|
| 2174 | ifgfreq.push_back( *i ) ; |
---|
| 2175 | ifgfreq.push_back( *(i+1) ) ; |
---|
| 2176 | } |
---|
| 2177 | ifgrp.resize( ifgfreq.size()/2 ) ; |
---|
| 2178 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
| 2179 | for ( uInt iif = 0 ; iif < freqid[itable].size() ; iif++ ) { |
---|
| 2180 | double range0 = iffreq[itable][2*iif] ; |
---|
| 2181 | double range1 = iffreq[itable][2*iif+1] ; |
---|
| 2182 | for ( uInt j = 0 ; j < ifgrp.size() ; j++ ) { |
---|
| 2183 | double fmin = max( range0, ifgfreq[2*j] ) ; |
---|
| 2184 | double fmax = min( range1, ifgfreq[2*j+1] ) ; |
---|
| 2185 | if ( fmin < fmax ) { |
---|
| 2186 | ifgrp[j].push_back( itable ) ; |
---|
| 2187 | ifgrp[j].push_back( freqid[itable][iif] ) ; |
---|
| 2188 | } |
---|
| 2189 | } |
---|
| 2190 | } |
---|
| 2191 | } |
---|
| 2192 | vector< vector<uInt> >::iterator fiter = ifgrp.begin() ; |
---|
| 2193 | vector<double>::iterator giter = ifgfreq.begin() ; |
---|
| 2194 | while( fiter != ifgrp.end() ) { |
---|
| 2195 | if ( fiter->size() <= sizecr ) { |
---|
| 2196 | fiter = ifgrp.erase( fiter ) ; |
---|
| 2197 | giter = ifgfreq.erase( giter ) ; |
---|
| 2198 | giter = ifgfreq.erase( giter ) ; |
---|
| 2199 | } |
---|
| 2200 | else { |
---|
| 2201 | fiter++ ; |
---|
| 2202 | advance( giter, 2 ) ; |
---|
| 2203 | } |
---|
| 2204 | } |
---|
| 2205 | |
---|
| 2206 | // freqgrp[numgrp][nummember] |
---|
| 2207 | // freqgrp = [ifgrp00, ifgrp01, ifgrp02, ...], |
---|
| 2208 | // [ifgrp10, ifgrp11, ifgrp12, ...], |
---|
| 2209 | // ... |
---|
| 2210 | // freqrange[numgrp*2] |
---|
| 2211 | // freqrange = [min0, max0, min1, max1, ...] |
---|
| 2212 | vector< vector<uInt> > freqgrp ; |
---|
| 2213 | double freqrange = 0.0 ; |
---|
| 2214 | uInt grpnum = 0 ; |
---|
| 2215 | for ( uInt i = 0 ; i < ifgrp.size() ; i++ ) { |
---|
| 2216 | // Assumed that ifgfreq was sorted |
---|
| 2217 | if ( grpnum != 0 && freqrange == ifgfreq[2*i] ) { |
---|
| 2218 | freqgrp[grpnum-1].push_back( i ) ; |
---|
| 2219 | } |
---|
| 2220 | else { |
---|
| 2221 | vector<uInt> grp0( 1, i ) ; |
---|
| 2222 | freqgrp.push_back( grp0 ) ; |
---|
| 2223 | grpnum++ ; |
---|
| 2224 | } |
---|
| 2225 | freqrange = ifgfreq[2*i+1] ; |
---|
| 2226 | } |
---|
| 2227 | |
---|
| 2228 | |
---|
| 2229 | // print IF groups |
---|
| 2230 | cout << "IF Group summary: " << endl ; |
---|
| 2231 | cout << " GROUP_ID [FREQ_MIN, FREQ_MAX]: (TABLE_ID, FREQ_ID)" << endl ; |
---|
| 2232 | for ( uInt i = 0 ; i < ifgrp.size() ; i++ ) { |
---|
| 2233 | cout << " GROUP " << setw( 2 ) << i << " [" << ifgfreq[2*i] << "," << ifgfreq[2*i+1] << "]: " ; |
---|
| 2234 | for ( uInt j = 0 ; j < ifgrp[i].size()/2 ; j++ ) { |
---|
| 2235 | cout << "(" << ifgrp[i][2*j] << "," << ifgrp[i][2*j+1] << ") " ; |
---|
| 2236 | } |
---|
| 2237 | cout << endl ; |
---|
| 2238 | } |
---|
| 2239 | cout << endl ; |
---|
| 2240 | |
---|
| 2241 | // print frequency group |
---|
| 2242 | cout << "Frequency Group summary: " << endl ; |
---|
| 2243 | cout << " GROUP_ID [FREQ_MIN, FREQ_MAX]: IF_GROUP_ID" << endl ; |
---|
| 2244 | for ( uInt i = 0 ; i < freqgrp.size() ; i++ ) { |
---|
| 2245 | cout << " GROUP " << setw( 2 ) << i << " [" << ifgfreq[2*freqgrp[i][0]] << "," << ifgfreq[2*freqgrp[i][freqgrp[i].size()-1]+1] << "]: " ; |
---|
| 2246 | for ( uInt j = 0 ; j < freqgrp[i].size() ; j++ ) { |
---|
| 2247 | cout << freqgrp[i][j] << " " ; |
---|
| 2248 | } |
---|
| 2249 | cout << endl ; |
---|
| 2250 | } |
---|
| 2251 | cout << endl ; |
---|
| 2252 | |
---|
| 2253 | // membership check |
---|
| 2254 | // groups[numtable][numIF][nummembership] |
---|
| 2255 | vector< vector< vector<uInt> > > groups( insize ) ; |
---|
| 2256 | for ( uInt i = 0 ; i < insize ; i++ ) { |
---|
| 2257 | groups[i].resize( freqid[i].size() ) ; |
---|
| 2258 | } |
---|
| 2259 | for ( uInt igrp = 0 ; igrp < ifgrp.size() ; igrp++ ) { |
---|
| 2260 | for ( uInt imem = 0 ; imem < ifgrp[igrp].size()/2 ; imem++ ) { |
---|
| 2261 | uInt tableid = ifgrp[igrp][2*imem] ; |
---|
| 2262 | vector<uInt>::iterator iter = find( freqid[tableid].begin(), freqid[tableid].end(), ifgrp[igrp][2*imem+1] ) ; |
---|
| 2263 | if ( iter != freqid[tableid].end() ) { |
---|
| 2264 | uInt rowid = distance( freqid[tableid].begin(), iter ) ; |
---|
| 2265 | groups[tableid][rowid].push_back( igrp ) ; |
---|
| 2266 | } |
---|
| 2267 | } |
---|
| 2268 | } |
---|
| 2269 | |
---|
| 2270 | // print membership |
---|
| 2271 | //for ( uInt i = 0 ; i < insize ; i++ ) { |
---|
| 2272 | //cout << "Table " << i << endl ; |
---|
| 2273 | //for ( uInt j = 0 ; j < groups[i].size() ; j++ ) { |
---|
| 2274 | //cout << " FREQ_ID " << setw( 2 ) << freqid[i][j] << ": " ; |
---|
| 2275 | //for ( uInt k = 0 ; k < groups[i][j].size() ; k++ ) { |
---|
| 2276 | //cout << setw( 2 ) << groups[i][j][k] << " " ; |
---|
| 2277 | //} |
---|
| 2278 | //cout << endl ; |
---|
| 2279 | //} |
---|
| 2280 | //} |
---|
| 2281 | |
---|
| 2282 | // set back coordinfo |
---|
| 2283 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
| 2284 | vector<string> coordinfo = tmpin[itable]->getCoordInfo() ; |
---|
| 2285 | coordinfo[0] = oldinfo[itable] ; |
---|
| 2286 | tmpin[itable]->setCoordInfo( coordinfo ) ; |
---|
| 2287 | } |
---|
| 2288 | |
---|
| 2289 | // Create additional table if needed |
---|
| 2290 | bool oldInsitu = insitu_ ; |
---|
| 2291 | setInsitu( false ) ; |
---|
| 2292 | vector< vector<uInt> > addrow( insize ) ; |
---|
| 2293 | vector<uInt> addtable( insize, 0 ) ; |
---|
| 2294 | vector<uInt> newtableids( insize ) ; |
---|
| 2295 | vector<uInt> newifids( insize, 0 ) ; |
---|
| 2296 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
| 2297 | //cout << "Table " << setw(2) << itable << ": " ; |
---|
| 2298 | for ( uInt ifrow = 0 ; ifrow < groups[itable].size() ; ifrow++ ) { |
---|
| 2299 | addrow[itable].push_back( groups[itable][ifrow].size()-1 ) ; |
---|
| 2300 | //cout << addrow[itable][ifrow] << " " ; |
---|
| 2301 | } |
---|
| 2302 | addtable[itable] = *max_element( addrow[itable].begin(), addrow[itable].end() ) ; |
---|
| 2303 | //cout << "(" << addtable[itable] << ")" << endl ; |
---|
| 2304 | } |
---|
| 2305 | newin.resize( insize ) ; |
---|
| 2306 | copy( tmpin.begin(), tmpin.end(), newin.begin() ) ; |
---|
| 2307 | for ( uInt i = 0 ; i < insize ; i++ ) { |
---|
| 2308 | newtableids[i] = i ; |
---|
| 2309 | } |
---|
| 2310 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
| 2311 | for ( uInt iadd = 0 ; iadd < addtable[itable] ; iadd++ ) { |
---|
| 2312 | CountedPtr<Scantable> add = getScantable( newin[itable], false ) ; |
---|
| 2313 | vector<int> freqidlist ; |
---|
| 2314 | for ( uInt i = 0 ; i < groups[itable].size() ; i++ ) { |
---|
| 2315 | if ( groups[itable][i].size() > iadd + 1 ) { |
---|
| 2316 | freqidlist.push_back( freqid[itable][i] ) ; |
---|
| 2317 | } |
---|
| 2318 | } |
---|
| 2319 | stringstream taqlstream ; |
---|
| 2320 | taqlstream << "SELECT FROM $1 WHERE FREQ_ID IN [" ; |
---|
| 2321 | for ( uInt i = 0 ; i < freqidlist.size() ; i++ ) { |
---|
| 2322 | taqlstream << i ; |
---|
| 2323 | if ( i < freqidlist.size() - 1 ) |
---|
| 2324 | taqlstream << "," ; |
---|
| 2325 | else |
---|
| 2326 | taqlstream << "]" ; |
---|
| 2327 | } |
---|
| 2328 | string taql = taqlstream.str() ; |
---|
| 2329 | //cout << "taql = " << taql << endl ; |
---|
| 2330 | STSelector selector = STSelector() ; |
---|
| 2331 | selector.setTaQL( taql ) ; |
---|
| 2332 | add->setSelection( selector ) ; |
---|
| 2333 | newin.push_back( add ) ; |
---|
| 2334 | newtableids.push_back( itable ) ; |
---|
| 2335 | newifids.push_back( iadd + 1 ) ; |
---|
| 2336 | } |
---|
| 2337 | } |
---|
| 2338 | |
---|
| 2339 | // udpate ifgrp |
---|
| 2340 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
| 2341 | for ( uInt iadd = 0 ; iadd < addtable[itable] ; iadd++ ) { |
---|
| 2342 | for ( uInt ifrow = 0 ; ifrow < groups[itable].size() ; ifrow++ ) { |
---|
| 2343 | if ( groups[itable][ifrow].size() > iadd + 1 ) { |
---|
| 2344 | uInt igrp = groups[itable][ifrow][iadd+1] ; |
---|
| 2345 | for ( uInt imem = 0 ; imem < ifgrp[igrp].size()/2 ; imem++ ) { |
---|
| 2346 | if ( ifgrp[igrp][2*imem] == newtableids[iadd+insize] && ifgrp[igrp][2*imem+1] == freqid[newtableids[iadd+insize]][ifrow] ) { |
---|
| 2347 | ifgrp[igrp][2*imem] = insize + iadd ; |
---|
| 2348 | } |
---|
| 2349 | } |
---|
| 2350 | } |
---|
| 2351 | } |
---|
| 2352 | } |
---|
| 2353 | } |
---|
| 2354 | |
---|
| 2355 | // print IF groups again for debug |
---|
| 2356 | //cout << "IF Group summary: " << endl ; |
---|
| 2357 | //cout << " GROUP_ID [FREQ_MIN, FREQ_MAX]: (TABLE_ID, FREQ_ID)" << endl ; |
---|
| 2358 | //for ( uInt i = 0 ; i < ifgrp.size() ; i++ ) { |
---|
| 2359 | //cout << " GROUP " << setw( 2 ) << i << " [" << ifgfreq[2*i] << "," << ifgfreq[2*i+1] << "]: " ; |
---|
| 2360 | //for ( uInt j = 0 ; j < ifgrp[i].size()/2 ; j++ ) { |
---|
| 2361 | //cout << "(" << ifgrp[i][2*j] << "," << ifgrp[i][2*j+1] << ") " ; |
---|
| 2362 | //} |
---|
| 2363 | //cout << endl ; |
---|
| 2364 | //} |
---|
| 2365 | //cout << endl ; |
---|
| 2366 | |
---|
| 2367 | // reset SCANNO and IF: IF number is reset by the result of sortation |
---|
| 2368 | cout << "All scan number is set to 0" << endl ; |
---|
| 2369 | //cout << "All IF number is set to IF group index" << endl ; |
---|
| 2370 | cout << endl ; |
---|
| 2371 | insize = newin.size() ; |
---|
| 2372 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
| 2373 | uInt rows = newin[itable]->nrow() ; |
---|
| 2374 | Table &tmpt = newin[itable]->table() ; |
---|
| 2375 | freqIDCol.attach( tmpt, "FREQ_ID" ) ; |
---|
| 2376 | scannoCol.attach( tmpt, "SCANNO" ) ; |
---|
| 2377 | ifnoCol.attach( tmpt, "IFNO" ) ; |
---|
| 2378 | for ( uInt irow=0 ; irow < rows ; irow++ ) { |
---|
| 2379 | scannoCol.put( irow, 0 ) ; |
---|
| 2380 | uInt freqID = freqIDCol( irow ) ; |
---|
| 2381 | vector<uInt>::iterator iter = find( freqid[newtableids[itable]].begin(), freqid[newtableids[itable]].end(), freqID ) ; |
---|
| 2382 | if ( iter != freqid[newtableids[itable]].end() ) { |
---|
| 2383 | uInt index = distance( freqid[newtableids[itable]].begin(), iter ) ; |
---|
| 2384 | ifnoCol.put( irow, groups[newtableids[itable]][index][newifids[itable]] ) ; |
---|
| 2385 | } |
---|
| 2386 | else { |
---|
| 2387 | throw(AipsError("IF grouping was wrong in additional tables.")) ; |
---|
| 2388 | } |
---|
| 2389 | } |
---|
| 2390 | } |
---|
| 2391 | oldinfo.resize( insize ) ; |
---|
| 2392 | setInsitu( oldInsitu ) ; |
---|
| 2393 | |
---|
| 2394 | // temporarily set coordinfo |
---|
| 2395 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
| 2396 | vector<string> coordinfo = newin[itable]->getCoordInfo() ; |
---|
| 2397 | oldinfo[itable] = coordinfo[0] ; |
---|
| 2398 | coordinfo[0] = "Hz" ; |
---|
| 2399 | newin[itable]->setCoordInfo( coordinfo ) ; |
---|
| 2400 | } |
---|
| 2401 | |
---|
| 2402 | // save column values in the vector |
---|
| 2403 | vector< vector<uInt> > freqTableIdVec( insize ) ; |
---|
| 2404 | vector< vector<uInt> > freqIdVec( insize ) ; |
---|
| 2405 | vector< vector<uInt> > ifNoVec( insize ) ; |
---|
| 2406 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
| 2407 | ScalarColumn<uInt> freqIDs ; |
---|
| 2408 | freqIDs.attach( newin[itable]->frequencies().table(), "ID" ) ; |
---|
| 2409 | ifnoCol.attach( newin[itable]->table(), "IFNO" ) ; |
---|
| 2410 | freqIDCol.attach( newin[itable]->table(), "FREQ_ID" ) ; |
---|
| 2411 | for ( uInt irow = 0 ; irow < newin[itable]->frequencies().table().nrow() ; irow++ ) { |
---|
| 2412 | freqTableIdVec[itable].push_back( freqIDs( irow ) ) ; |
---|
| 2413 | } |
---|
| 2414 | for ( uInt irow = 0 ; irow < newin[itable]->table().nrow() ; irow++ ) { |
---|
| 2415 | freqIdVec[itable].push_back( freqIDCol( irow ) ) ; |
---|
| 2416 | ifNoVec[itable].push_back( ifnoCol( irow ) ) ; |
---|
| 2417 | } |
---|
| 2418 | } |
---|
| 2419 | |
---|
| 2420 | // reset spectra and flagtra: pick up common part of frequency coverage |
---|
| 2421 | //cout << "Pick common frequency range and align resolution" << endl ; |
---|
| 2422 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
| 2423 | uInt rows = newin[itable]->nrow() ; |
---|
| 2424 | int nminchan = -1 ; |
---|
| 2425 | int nmaxchan = -1 ; |
---|
| 2426 | vector<uInt> freqIdUpdate ; |
---|
| 2427 | for ( uInt irow = 0 ; irow < rows ; irow++ ) { |
---|
| 2428 | uInt ifno = ifNoVec[itable][irow] ; // IFNO is reset by group index |
---|
| 2429 | double minfreq = ifgfreq[2*ifno] ; |
---|
| 2430 | double maxfreq = ifgfreq[2*ifno+1] ; |
---|
| 2431 | //cout << "frequency range: [" << minfreq << "," << maxfreq << "]" << endl ; |
---|
| 2432 | vector<double> abcissa = newin[itable]->getAbcissa( irow ) ; |
---|
| 2433 | int nchan = abcissa.size() ; |
---|
| 2434 | double resol = abcissa[1] - abcissa[0] ; |
---|
| 2435 | //cout << "abcissa range : [" << abcissa[0] << "," << abcissa[nchan-1] << "]" << endl ; |
---|
| 2436 | if ( minfreq <= abcissa[0] ) |
---|
| 2437 | nminchan = 0 ; |
---|
| 2438 | else { |
---|
| 2439 | //double cfreq = ( minfreq - abcissa[0] ) / resol ; |
---|
| 2440 | double cfreq = ( minfreq - abcissa[0] + 0.5 * resol ) / resol ; |
---|
| 2441 | nminchan = int(cfreq) + ( ( cfreq - int(cfreq) <= 0.5 ) ? 0 : 1 ) ; |
---|
| 2442 | } |
---|
| 2443 | if ( maxfreq >= abcissa[abcissa.size()-1] ) |
---|
| 2444 | nmaxchan = abcissa.size() - 1 ; |
---|
| 2445 | else { |
---|
| 2446 | //double cfreq = ( abcissa[abcissa.size()-1] - maxfreq ) / resol ; |
---|
| 2447 | double cfreq = ( abcissa[abcissa.size()-1] - maxfreq + 0.5 * resol ) / resol ; |
---|
| 2448 | nmaxchan = abcissa.size() - 1 - int(cfreq) - ( ( cfreq - int(cfreq) >= 0.5 ) ? 1 : 0 ) ; |
---|
| 2449 | } |
---|
| 2450 | //cout << "channel range (" << irow << "): [" << nminchan << "," << nmaxchan << "]" << endl ; |
---|
| 2451 | if ( nmaxchan > nminchan ) { |
---|
| 2452 | newin[itable]->reshapeSpectrum( nminchan, nmaxchan, irow ) ; |
---|
| 2453 | int newchan = nmaxchan - nminchan + 1 ; |
---|
| 2454 | if ( count( freqIdUpdate.begin(), freqIdUpdate.end(), freqIdVec[itable][irow] ) == 0 && newchan < nchan ) |
---|
| 2455 | freqIdUpdate.push_back( freqIdVec[itable][irow] ) ; |
---|
| 2456 | } |
---|
| 2457 | else { |
---|
| 2458 | throw(AipsError("Failed to pick up common part of frequency range.")) ; |
---|
| 2459 | } |
---|
| 2460 | } |
---|
| 2461 | for ( uInt i = 0 ; i < freqIdUpdate.size() ; i++ ) { |
---|
| 2462 | uInt freqId = freqIdUpdate[i] ; |
---|
| 2463 | Double refpix ; |
---|
| 2464 | Double refval ; |
---|
| 2465 | Double increment ; |
---|
| 2466 | |
---|
| 2467 | // update row |
---|
| 2468 | newin[itable]->frequencies().getEntry( refpix, refval, increment, freqId ) ; |
---|
| 2469 | refval = refval - ( refpix - nminchan ) * increment ; |
---|
| 2470 | refpix = 0 ; |
---|
| 2471 | newin[itable]->frequencies().setEntry( refpix, refval, increment, freqId ) ; |
---|
| 2472 | } |
---|
| 2473 | } |
---|
| 2474 | |
---|
| 2475 | |
---|
| 2476 | // reset spectra and flagtra: align spectral resolution |
---|
| 2477 | //cout << "Align spectral resolution" << endl ; |
---|
| 2478 | vector<double> gmaxdnu( freqgrp.size(), 0.0 ) ; |
---|
| 2479 | vector<uInt> gmemid( freqgrp.size(), 0 ) ; |
---|
| 2480 | for ( uInt igrp = 0 ; igrp < ifgrp.size() ; igrp++ ) { |
---|
| 2481 | double maxdnu = 0.0 ; // maximum (coarsest) frequency resolution |
---|
| 2482 | int minchan = INT_MAX ; // minimum channel number |
---|
| 2483 | Double refpixref = -1 ; // reference of 'reference pixel' |
---|
| 2484 | Double refvalref = -1 ; // reference of 'reference frequency' |
---|
| 2485 | Double refinc = -1 ; // reference frequency resolution |
---|
| 2486 | uInt refreqid ; |
---|
| 2487 | uInt reftable = INT_MAX; |
---|
| 2488 | // process only if group member > 1 |
---|
| 2489 | if ( ifgrp[igrp].size() > 2 ) { |
---|
| 2490 | // find minchan and maxdnu in each group |
---|
| 2491 | for ( uInt imem = 0 ; imem < ifgrp[igrp].size()/2 ; imem++ ) { |
---|
| 2492 | uInt tableid = ifgrp[igrp][2*imem] ; |
---|
| 2493 | uInt rowid = ifgrp[igrp][2*imem+1] ; |
---|
| 2494 | vector<uInt>::iterator iter = find( freqIdVec[tableid].begin(), freqIdVec[tableid].end(), rowid ) ; |
---|
| 2495 | if ( iter != freqIdVec[tableid].end() ) { |
---|
| 2496 | uInt index = distance( freqIdVec[tableid].begin(), iter ) ; |
---|
| 2497 | vector<double> abcissa = newin[tableid]->getAbcissa( index ) ; |
---|
| 2498 | int nchan = abcissa.size() ; |
---|
| 2499 | double dnu = abcissa[1] - abcissa[0] ; |
---|
| 2500 | //cout << "GROUP " << igrp << " (" << tableid << "," << rowid << "): nchan = " << nchan << " (minchan = " << minchan << ")" << endl ; |
---|
| 2501 | if ( nchan < minchan ) { |
---|
| 2502 | minchan = nchan ; |
---|
| 2503 | maxdnu = dnu ; |
---|
| 2504 | newin[tableid]->frequencies().getEntry( refpixref, refvalref, refinc, rowid ) ; |
---|
| 2505 | refreqid = rowid ; |
---|
| 2506 | reftable = tableid ; |
---|
| 2507 | } |
---|
| 2508 | } |
---|
| 2509 | } |
---|
| 2510 | // regrid spectra in each group |
---|
| 2511 | cout << "GROUP " << igrp << endl ; |
---|
| 2512 | cout << " Channel number is adjusted to " << minchan << endl ; |
---|
| 2513 | cout << " Corresponding frequency resolution is " << maxdnu << "Hz" << endl ; |
---|
| 2514 | for ( uInt imem = 0 ; imem < ifgrp[igrp].size()/2 ; imem++ ) { |
---|
| 2515 | uInt tableid = ifgrp[igrp][2*imem] ; |
---|
| 2516 | uInt rowid = ifgrp[igrp][2*imem+1] ; |
---|
| 2517 | freqIDCol.attach( newin[tableid]->table(), "FREQ_ID" ) ; |
---|
| 2518 | //cout << "tableid = " << tableid << " rowid = " << rowid << ": " << endl ; |
---|
| 2519 | //cout << " regridChannel applied to " ; |
---|
| 2520 | if ( tableid != reftable ) |
---|
| 2521 | refreqid = newin[tableid]->frequencies().addEntry( refpixref, refvalref, refinc ) ; |
---|
| 2522 | for ( uInt irow = 0 ; irow < newin[tableid]->table().nrow() ; irow++ ) { |
---|
| 2523 | uInt tfreqid = freqIdVec[tableid][irow] ; |
---|
| 2524 | if ( tfreqid == rowid ) { |
---|
| 2525 | //cout << irow << " " ; |
---|
| 2526 | newin[tableid]->regridChannel( minchan, maxdnu, irow ) ; |
---|
| 2527 | freqIDCol.put( irow, refreqid ) ; |
---|
| 2528 | freqIdVec[tableid][irow] = refreqid ; |
---|
| 2529 | } |
---|
| 2530 | } |
---|
| 2531 | //cout << endl ; |
---|
| 2532 | } |
---|
| 2533 | } |
---|
| 2534 | else { |
---|
| 2535 | uInt tableid = ifgrp[igrp][0] ; |
---|
| 2536 | uInt rowid = ifgrp[igrp][1] ; |
---|
| 2537 | vector<uInt>::iterator iter = find( freqIdVec[tableid].begin(), freqIdVec[tableid].end(), rowid ) ; |
---|
| 2538 | if ( iter != freqIdVec[tableid].end() ) { |
---|
| 2539 | uInt index = distance( freqIdVec[tableid].begin(), iter ) ; |
---|
| 2540 | vector<double> abcissa = newin[tableid]->getAbcissa( index ) ; |
---|
| 2541 | minchan = abcissa.size() ; |
---|
| 2542 | maxdnu = abcissa[1] - abcissa[0] ; |
---|
| 2543 | } |
---|
| 2544 | } |
---|
| 2545 | for ( uInt i = 0 ; i < freqgrp.size() ; i++ ) { |
---|
| 2546 | if ( count( freqgrp[i].begin(), freqgrp[i].end(), igrp ) > 0 ) { |
---|
| 2547 | if ( maxdnu > gmaxdnu[i] ) { |
---|
| 2548 | gmaxdnu[i] = maxdnu ; |
---|
| 2549 | gmemid[i] = igrp ; |
---|
| 2550 | } |
---|
| 2551 | break ; |
---|
| 2552 | } |
---|
| 2553 | } |
---|
| 2554 | } |
---|
| 2555 | cout << endl ; |
---|
| 2556 | |
---|
| 2557 | // set back coordinfo |
---|
| 2558 | for ( uInt itable = 0 ; itable < insize ; itable++ ) { |
---|
| 2559 | vector<string> coordinfo = newin[itable]->getCoordInfo() ; |
---|
| 2560 | coordinfo[0] = oldinfo[itable] ; |
---|
| 2561 | newin[itable]->setCoordInfo( coordinfo ) ; |
---|
| 2562 | } |
---|
| 2563 | |
---|
| 2564 | // accumulate all rows into the first table |
---|
| 2565 | // NOTE: assumed in.size() = 1 |
---|
| 2566 | vector< CountedPtr<Scantable> > tmp( 1 ) ; |
---|
| 2567 | if ( newin.size() == 1 ) |
---|
| 2568 | tmp[0] = newin[0] ; |
---|
| 2569 | else |
---|
| 2570 | tmp[0] = merge( newin ) ; |
---|
| 2571 | |
---|
| 2572 | //return tmp[0] ; |
---|
| 2573 | |
---|
| 2574 | // average |
---|
| 2575 | CountedPtr<Scantable> tmpout = average( tmp, mask, weight, avmode ) ; |
---|
| 2576 | |
---|
| 2577 | //return tmpout ; |
---|
| 2578 | |
---|
| 2579 | // combine frequency group |
---|
| 2580 | cout << "Combine spectra based on frequency grouping" << endl ; |
---|
| 2581 | cout << "IFNO is renumbered as frequency group ID (see above)" << endl ; |
---|
| 2582 | vector<string> coordinfo = tmpout->getCoordInfo() ; |
---|
| 2583 | oldinfo[0] = coordinfo[0] ; |
---|
| 2584 | coordinfo[0] = "Hz" ; |
---|
| 2585 | tmpout->setCoordInfo( coordinfo ) ; |
---|
| 2586 | // create proformas of output table |
---|
| 2587 | stringstream taqlstream ; |
---|
| 2588 | taqlstream << "SELECT FROM $1 WHERE IFNO IN [" ; |
---|
| 2589 | for ( uInt i = 0 ; i < gmemid.size() ; i++ ) { |
---|
| 2590 | taqlstream << gmemid[i] ; |
---|
| 2591 | if ( i < gmemid.size() - 1 ) |
---|
| 2592 | taqlstream << "," ; |
---|
| 2593 | else |
---|
| 2594 | taqlstream << "]" ; |
---|
| 2595 | } |
---|
| 2596 | string taql = taqlstream.str() ; |
---|
| 2597 | //cout << "taql = " << taql << endl ; |
---|
| 2598 | STSelector selector = STSelector() ; |
---|
| 2599 | selector.setTaQL( taql ) ; |
---|
| 2600 | oldInsitu = insitu_ ; |
---|
| 2601 | setInsitu( false ) ; |
---|
| 2602 | out = getScantable( tmpout, false ) ; |
---|
| 2603 | setInsitu( oldInsitu ) ; |
---|
| 2604 | out->setSelection( selector ) ; |
---|
| 2605 | // regrid rows |
---|
| 2606 | ifnoCol.attach( tmpout->table(), "IFNO" ) ; |
---|
| 2607 | for ( uInt irow = 0 ; irow < tmpout->table().nrow() ; irow++ ) { |
---|
| 2608 | uInt ifno = ifnoCol( irow ) ; |
---|
| 2609 | for ( uInt igrp = 0 ; igrp < freqgrp.size() ; igrp++ ) { |
---|
| 2610 | if ( count( freqgrp[igrp].begin(), freqgrp[igrp].end(), ifno ) > 0 ) { |
---|
| 2611 | vector<double> abcissa = tmpout->getAbcissa( irow ) ; |
---|
| 2612 | double bw = ( abcissa[1] - abcissa[0] ) * abcissa.size() ; |
---|
| 2613 | int nchan = (int)( bw / gmaxdnu[igrp] ) ; |
---|
| 2614 | tmpout->regridChannel( nchan, gmaxdnu[igrp], irow ) ; |
---|
| 2615 | break ; |
---|
| 2616 | } |
---|
| 2617 | } |
---|
| 2618 | } |
---|
| 2619 | // combine spectra |
---|
| 2620 | ArrayColumn<Float> specColOut ; |
---|
| 2621 | specColOut.attach( out->table(), "SPECTRA" ) ; |
---|
| 2622 | ArrayColumn<uChar> flagColOut ; |
---|
| 2623 | flagColOut.attach( out->table(), "FLAGTRA" ) ; |
---|
| 2624 | ScalarColumn<uInt> ifnoColOut ; |
---|
| 2625 | ifnoColOut.attach( out->table(), "IFNO" ) ; |
---|
| 2626 | ScalarColumn<uInt> polnoColOut ; |
---|
| 2627 | polnoColOut.attach( out->table(), "POLNO" ) ; |
---|
| 2628 | ScalarColumn<uInt> freqidColOut ; |
---|
| 2629 | freqidColOut.attach( out->table(), "FREQ_ID" ) ; |
---|
| 2630 | Table &tab = tmpout->table() ; |
---|
| 2631 | TableIterator iter( tab, "POLNO" ) ; |
---|
| 2632 | vector< vector<uInt> > sizes( freqgrp.size() ) ; |
---|
| 2633 | while( !iter.pastEnd() ) { |
---|
| 2634 | vector< vector<Float> > specout( freqgrp.size() ) ; |
---|
| 2635 | vector< vector<uChar> > flagout( freqgrp.size() ) ; |
---|
| 2636 | ArrayColumn<Float> specCols ; |
---|
| 2637 | specCols.attach( iter.table(), "SPECTRA" ) ; |
---|
| 2638 | ArrayColumn<uChar> flagCols ; |
---|
| 2639 | flagCols.attach( iter.table(), "FLAGTRA" ) ; |
---|
| 2640 | ifnoCol.attach( iter.table(), "IFNO" ) ; |
---|
| 2641 | ScalarColumn<uInt> polnos ; |
---|
| 2642 | polnos.attach( iter.table(), "POLNO" ) ; |
---|
| 2643 | uInt polno = polnos( 0 ) ; |
---|
| 2644 | //cout << "POLNO iteration: " << polno << endl ; |
---|
| 2645 | for ( uInt igrp = 0 ; igrp < freqgrp.size() ; igrp++ ) { |
---|
| 2646 | sizes[igrp].resize( freqgrp[igrp].size() ) ; |
---|
| 2647 | for ( uInt imem = 0 ; imem < freqgrp[igrp].size() ; imem++ ) { |
---|
| 2648 | for ( uInt irow = 0 ; irow < iter.table().nrow() ; irow++ ) { |
---|
| 2649 | uInt ifno = ifnoCol( irow ) ; |
---|
| 2650 | if ( ifno == freqgrp[igrp][imem] ) { |
---|
| 2651 | Vector<Float> spec = specCols( irow ) ; |
---|
| 2652 | Vector<uChar> flag = flagCols( irow ) ; |
---|
| 2653 | vector<Float> svec ; |
---|
| 2654 | spec.tovector( svec ) ; |
---|
| 2655 | vector<uChar> fvec ; |
---|
| 2656 | flag.tovector( fvec ) ; |
---|
| 2657 | //cout << "spec.size() = " << svec.size() << " fvec.size() = " << fvec.size() << endl ; |
---|
| 2658 | specout[igrp].insert( specout[igrp].end(), svec.begin(), svec.end() ) ; |
---|
| 2659 | flagout[igrp].insert( flagout[igrp].end(), fvec.begin(), fvec.end() ) ; |
---|
| 2660 | //cout << "specout[" << igrp << "].size() = " << specout[igrp].size() << endl ; |
---|
| 2661 | sizes[igrp][imem] = spec.nelements() ; |
---|
| 2662 | } |
---|
| 2663 | } |
---|
| 2664 | } |
---|
| 2665 | for ( uInt irow = 0 ; irow < out->table().nrow() ; irow++ ) { |
---|
| 2666 | uInt ifout = ifnoColOut( irow ) ; |
---|
| 2667 | uInt polout = polnoColOut( irow ) ; |
---|
| 2668 | if ( ifout == gmemid[igrp] && polout == polno ) { |
---|
| 2669 | // set SPECTRA and FRAGTRA |
---|
| 2670 | Vector<Float> newspec( specout[igrp] ) ; |
---|
| 2671 | Vector<uChar> newflag( flagout[igrp] ) ; |
---|
| 2672 | specColOut.put( irow, newspec ) ; |
---|
| 2673 | flagColOut.put( irow, newflag ) ; |
---|
| 2674 | // IFNO renumbering |
---|
| 2675 | ifnoColOut.put( irow, igrp ) ; |
---|
| 2676 | } |
---|
| 2677 | } |
---|
| 2678 | } |
---|
| 2679 | iter++ ; |
---|
| 2680 | } |
---|
| 2681 | // update FREQUENCIES subtable |
---|
| 2682 | vector<bool> updated( freqgrp.size(), false ) ; |
---|
| 2683 | for ( uInt igrp = 0 ; igrp < freqgrp.size() ; igrp++ ) { |
---|
| 2684 | uInt index = 0 ; |
---|
| 2685 | uInt pixShift = 0 ; |
---|
| 2686 | while ( freqgrp[igrp][index] != gmemid[igrp] ) { |
---|
| 2687 | pixShift += sizes[igrp][index++] ; |
---|
| 2688 | } |
---|
| 2689 | for ( uInt irow = 0 ; irow < out->table().nrow() ; irow++ ) { |
---|
| 2690 | if ( ifnoColOut( irow ) == gmemid[igrp] && !updated[igrp] ) { |
---|
| 2691 | uInt freqidOut = freqidColOut( irow ) ; |
---|
| 2692 | //cout << "freqgrp " << igrp << " freqidOut = " << freqidOut << endl ; |
---|
| 2693 | double refpix ; |
---|
| 2694 | double refval ; |
---|
| 2695 | double increm ; |
---|
| 2696 | out->frequencies().getEntry( refpix, refval, increm, freqidOut ) ; |
---|
| 2697 | refpix += pixShift ; |
---|
| 2698 | out->frequencies().setEntry( refpix, refval, increm, freqidOut ) ; |
---|
| 2699 | updated[igrp] = true ; |
---|
| 2700 | } |
---|
| 2701 | } |
---|
| 2702 | } |
---|
| 2703 | |
---|
| 2704 | //out = tmpout ; |
---|
| 2705 | |
---|
| 2706 | coordinfo = tmpout->getCoordInfo() ; |
---|
| 2707 | coordinfo[0] = oldinfo[0] ; |
---|
| 2708 | tmpout->setCoordInfo( coordinfo ) ; |
---|
| 2709 | } |
---|
| 2710 | else { |
---|
| 2711 | // simple average |
---|
| 2712 | out = average( in, mask, weight, avmode ) ; |
---|
| 2713 | } |
---|
| 2714 | |
---|
| 2715 | return out ; |
---|
| 2716 | } |
---|