[2] | 1 | //#--------------------------------------------------------------------------- |
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| 2 | //# SDMath.cc: A collection of single dish mathematical operations |
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| 3 | //#--------------------------------------------------------------------------- |
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| 4 | //# Copyright (C) 2004 |
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[125] | 5 | //# ATNF |
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[2] | 6 | //# |
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| 7 | //# This program is free software; you can redistribute it and/or modify it |
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| 8 | //# under the terms of the GNU General Public License as published by the Free |
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| 9 | //# Software Foundation; either version 2 of the License, or (at your option) |
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| 10 | //# any later version. |
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| 11 | //# |
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| 12 | //# This program is distributed in the hope that it will be useful, but |
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| 13 | //# WITHOUT ANY WARRANTY; without even the implied warranty of |
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| 14 | //# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General |
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| 15 | //# Public License for more details. |
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| 16 | //# |
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| 17 | //# You should have received a copy of the GNU General Public License along |
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| 18 | //# with this program; if not, write to the Free Software Foundation, Inc., |
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| 19 | //# 675 Massachusetts Ave, Cambridge, MA 02139, USA. |
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| 20 | //# |
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| 21 | //# Correspondence concerning this software should be addressed as follows: |
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| 22 | //# Internet email: Malte.Marquarding@csiro.au |
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| 23 | //# Postal address: Malte Marquarding, |
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| 24 | //# Australia Telescope National Facility, |
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| 25 | //# P.O. Box 76, |
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| 26 | //# Epping, NSW, 2121, |
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| 27 | //# AUSTRALIA |
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| 28 | //# |
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| 29 | //# $Id: |
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| 30 | //#--------------------------------------------------------------------------- |
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[38] | 31 | #include <vector> |
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| 32 | |
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[81] | 33 | #include <casa/aips.h> |
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[330] | 34 | #include <casa/iostream.h> |
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| 35 | #include <casa/iomanip.h> |
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[81] | 36 | #include <casa/BasicSL/String.h> |
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| 37 | #include <casa/Arrays/IPosition.h> |
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| 38 | #include <casa/Arrays/Array.h> |
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[130] | 39 | #include <casa/Arrays/ArrayIter.h> |
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| 40 | #include <casa/Arrays/VectorIter.h> |
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[81] | 41 | #include <casa/Arrays/ArrayMath.h> |
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| 42 | #include <casa/Arrays/ArrayLogical.h> |
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| 43 | #include <casa/Arrays/MaskedArray.h> |
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| 44 | #include <casa/Arrays/MaskArrMath.h> |
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| 45 | #include <casa/Arrays/MaskArrLogi.h> |
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[330] | 46 | #include <casa/Arrays/Matrix.h> |
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[234] | 47 | #include <casa/BasicMath/Math.h> |
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[221] | 48 | #include <casa/Containers/Block.h> |
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[262] | 49 | #include <casa/Exceptions.h> |
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| 50 | #include <casa/Quanta/Quantum.h> |
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| 51 | #include <casa/Quanta/Unit.h> |
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| 52 | #include <casa/Quanta/MVEpoch.h> |
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[272] | 53 | #include <casa/Quanta/MVTime.h> |
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[177] | 54 | #include <casa/Utilities/Assert.h> |
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[2] | 55 | |
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[262] | 56 | #include <coordinates/Coordinates/SpectralCoordinate.h> |
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| 57 | #include <coordinates/Coordinates/CoordinateSystem.h> |
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| 58 | #include <coordinates/Coordinates/CoordinateUtil.h> |
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[309] | 59 | #include <coordinates/Coordinates/FrequencyAligner.h> |
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[262] | 60 | |
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| 61 | #include <lattices/Lattices/LatticeUtilities.h> |
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| 62 | #include <lattices/Lattices/RebinLattice.h> |
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| 63 | |
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| 64 | #include <measures/Measures/MEpoch.h> |
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| 65 | #include <measures/Measures/MDirection.h> |
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| 66 | #include <measures/Measures/MPosition.h> |
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| 67 | |
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[177] | 68 | #include <scimath/Mathematics/VectorKernel.h> |
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| 69 | #include <scimath/Mathematics/Convolver.h> |
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[227] | 70 | #include <scimath/Mathematics/InterpolateArray1D.h> |
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[234] | 71 | #include <scimath/Functionals/Polynomial.h> |
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[177] | 72 | |
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[81] | 73 | #include <tables/Tables/Table.h> |
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| 74 | #include <tables/Tables/ScalarColumn.h> |
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| 75 | #include <tables/Tables/ArrayColumn.h> |
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[227] | 76 | #include <tables/Tables/ReadAsciiTable.h> |
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[2] | 77 | |
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[38] | 78 | #include "MathUtils.h" |
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[232] | 79 | #include "SDDefs.h" |
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[354] | 80 | #include "SDAttr.h" |
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[2] | 81 | #include "SDContainer.h" |
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| 82 | #include "SDMemTable.h" |
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| 83 | |
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| 84 | #include "SDMath.h" |
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[457] | 85 | #include "SDPol.h" |
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[2] | 86 | |
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[125] | 87 | using namespace casa; |
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[83] | 88 | using namespace asap; |
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[2] | 89 | |
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[170] | 90 | |
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| 91 | SDMath::SDMath() |
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| 92 | {;} |
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| 93 | |
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[185] | 94 | SDMath::SDMath(const SDMath& other) |
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[170] | 95 | { |
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| 96 | |
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| 97 | // No state |
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| 98 | |
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| 99 | } |
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| 100 | |
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| 101 | SDMath& SDMath::operator=(const SDMath& other) |
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| 102 | { |
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| 103 | if (this != &other) { |
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| 104 | // No state |
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| 105 | } |
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| 106 | return *this; |
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| 107 | } |
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| 108 | |
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[183] | 109 | SDMath::~SDMath() |
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| 110 | {;} |
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[170] | 111 | |
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[183] | 112 | |
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[262] | 113 | |
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[397] | 114 | SDMemTable* SDMath::frequencyAlignment (const SDMemTable& in, const String& refTime, |
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| 115 | const String& method, Bool perFreqID) const |
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[262] | 116 | { |
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[309] | 117 | // Get frame info from Table |
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[262] | 118 | |
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| 119 | std::vector<std::string> info = in.getCoordInfo(); |
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[294] | 120 | |
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[309] | 121 | // Parse frequency system |
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[294] | 122 | |
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[309] | 123 | String systemStr(info[1]); |
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| 124 | String baseSystemStr(info[3]); |
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| 125 | if (baseSystemStr==systemStr) { |
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| 126 | throw(AipsError("You have not set a frequency frame different from the initial - use function set_freqframe")); |
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[262] | 127 | } |
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[309] | 128 | // |
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| 129 | MFrequency::Types freqSystem; |
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| 130 | MFrequency::getType(freqSystem, systemStr); |
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[294] | 131 | |
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[267] | 132 | // Do it |
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[262] | 133 | |
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[397] | 134 | return frequencyAlign (in, freqSystem, refTime, method, perFreqID); |
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[267] | 135 | } |
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[262] | 136 | |
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| 137 | |
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| 138 | |
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[185] | 139 | CountedPtr<SDMemTable> SDMath::average(const Block<CountedPtr<SDMemTable> >& in, |
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| 140 | const Vector<Bool>& mask, Bool scanAv, |
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[309] | 141 | const String& weightStr, Bool alignFreq) const |
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[130] | 142 | // |
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[144] | 143 | // Weighted averaging of spectra from one or more Tables. |
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[130] | 144 | // |
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| 145 | { |
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[2] | 146 | |
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[163] | 147 | // Convert weight type |
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| 148 | |
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| 149 | WeightType wtType = NONE; |
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[185] | 150 | convertWeightString(wtType, weightStr); |
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[163] | 151 | |
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[144] | 152 | // Create output Table by cloning from the first table |
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[2] | 153 | |
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[144] | 154 | SDMemTable* pTabOut = new SDMemTable(*in[0],True); |
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[130] | 155 | |
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[144] | 156 | // Setup |
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[130] | 157 | |
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[144] | 158 | IPosition shp = in[0]->rowAsMaskedArray(0).shape(); // Must not change |
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| 159 | Array<Float> arr(shp); |
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| 160 | Array<Bool> barr(shp); |
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[221] | 161 | const Bool useMask = (mask.nelements() == shp(asap::ChanAxis)); |
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[130] | 162 | |
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[144] | 163 | // Columns from Tables |
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[130] | 164 | |
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[144] | 165 | ROArrayColumn<Float> tSysCol; |
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| 166 | ROScalarColumn<Double> mjdCol; |
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| 167 | ROScalarColumn<String> srcNameCol; |
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| 168 | ROScalarColumn<Double> intCol; |
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| 169 | ROArrayColumn<uInt> fqIDCol; |
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[410] | 170 | ROScalarColumn<Int> scanIDCol; |
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[130] | 171 | |
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[144] | 172 | // Create accumulation MaskedArray. We accumulate for each channel,if,pol,beam |
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| 173 | // Note that the mask of the accumulation array will ALWAYS remain ALL True. |
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| 174 | // The MA is only used so that when data which is masked Bad is added to it, |
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| 175 | // that data does not contribute. |
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| 176 | |
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| 177 | Array<Float> zero(shp); |
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| 178 | zero=0.0; |
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| 179 | Array<Bool> good(shp); |
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| 180 | good = True; |
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| 181 | MaskedArray<Float> sum(zero,good); |
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| 182 | |
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| 183 | // Counter arrays |
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| 184 | |
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| 185 | Array<Float> nPts(shp); // Number of points |
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| 186 | nPts = 0.0; |
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| 187 | Array<Float> nInc(shp); // Increment |
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| 188 | nInc = 1.0; |
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| 189 | |
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| 190 | // Create accumulation Array for variance. We accumulate for |
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| 191 | // each if,pol,beam, but average over channel. So we need |
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| 192 | // a shape with one less axis dropping channels. |
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| 193 | |
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| 194 | const uInt nAxesSub = shp.nelements() - 1; |
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| 195 | IPosition shp2(nAxesSub); |
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| 196 | for (uInt i=0,j=0; i<(nAxesSub+1); i++) { |
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[221] | 197 | if (i!=asap::ChanAxis) { |
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[144] | 198 | shp2(j) = shp(i); |
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| 199 | j++; |
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| 200 | } |
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[2] | 201 | } |
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[144] | 202 | Array<Float> sumSq(shp2); |
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| 203 | sumSq = 0.0; |
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| 204 | IPosition pos2(nAxesSub,0); // For indexing |
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[130] | 205 | |
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[144] | 206 | // Time-related accumulators |
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[130] | 207 | |
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[144] | 208 | Double time; |
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| 209 | Double timeSum = 0.0; |
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| 210 | Double intSum = 0.0; |
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| 211 | Double interval = 0.0; |
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[130] | 212 | |
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[144] | 213 | // To get the right shape for the Tsys accumulator we need to |
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| 214 | // access a column from the first table. The shape of this |
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| 215 | // array must not change |
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[130] | 216 | |
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[144] | 217 | Array<Float> tSysSum; |
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| 218 | { |
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| 219 | const Table& tabIn = in[0]->table(); |
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| 220 | tSysCol.attach(tabIn,"TSYS"); |
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| 221 | tSysSum.resize(tSysCol.shape(0)); |
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| 222 | } |
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| 223 | tSysSum =0.0; |
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| 224 | Array<Float> tSys; |
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| 225 | |
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| 226 | // Scan and row tracking |
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| 227 | |
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| 228 | Int oldScanID = 0; |
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| 229 | Int outScanID = 0; |
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| 230 | Int scanID = 0; |
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| 231 | Int rowStart = 0; |
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| 232 | Int nAccum = 0; |
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| 233 | Int tableStart = 0; |
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| 234 | |
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| 235 | // Source and FreqID |
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| 236 | |
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| 237 | String sourceName, oldSourceName, sourceNameStart; |
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| 238 | Vector<uInt> freqID, freqIDStart, oldFreqID; |
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| 239 | |
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| 240 | // Loop over tables |
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| 241 | |
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| 242 | Float fac = 1.0; |
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| 243 | const uInt nTables = in.nelements(); |
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| 244 | for (uInt iTab=0; iTab<nTables; iTab++) { |
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| 245 | |
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[309] | 246 | // Should check that the frequency tables don't change if doing FreqAlignment |
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[221] | 247 | |
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[144] | 248 | // Attach columns to Table |
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| 249 | |
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| 250 | const Table& tabIn = in[iTab]->table(); |
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| 251 | tSysCol.attach(tabIn, "TSYS"); |
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| 252 | mjdCol.attach(tabIn, "TIME"); |
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| 253 | srcNameCol.attach(tabIn, "SRCNAME"); |
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| 254 | intCol.attach(tabIn, "INTERVAL"); |
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| 255 | fqIDCol.attach(tabIn, "FREQID"); |
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[410] | 256 | scanIDCol.attach(tabIn, "SCANID"); |
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[144] | 257 | |
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[410] | 258 | // Find list of start/end rows for each scan |
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| 259 | |
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[144] | 260 | // Loop over rows in Table |
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| 261 | |
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| 262 | const uInt nRows = in[iTab]->nRow(); |
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| 263 | for (uInt iRow=0; iRow<nRows; iRow++) { |
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| 264 | |
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| 265 | // Check conformance |
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| 266 | |
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| 267 | IPosition shp2 = in[iTab]->rowAsMaskedArray(iRow).shape(); |
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| 268 | if (!shp.isEqual(shp2)) { |
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| 269 | throw (AipsError("Shapes for all rows must be the same")); |
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| 270 | } |
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| 271 | |
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| 272 | // If we are not doing scan averages, make checks for source and |
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| 273 | // frequency setup and warn if averaging across them |
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| 274 | |
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[410] | 275 | scanIDCol.getScalar(iRow, scanID); |
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[144] | 276 | |
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| 277 | // Get quantities from columns |
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| 278 | |
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| 279 | srcNameCol.getScalar(iRow, sourceName); |
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| 280 | mjdCol.get(iRow, time); |
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| 281 | tSysCol.get(iRow, tSys); |
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| 282 | intCol.get(iRow, interval); |
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| 283 | fqIDCol.get(iRow, freqID); |
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| 284 | |
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| 285 | // Initialize first source and freqID |
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| 286 | |
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| 287 | if (iRow==0 && iTab==0) { |
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| 288 | sourceNameStart = sourceName; |
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| 289 | freqIDStart = freqID; |
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| 290 | } |
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| 291 | |
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| 292 | // If we are doing scan averages, see if we are at the end of an |
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| 293 | // accumulation period (scan). We must check soutce names too, |
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| 294 | // since we might have two tables with one scan each but different |
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| 295 | // source names; we shouldn't average different sources together |
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| 296 | |
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| 297 | if (scanAv && ( (scanID != oldScanID) || |
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| 298 | (iRow==0 && iTab>0 && sourceName!=oldSourceName))) { |
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| 299 | |
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| 300 | // Normalize data in 'sum' accumulation array according to weighting scheme |
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| 301 | |
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[221] | 302 | normalize(sum, sumSq, nPts, wtType, asap::ChanAxis, nAxesSub); |
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[144] | 303 | |
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[410] | 304 | // Get ScanContainer for the first row of this averaged Scan |
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| 305 | |
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| 306 | SDContainer scOut = in[iTab]->getSDContainer(rowStart); |
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| 307 | |
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[144] | 308 | // Fill scan container. The source and freqID come from the |
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| 309 | // first row of the first table that went into this average ( |
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| 310 | // should be the same for all rows in the scan average) |
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| 311 | |
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| 312 | Float nR(nAccum); |
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[410] | 313 | fillSDC(scOut, sum.getMask(), sum.getArray(), tSysSum/nR, outScanID, |
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[144] | 314 | timeSum/nR, intSum, sourceNameStart, freqIDStart); |
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| 315 | |
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| 316 | // Write container out to Table |
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| 317 | |
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[410] | 318 | pTabOut->putSDContainer(scOut); |
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[144] | 319 | |
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| 320 | // Reset accumulators |
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| 321 | |
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| 322 | sum = 0.0; |
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| 323 | sumSq = 0.0; |
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| 324 | nAccum = 0; |
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| 325 | // |
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| 326 | tSysSum =0.0; |
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| 327 | timeSum = 0.0; |
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| 328 | intSum = 0.0; |
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[221] | 329 | nPts = 0.0; |
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[144] | 330 | |
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| 331 | // Increment |
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| 332 | |
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| 333 | rowStart = iRow; // First row for next accumulation |
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| 334 | tableStart = iTab; // First table for next accumulation |
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| 335 | sourceNameStart = sourceName; // First source name for next accumulation |
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| 336 | freqIDStart = freqID; // First FreqID for next accumulation |
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| 337 | // |
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| 338 | oldScanID = scanID; |
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| 339 | outScanID += 1; // Scan ID for next accumulation period |
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[227] | 340 | } |
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[144] | 341 | |
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[146] | 342 | // Accumulate |
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[144] | 343 | |
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[185] | 344 | accumulate(timeSum, intSum, nAccum, sum, sumSq, nPts, tSysSum, |
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[221] | 345 | tSys, nInc, mask, time, interval, in, iTab, iRow, asap::ChanAxis, |
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[146] | 346 | nAxesSub, useMask, wtType); |
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[144] | 347 | // |
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| 348 | oldSourceName = sourceName; |
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| 349 | oldFreqID = freqID; |
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[184] | 350 | } |
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[144] | 351 | } |
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| 352 | |
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| 353 | // OK at this point we have accumulation data which is either |
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| 354 | // - accumulated from all tables into one row |
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| 355 | // or |
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| 356 | // - accumulated from the last scan average |
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| 357 | // |
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| 358 | // Normalize data in 'sum' accumulation array according to weighting scheme |
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[410] | 359 | |
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[221] | 360 | normalize(sum, sumSq, nPts, wtType, asap::ChanAxis, nAxesSub); |
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[144] | 361 | |
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| 362 | // Create and fill container. The container we clone will be from |
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| 363 | // the last Table and the first row that went into the current |
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| 364 | // accumulation. It probably doesn't matter that much really... |
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| 365 | |
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| 366 | Float nR(nAccum); |
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[410] | 367 | SDContainer scOut = in[tableStart]->getSDContainer(rowStart); |
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| 368 | fillSDC(scOut, sum.getMask(), sum.getArray(), tSysSum/nR, outScanID, |
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[144] | 369 | timeSum/nR, intSum, sourceNameStart, freqIDStart); |
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[410] | 370 | pTabOut->putSDContainer(scOut); |
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[304] | 371 | pTabOut->resetCursor(); |
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[144] | 372 | // |
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| 373 | return CountedPtr<SDMemTable>(pTabOut); |
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[2] | 374 | } |
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[9] | 375 | |
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[144] | 376 | |
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| 377 | |
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[248] | 378 | CountedPtr<SDMemTable> SDMath::binaryOperate (const CountedPtr<SDMemTable>& left, |
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| 379 | const CountedPtr<SDMemTable>& right, |
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[294] | 380 | const String& op, Bool preserve, |
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| 381 | Bool doTSys) const |
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[185] | 382 | { |
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[85] | 383 | |
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[248] | 384 | // Check operator |
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[130] | 385 | |
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[234] | 386 | String op2(op); |
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| 387 | op2.upcase(); |
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| 388 | uInt what = 0; |
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| 389 | if (op2=="ADD") { |
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| 390 | what = 0; |
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| 391 | } else if (op2=="SUB") { |
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| 392 | what = 1; |
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| 393 | } else if (op2=="MUL") { |
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| 394 | what = 2; |
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| 395 | } else if (op2=="DIV") { |
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| 396 | what = 3; |
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[248] | 397 | } else if (op2=="QUOTIENT") { |
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| 398 | what = 4; |
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[294] | 399 | doTSys = True; |
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[234] | 400 | } else { |
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[248] | 401 | throw( AipsError("Unrecognized operation")); |
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[234] | 402 | } |
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| 403 | |
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| 404 | // Check rows |
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| 405 | |
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[248] | 406 | const uInt nRowLeft = left->nRow(); |
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| 407 | const uInt nRowRight = right->nRow(); |
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| 408 | Bool ok = (nRowRight==1&&nRowLeft>0) || |
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| 409 | (nRowRight>=1&&nRowLeft==nRowRight); |
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| 410 | if (!ok) { |
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| 411 | throw (AipsError("The right Scan Table can have one row or the same number of rows as the left Scan Table")); |
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[234] | 412 | } |
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| 413 | |
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[248] | 414 | // Input Tables |
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[234] | 415 | |
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| 416 | const Table& tLeft = left->table(); |
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| 417 | const Table& tRight = right->table(); |
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[248] | 418 | |
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| 419 | // TSys columns |
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| 420 | |
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[294] | 421 | ROArrayColumn<Float> tSysLeftCol, tSysRightCol; |
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| 422 | if (doTSys) { |
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| 423 | tSysLeftCol.attach(tLeft, "TSYS"); |
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| 424 | tSysRightCol.attach(tRight, "TSYS"); |
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| 425 | } |
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[234] | 426 | |
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[248] | 427 | // First row for right |
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[234] | 428 | |
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[248] | 429 | Array<Float> tSysLeftArr, tSysRightArr; |
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[294] | 430 | if (doTSys) tSysRightCol.get(0, tSysRightArr); |
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[248] | 431 | MaskedArray<Float>* pMRight = new MaskedArray<Float>(right->rowAsMaskedArray(0)); |
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| 432 | IPosition shpRight = pMRight->shape(); |
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| 433 | |
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| 434 | // Output Table cloned from left |
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| 435 | |
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[234] | 436 | SDMemTable* pTabOut = new SDMemTable(*left, True); |
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| 437 | |
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| 438 | // Loop over rows |
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| 439 | |
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[248] | 440 | for (uInt i=0; i<nRowLeft; i++) { |
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[234] | 441 | |
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| 442 | // Get data |
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[248] | 443 | |
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[234] | 444 | MaskedArray<Float> mLeft(left->rowAsMaskedArray(i)); |
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[248] | 445 | IPosition shpLeft = mLeft.shape(); |
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[294] | 446 | if (doTSys) tSysLeftCol.get(i, tSysLeftArr); |
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[234] | 447 | // |
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[248] | 448 | if (nRowRight>1) { |
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| 449 | delete pMRight; |
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| 450 | pMRight = new MaskedArray<Float>(right->rowAsMaskedArray(i)); |
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| 451 | shpRight = pMRight->shape(); |
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[294] | 452 | if (doTSys) tSysRightCol.get(i, tSysRightArr); |
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[234] | 453 | } |
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[248] | 454 | // |
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| 455 | if (!shpRight.isEqual(shpLeft)) { |
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| 456 | throw(AipsError("left and right scan tables are not conformant")); |
---|
| 457 | } |
---|
[294] | 458 | if (doTSys) { |
---|
| 459 | if (!tSysRightArr.shape().isEqual(tSysRightArr.shape())) { |
---|
| 460 | throw(AipsError("left and right Tsys data are not conformant")); |
---|
| 461 | } |
---|
| 462 | if (!shpRight.isEqual(tSysRightArr.shape())) { |
---|
| 463 | throw(AipsError("left and right scan tables are not conformant")); |
---|
| 464 | } |
---|
[248] | 465 | } |
---|
[234] | 466 | |
---|
| 467 | // Make container |
---|
| 468 | |
---|
| 469 | SDContainer sc = left->getSDContainer(i); |
---|
| 470 | |
---|
| 471 | // Operate on data and TSys |
---|
| 472 | |
---|
| 473 | if (what==0) { |
---|
[248] | 474 | MaskedArray<Float> tmp = mLeft + *pMRight; |
---|
[234] | 475 | putDataInSDC(sc, tmp.getArray(), tmp.getMask()); |
---|
[294] | 476 | if (doTSys) sc.putTsys(tSysLeftArr+tSysRightArr); |
---|
[234] | 477 | } else if (what==1) { |
---|
[248] | 478 | MaskedArray<Float> tmp = mLeft - *pMRight; |
---|
[234] | 479 | putDataInSDC(sc, tmp.getArray(), tmp.getMask()); |
---|
[294] | 480 | if (doTSys) sc.putTsys(tSysLeftArr-tSysRightArr); |
---|
[234] | 481 | } else if (what==2) { |
---|
[248] | 482 | MaskedArray<Float> tmp = mLeft * *pMRight; |
---|
[234] | 483 | putDataInSDC(sc, tmp.getArray(), tmp.getMask()); |
---|
[294] | 484 | if (doTSys) sc.putTsys(tSysLeftArr*tSysRightArr); |
---|
[234] | 485 | } else if (what==3) { |
---|
[248] | 486 | MaskedArray<Float> tmp = mLeft / *pMRight; |
---|
[234] | 487 | putDataInSDC(sc, tmp.getArray(), tmp.getMask()); |
---|
[294] | 488 | if (doTSys) sc.putTsys(tSysLeftArr/tSysRightArr); |
---|
[248] | 489 | } else if (what==4) { |
---|
| 490 | if (preserve) { |
---|
| 491 | MaskedArray<Float> tmp = (tSysRightArr * mLeft / *pMRight) - tSysRightArr; |
---|
| 492 | putDataInSDC(sc, tmp.getArray(), tmp.getMask()); |
---|
| 493 | } else { |
---|
| 494 | MaskedArray<Float> tmp = (tSysRightArr * mLeft / *pMRight) - tSysLeftArr; |
---|
| 495 | putDataInSDC(sc, tmp.getArray(), tmp.getMask()); |
---|
| 496 | } |
---|
| 497 | sc.putTsys(tSysRightArr); |
---|
[234] | 498 | } |
---|
| 499 | |
---|
| 500 | // Put new row in output Table |
---|
| 501 | |
---|
[171] | 502 | pTabOut->putSDContainer(sc); |
---|
[130] | 503 | } |
---|
[248] | 504 | if (pMRight) delete pMRight; |
---|
[304] | 505 | pTabOut->resetCursor(); |
---|
[130] | 506 | // |
---|
[171] | 507 | return CountedPtr<SDMemTable>(pTabOut); |
---|
[9] | 508 | } |
---|
[48] | 509 | |
---|
[146] | 510 | |
---|
| 511 | |
---|
[185] | 512 | std::vector<float> SDMath::statistic(const CountedPtr<SDMemTable>& in, |
---|
[234] | 513 | const Vector<Bool>& mask, |
---|
| 514 | const String& which, Int row) const |
---|
[130] | 515 | // |
---|
| 516 | // Perhaps iteration over pol/beam/if should be in here |
---|
| 517 | // and inside the nrow iteration ? |
---|
| 518 | // |
---|
| 519 | { |
---|
| 520 | const uInt nRow = in->nRow(); |
---|
| 521 | |
---|
| 522 | // Specify cursor location |
---|
| 523 | |
---|
[152] | 524 | IPosition start, end; |
---|
[434] | 525 | Bool doAll = False; |
---|
| 526 | setCursorSlice (start, end, doAll, *in); |
---|
[130] | 527 | |
---|
| 528 | // Loop over rows |
---|
| 529 | |
---|
[234] | 530 | const uInt nEl = mask.nelements(); |
---|
| 531 | uInt iStart = 0; |
---|
| 532 | uInt iEnd = in->nRow()-1; |
---|
| 533 | // |
---|
| 534 | if (row>=0) { |
---|
| 535 | iStart = row; |
---|
| 536 | iEnd = row; |
---|
| 537 | } |
---|
| 538 | // |
---|
| 539 | std::vector<float> result(iEnd-iStart+1); |
---|
| 540 | for (uInt ii=iStart; ii <= iEnd; ++ii) { |
---|
[130] | 541 | |
---|
| 542 | // Get row and deconstruct |
---|
| 543 | |
---|
[434] | 544 | MaskedArray<Float> dataIn = (in->rowAsMaskedArray(ii))(start,end); |
---|
| 545 | Array<Float> v = dataIn.getArray().nonDegenerate(); |
---|
| 546 | Array<Bool> m = dataIn.getMask().nonDegenerate(); |
---|
[130] | 547 | |
---|
| 548 | // Access desired piece of data |
---|
| 549 | |
---|
[434] | 550 | // Array<Float> v((arr(start,end)).nonDegenerate()); |
---|
| 551 | // Array<Bool> m((barr(start,end)).nonDegenerate()); |
---|
[130] | 552 | |
---|
| 553 | // Apply OTF mask |
---|
| 554 | |
---|
| 555 | MaskedArray<Float> tmp; |
---|
| 556 | if (m.nelements()==nEl) { |
---|
[234] | 557 | tmp.setData(v,m&&mask); |
---|
[130] | 558 | } else { |
---|
| 559 | tmp.setData(v,m); |
---|
| 560 | } |
---|
| 561 | |
---|
| 562 | // Get statistic |
---|
| 563 | |
---|
[234] | 564 | result[ii-iStart] = mathutil::statistics(which, tmp); |
---|
[130] | 565 | } |
---|
| 566 | // |
---|
| 567 | return result; |
---|
| 568 | } |
---|
| 569 | |
---|
[146] | 570 | |
---|
[234] | 571 | SDMemTable* SDMath::bin(const SDMemTable& in, Int width) const |
---|
[144] | 572 | { |
---|
[169] | 573 | SDHeader sh = in.getSDHeader(); |
---|
| 574 | SDMemTable* pTabOut = new SDMemTable(in, True); |
---|
[163] | 575 | |
---|
[169] | 576 | // Bin up SpectralCoordinates |
---|
[163] | 577 | |
---|
[169] | 578 | IPosition factors(1); |
---|
| 579 | factors(0) = width; |
---|
| 580 | for (uInt j=0; j<in.nCoordinates(); ++j) { |
---|
| 581 | CoordinateSystem cSys; |
---|
[288] | 582 | cSys.addCoordinate(in.getSpectralCoordinate(j)); |
---|
[169] | 583 | CoordinateSystem cSysBin = |
---|
[185] | 584 | CoordinateUtil::makeBinnedCoordinateSystem(factors, cSys, False); |
---|
[169] | 585 | // |
---|
| 586 | SpectralCoordinate sCBin = cSysBin.spectralCoordinate(0); |
---|
| 587 | pTabOut->setCoordinate(sCBin, j); |
---|
| 588 | } |
---|
[163] | 589 | |
---|
[169] | 590 | // Use RebinLattice to find shape |
---|
[130] | 591 | |
---|
[169] | 592 | IPosition shapeIn(1,sh.nchan); |
---|
[185] | 593 | IPosition shapeOut = RebinLattice<Float>::rebinShape(shapeIn, factors); |
---|
[169] | 594 | sh.nchan = shapeOut(0); |
---|
| 595 | pTabOut->putSDHeader(sh); |
---|
[144] | 596 | |
---|
[169] | 597 | // Loop over rows and bin along channel axis |
---|
| 598 | |
---|
| 599 | for (uInt i=0; i < in.nRow(); ++i) { |
---|
| 600 | SDContainer sc = in.getSDContainer(i); |
---|
[144] | 601 | // |
---|
[169] | 602 | Array<Float> tSys(sc.getTsys()); // Get it out before sc changes shape |
---|
[144] | 603 | |
---|
[169] | 604 | // Bin up spectrum |
---|
[144] | 605 | |
---|
[169] | 606 | MaskedArray<Float> marr(in.rowAsMaskedArray(i)); |
---|
| 607 | MaskedArray<Float> marrout; |
---|
[221] | 608 | LatticeUtilities::bin(marrout, marr, asap::ChanAxis, width); |
---|
[144] | 609 | |
---|
[169] | 610 | // Put back the binned data and flags |
---|
[144] | 611 | |
---|
[169] | 612 | IPosition ip2 = marrout.shape(); |
---|
| 613 | sc.resize(ip2); |
---|
[146] | 614 | // |
---|
[185] | 615 | putDataInSDC(sc, marrout.getArray(), marrout.getMask()); |
---|
[146] | 616 | |
---|
[169] | 617 | // Bin up Tsys. |
---|
[146] | 618 | |
---|
[169] | 619 | Array<Bool> allGood(tSys.shape(),True); |
---|
| 620 | MaskedArray<Float> tSysIn(tSys, allGood, True); |
---|
[146] | 621 | // |
---|
[169] | 622 | MaskedArray<Float> tSysOut; |
---|
[221] | 623 | LatticeUtilities::bin(tSysOut, tSysIn, asap::ChanAxis, width); |
---|
[169] | 624 | sc.putTsys(tSysOut.getArray()); |
---|
[146] | 625 | // |
---|
[169] | 626 | pTabOut->putSDContainer(sc); |
---|
| 627 | } |
---|
| 628 | return pTabOut; |
---|
[146] | 629 | } |
---|
| 630 | |
---|
[299] | 631 | SDMemTable* SDMath::resample (const SDMemTable& in, const String& methodStr, |
---|
| 632 | Float width) const |
---|
| 633 | // |
---|
| 634 | // Should add the possibility of width being specified in km/s. This means |
---|
| 635 | // that for each freqID (SpectralCoordinate) we will need to convert to an |
---|
| 636 | // average channel width (say at the reference pixel). Then we would need |
---|
| 637 | // to be careful to make sure each spectrum (of different freqID) |
---|
| 638 | // is the same length. |
---|
| 639 | // |
---|
| 640 | { |
---|
| 641 | Bool doVel = False; |
---|
[309] | 642 | if (doVel) { |
---|
| 643 | for (uInt j=0; j<in.nCoordinates(); ++j) { |
---|
| 644 | SpectralCoordinate sC = in.getSpectralCoordinate(j); |
---|
| 645 | } |
---|
| 646 | } |
---|
[299] | 647 | |
---|
| 648 | // Interpolation method |
---|
| 649 | |
---|
[317] | 650 | InterpolateArray1D<Double,Float>::InterpolationMethod interp; |
---|
| 651 | convertInterpString(interp, methodStr); |
---|
| 652 | Int interpMethod(interp); |
---|
[299] | 653 | |
---|
| 654 | // Make output table |
---|
| 655 | |
---|
| 656 | SDMemTable* pTabOut = new SDMemTable(in, True); |
---|
| 657 | |
---|
| 658 | // Resample SpectralCoordinates (one per freqID) |
---|
| 659 | |
---|
| 660 | const uInt nCoord = in.nCoordinates(); |
---|
| 661 | Vector<Float> offset(1,0.0); |
---|
| 662 | Vector<Float> factors(1,1.0/width); |
---|
| 663 | Vector<Int> newShape; |
---|
| 664 | for (uInt j=0; j<in.nCoordinates(); ++j) { |
---|
| 665 | CoordinateSystem cSys; |
---|
| 666 | cSys.addCoordinate(in.getSpectralCoordinate(j)); |
---|
| 667 | CoordinateSystem cSys2 = cSys.subImage(offset, factors, newShape); |
---|
| 668 | SpectralCoordinate sC = cSys2.spectralCoordinate(0); |
---|
| 669 | // |
---|
| 670 | pTabOut->setCoordinate(sC, j); |
---|
| 671 | } |
---|
| 672 | |
---|
| 673 | // Get header |
---|
| 674 | |
---|
| 675 | SDHeader sh = in.getSDHeader(); |
---|
| 676 | |
---|
| 677 | // Generate resampling vectors |
---|
| 678 | |
---|
| 679 | const uInt nChanIn = sh.nchan; |
---|
| 680 | Vector<Float> xIn(nChanIn); |
---|
| 681 | indgen(xIn); |
---|
| 682 | // |
---|
| 683 | Int fac = Int(nChanIn/width); |
---|
| 684 | Vector<Float> xOut(fac+10); // 10 to be safe - resize later |
---|
| 685 | uInt i = 0; |
---|
| 686 | Float x = 0.0; |
---|
| 687 | Bool more = True; |
---|
| 688 | while (more) { |
---|
| 689 | xOut(i) = x; |
---|
| 690 | // |
---|
| 691 | i++; |
---|
| 692 | x += width; |
---|
| 693 | if (x>nChanIn-1) more = False; |
---|
| 694 | } |
---|
| 695 | const uInt nChanOut = i; |
---|
| 696 | xOut.resize(nChanOut,True); |
---|
| 697 | // |
---|
| 698 | IPosition shapeIn(in.rowAsMaskedArray(0).shape()); |
---|
| 699 | sh.nchan = nChanOut; |
---|
| 700 | pTabOut->putSDHeader(sh); |
---|
| 701 | |
---|
| 702 | // Loop over rows and resample along channel axis |
---|
| 703 | |
---|
| 704 | Array<Float> valuesOut; |
---|
| 705 | Array<Bool> maskOut; |
---|
| 706 | Array<Float> tSysOut; |
---|
| 707 | Array<Bool> tSysMaskIn(shapeIn,True); |
---|
| 708 | Array<Bool> tSysMaskOut; |
---|
| 709 | for (uInt i=0; i < in.nRow(); ++i) { |
---|
| 710 | |
---|
| 711 | // Get container |
---|
| 712 | |
---|
| 713 | SDContainer sc = in.getSDContainer(i); |
---|
| 714 | |
---|
| 715 | // Get data and Tsys |
---|
| 716 | |
---|
| 717 | const Array<Float>& tSysIn = sc.getTsys(); |
---|
| 718 | const MaskedArray<Float>& dataIn(in.rowAsMaskedArray(i)); |
---|
| 719 | Array<Float> valuesIn = dataIn.getArray(); |
---|
| 720 | Array<Bool> maskIn = dataIn.getMask(); |
---|
| 721 | |
---|
| 722 | // Interpolate data |
---|
| 723 | |
---|
| 724 | InterpolateArray1D<Float,Float>::interpolate(valuesOut, maskOut, xOut, |
---|
| 725 | xIn, valuesIn, maskIn, |
---|
| 726 | interpMethod, True, True); |
---|
| 727 | sc.resize(valuesOut.shape()); |
---|
| 728 | putDataInSDC(sc, valuesOut, maskOut); |
---|
| 729 | |
---|
| 730 | // Interpolate TSys |
---|
| 731 | |
---|
| 732 | InterpolateArray1D<Float,Float>::interpolate(tSysOut, tSysMaskOut, xOut, |
---|
| 733 | xIn, tSysIn, tSysMaskIn, |
---|
| 734 | interpMethod, True, True); |
---|
| 735 | sc.putTsys(tSysOut); |
---|
| 736 | |
---|
| 737 | // Put container in output |
---|
| 738 | |
---|
| 739 | pTabOut->putSDContainer(sc); |
---|
| 740 | } |
---|
| 741 | // |
---|
| 742 | return pTabOut; |
---|
| 743 | } |
---|
| 744 | |
---|
[248] | 745 | SDMemTable* SDMath::unaryOperate(const SDMemTable& in, Float val, Bool doAll, |
---|
[294] | 746 | uInt what, Bool doTSys) const |
---|
[152] | 747 | // |
---|
| 748 | // what = 0 Multiply |
---|
| 749 | // 1 Add |
---|
[146] | 750 | { |
---|
[152] | 751 | SDMemTable* pOut = new SDMemTable(in,False); |
---|
| 752 | const Table& tOut = pOut->table(); |
---|
[294] | 753 | ArrayColumn<Float> specCol(tOut,"SPECTRA"); |
---|
| 754 | ArrayColumn<Float> tSysCol(tOut,"TSYS"); |
---|
| 755 | Array<Float> tSysArr; |
---|
[434] | 756 | |
---|
| 757 | // Get data slice bounds |
---|
| 758 | |
---|
| 759 | IPosition start, end; |
---|
| 760 | setCursorSlice (start, end, doAll, in); |
---|
[146] | 761 | // |
---|
[434] | 762 | for (uInt i=0; i<tOut.nrow(); i++) { |
---|
[294] | 763 | |
---|
| 764 | // Modify data |
---|
| 765 | |
---|
[434] | 766 | MaskedArray<Float> dataIn(pOut->rowAsMaskedArray(i)); |
---|
| 767 | MaskedArray<Float> dataIn2 = dataIn(start,end); // Reference |
---|
| 768 | if (what==0) { |
---|
| 769 | dataIn2 *= val; |
---|
| 770 | } else if (what==1) { |
---|
| 771 | dataIn2 += val; |
---|
| 772 | } |
---|
| 773 | specCol.put(i, dataIn.getArray()); |
---|
[294] | 774 | |
---|
| 775 | // Modify Tsys |
---|
| 776 | |
---|
[434] | 777 | if (doTSys) { |
---|
| 778 | tSysCol.get(i, tSysArr); |
---|
| 779 | Array<Float> tSysArr2 = tSysArr(start,end); // Reference |
---|
[152] | 780 | if (what==0) { |
---|
[434] | 781 | tSysArr2 *= val; |
---|
[152] | 782 | } else if (what==1) { |
---|
[434] | 783 | tSysArr2 += val; |
---|
[152] | 784 | } |
---|
[434] | 785 | tSysCol.put(i, tSysArr); |
---|
[152] | 786 | } |
---|
| 787 | } |
---|
| 788 | // |
---|
[146] | 789 | return pOut; |
---|
| 790 | } |
---|
| 791 | |
---|
| 792 | |
---|
[152] | 793 | |
---|
[315] | 794 | SDMemTable* SDMath::averagePol(const SDMemTable& in, const Vector<Bool>& mask, |
---|
| 795 | const String& weightStr) const |
---|
[152] | 796 | // |
---|
[165] | 797 | // Average all polarizations together, weighted by variance |
---|
| 798 | // |
---|
| 799 | { |
---|
[315] | 800 | WeightType wtType = NONE; |
---|
| 801 | convertWeightString(wtType, weightStr); |
---|
[165] | 802 | |
---|
| 803 | const uInt nRows = in.nRow(); |
---|
| 804 | |
---|
| 805 | // Create output Table and reshape number of polarizations |
---|
| 806 | |
---|
| 807 | Bool clear=True; |
---|
| 808 | SDMemTable* pTabOut = new SDMemTable(in, clear); |
---|
| 809 | SDHeader header = pTabOut->getSDHeader(); |
---|
| 810 | header.npol = 1; |
---|
| 811 | pTabOut->putSDHeader(header); |
---|
| 812 | |
---|
| 813 | // Shape of input and output data |
---|
| 814 | |
---|
[448] | 815 | const IPosition& shapeIn = in.rowAsMaskedArray(0).shape(); |
---|
[165] | 816 | IPosition shapeOut(shapeIn); |
---|
[262] | 817 | shapeOut(asap::PolAxis) = 1; // Average all polarizations |
---|
[315] | 818 | if (shapeIn(asap::PolAxis)==1) { |
---|
| 819 | throw(AipsError("The input has only one polarisation")); |
---|
| 820 | } |
---|
[165] | 821 | // |
---|
[262] | 822 | const uInt nChan = shapeIn(asap::ChanAxis); |
---|
[165] | 823 | const IPosition vecShapeOut(4,1,1,1,nChan); // A multi-dim form of a Vector shape |
---|
| 824 | IPosition start(4), end(4); |
---|
| 825 | |
---|
| 826 | // Output arrays |
---|
| 827 | |
---|
| 828 | Array<Float> outData(shapeOut, 0.0); |
---|
| 829 | Array<Bool> outMask(shapeOut, True); |
---|
[262] | 830 | const IPosition axes(2, asap::PolAxis, asap::ChanAxis); // pol-channel plane |
---|
[165] | 831 | // |
---|
[262] | 832 | const Bool useMask = (mask.nelements() == shapeIn(asap::ChanAxis)); |
---|
[165] | 833 | |
---|
| 834 | // Loop over rows |
---|
| 835 | |
---|
| 836 | for (uInt iRow=0; iRow<nRows; iRow++) { |
---|
| 837 | |
---|
| 838 | // Get data for this row |
---|
| 839 | |
---|
| 840 | MaskedArray<Float> marr(in.rowAsMaskedArray(iRow)); |
---|
| 841 | Array<Float>& arr = marr.getRWArray(); |
---|
| 842 | const Array<Bool>& barr = marr.getMask(); |
---|
| 843 | |
---|
| 844 | // Make iterators to iterate by pol-channel planes |
---|
| 845 | |
---|
| 846 | ReadOnlyArrayIterator<Float> itDataPlane(arr, axes); |
---|
| 847 | ReadOnlyArrayIterator<Bool> itMaskPlane(barr, axes); |
---|
| 848 | |
---|
| 849 | // Accumulations |
---|
| 850 | |
---|
| 851 | Float fac = 1.0; |
---|
| 852 | Vector<Float> vecSum(nChan,0.0); |
---|
| 853 | |
---|
| 854 | // Iterate through data by pol-channel planes |
---|
| 855 | |
---|
| 856 | while (!itDataPlane.pastEnd()) { |
---|
| 857 | |
---|
| 858 | // Iterate through plane by polarization and accumulate Vectors |
---|
| 859 | |
---|
| 860 | Vector<Float> t1(nChan); t1 = 0.0; |
---|
| 861 | Vector<Bool> t2(nChan); t2 = True; |
---|
| 862 | MaskedArray<Float> vecSum(t1,t2); |
---|
[315] | 863 | Float norm = 0.0; |
---|
[165] | 864 | { |
---|
| 865 | ReadOnlyVectorIterator<Float> itDataVec(itDataPlane.array(), 1); |
---|
| 866 | ReadOnlyVectorIterator<Bool> itMaskVec(itMaskPlane.array(), 1); |
---|
| 867 | while (!itDataVec.pastEnd()) { |
---|
| 868 | |
---|
[315] | 869 | // Create MA of data & mask (optionally including OTF mask) and get variance for this spectrum |
---|
[165] | 870 | |
---|
| 871 | if (useMask) { |
---|
| 872 | const MaskedArray<Float> spec(itDataVec.vector(),mask&&itMaskVec.vector()); |
---|
[315] | 873 | if (wtType==VAR) fac = 1.0 / variance(spec); |
---|
[165] | 874 | } else { |
---|
| 875 | const MaskedArray<Float> spec(itDataVec.vector(),itMaskVec.vector()); |
---|
[315] | 876 | if (wtType==VAR) fac = 1.0 / variance(spec); |
---|
[165] | 877 | } |
---|
| 878 | |
---|
| 879 | // Normalize spectrum (without OTF mask) and accumulate |
---|
| 880 | |
---|
| 881 | const MaskedArray<Float> spec(fac*itDataVec.vector(), itMaskVec.vector()); |
---|
| 882 | vecSum += spec; |
---|
[315] | 883 | norm += fac; |
---|
[165] | 884 | |
---|
| 885 | // Next |
---|
| 886 | |
---|
| 887 | itDataVec.next(); |
---|
| 888 | itMaskVec.next(); |
---|
| 889 | } |
---|
| 890 | } |
---|
| 891 | |
---|
| 892 | // Normalize summed spectrum |
---|
| 893 | |
---|
[315] | 894 | vecSum /= norm; |
---|
[165] | 895 | |
---|
| 896 | // FInd position in input data array. We are iterating by pol-channel |
---|
| 897 | // plane so all that will change is beam and IF and that's what we want. |
---|
| 898 | |
---|
| 899 | IPosition pos = itDataPlane.pos(); |
---|
| 900 | |
---|
| 901 | // Write out data. This is a bit messy. We have to reform the Vector |
---|
| 902 | // accumulator into an Array of shape (1,1,1,nChan) |
---|
| 903 | |
---|
| 904 | start = pos; |
---|
| 905 | end = pos; |
---|
[262] | 906 | end(asap::ChanAxis) = nChan-1; |
---|
[165] | 907 | outData(start,end) = vecSum.getArray().reform(vecShapeOut); |
---|
| 908 | outMask(start,end) = vecSum.getMask().reform(vecShapeOut); |
---|
| 909 | |
---|
| 910 | // Step to next beam/IF combination |
---|
| 911 | |
---|
| 912 | itDataPlane.next(); |
---|
| 913 | itMaskPlane.next(); |
---|
| 914 | } |
---|
| 915 | |
---|
| 916 | // Generate output container and write it to output table |
---|
| 917 | |
---|
| 918 | SDContainer sc = in.getSDContainer(); |
---|
| 919 | sc.resize(shapeOut); |
---|
| 920 | // |
---|
[185] | 921 | putDataInSDC(sc, outData, outMask); |
---|
[165] | 922 | pTabOut->putSDContainer(sc); |
---|
| 923 | } |
---|
[304] | 924 | |
---|
| 925 | // Set polarization cursor to 0 |
---|
| 926 | |
---|
| 927 | pTabOut->setPol(0); |
---|
[165] | 928 | // |
---|
| 929 | return pTabOut; |
---|
| 930 | } |
---|
[167] | 931 | |
---|
[169] | 932 | |
---|
[185] | 933 | SDMemTable* SDMath::smooth(const SDMemTable& in, |
---|
| 934 | const casa::String& kernelType, |
---|
[234] | 935 | casa::Float width, Bool doAll) const |
---|
[299] | 936 | // |
---|
| 937 | // Should smooth TSys as well |
---|
| 938 | // |
---|
[177] | 939 | { |
---|
[169] | 940 | |
---|
[177] | 941 | // Number of channels |
---|
[169] | 942 | |
---|
[434] | 943 | const uInt nChan = in.nChan(); |
---|
[177] | 944 | |
---|
| 945 | // Generate Kernel |
---|
| 946 | |
---|
[185] | 947 | VectorKernel::KernelTypes type = VectorKernel::toKernelType(kernelType); |
---|
[177] | 948 | Vector<Float> kernel = VectorKernel::make(type, width, nChan, True, False); |
---|
| 949 | |
---|
| 950 | // Generate Convolver |
---|
| 951 | |
---|
| 952 | IPosition shape(1,nChan); |
---|
| 953 | Convolver<Float> conv(kernel, shape); |
---|
| 954 | |
---|
| 955 | // New Table |
---|
| 956 | |
---|
| 957 | SDMemTable* pTabOut = new SDMemTable(in,True); |
---|
| 958 | |
---|
| 959 | // Output Vectors |
---|
| 960 | |
---|
[434] | 961 | Vector<Float> valuesOut(nChan); |
---|
| 962 | Vector<Bool> maskOut(nChan); |
---|
[177] | 963 | |
---|
[434] | 964 | // Get data slice bounds |
---|
| 965 | |
---|
| 966 | IPosition start, end; |
---|
| 967 | setCursorSlice (start, end, doAll, in); |
---|
| 968 | |
---|
[177] | 969 | // Loop over rows in Table |
---|
| 970 | |
---|
[434] | 971 | for (uInt ri=0; ri < in.nRow(); ++ri) { |
---|
[177] | 972 | |
---|
[434] | 973 | // Get slice of data |
---|
[177] | 974 | |
---|
[434] | 975 | MaskedArray<Float> dataIn = in.rowAsMaskedArray(ri); |
---|
[177] | 976 | |
---|
[434] | 977 | // Deconstruct and get slices which reference these arrays |
---|
[177] | 978 | |
---|
[434] | 979 | Array<Float> valuesIn = dataIn.getArray(); |
---|
| 980 | Array<Bool> maskIn = dataIn.getMask(); |
---|
[177] | 981 | // |
---|
[434] | 982 | Array<Float> valuesIn2 = valuesIn(start,end); // ref to valuesIn |
---|
| 983 | Array<Bool> maskIn2 = maskIn(start,end); |
---|
[177] | 984 | |
---|
[434] | 985 | // Iterate through by spectra |
---|
[177] | 986 | |
---|
[434] | 987 | VectorIterator<Float> itValues(valuesIn2, asap::ChanAxis); |
---|
| 988 | VectorIterator<Bool> itMask(maskIn2, asap::ChanAxis); |
---|
| 989 | while (!itValues.pastEnd()) { |
---|
| 990 | |
---|
[177] | 991 | // Smooth |
---|
| 992 | |
---|
[434] | 993 | if (kernelType==VectorKernel::HANNING) { |
---|
| 994 | mathutil::hanning(valuesOut, maskOut, itValues.vector(), itMask.vector()); |
---|
| 995 | itMask.vector() = maskOut; |
---|
| 996 | } else { |
---|
| 997 | mathutil::replaceMaskByZero(itValues.vector(), itMask.vector()); |
---|
| 998 | conv.linearConv(valuesOut, itValues.vector()); |
---|
| 999 | } |
---|
| 1000 | // |
---|
| 1001 | itValues.vector() = valuesOut; |
---|
| 1002 | // |
---|
| 1003 | itValues.next(); |
---|
| 1004 | itMask.next(); |
---|
| 1005 | } |
---|
[177] | 1006 | |
---|
| 1007 | // Create and put back |
---|
| 1008 | |
---|
[434] | 1009 | SDContainer sc = in.getSDContainer(ri); |
---|
| 1010 | putDataInSDC(sc, valuesIn, maskIn); |
---|
[177] | 1011 | // |
---|
[434] | 1012 | pTabOut->putSDContainer(sc); |
---|
| 1013 | } |
---|
[177] | 1014 | // |
---|
| 1015 | return pTabOut; |
---|
| 1016 | } |
---|
| 1017 | |
---|
| 1018 | |
---|
[262] | 1019 | |
---|
[354] | 1020 | SDMemTable* SDMath::convertFlux (const SDMemTable& in, Float D, Float etaAp, |
---|
| 1021 | Float JyPerK, Bool doAll) const |
---|
[221] | 1022 | // |
---|
[354] | 1023 | // etaAp = aperture efficiency |
---|
| 1024 | // D = geometric diameter (m) |
---|
| 1025 | // JyPerK |
---|
[221] | 1026 | // |
---|
| 1027 | { |
---|
| 1028 | SDHeader sh = in.getSDHeader(); |
---|
| 1029 | SDMemTable* pTabOut = new SDMemTable(in, True); |
---|
[177] | 1030 | |
---|
[354] | 1031 | // Find out how to convert values into Jy and K (e.g. units might be mJy or mK) |
---|
[221] | 1032 | // Also automatically find out what we are converting to according to the |
---|
| 1033 | // flux unit |
---|
[177] | 1034 | |
---|
[221] | 1035 | Unit fluxUnit(sh.fluxunit); |
---|
| 1036 | Unit K(String("K")); |
---|
| 1037 | Unit JY(String("Jy")); |
---|
| 1038 | // |
---|
| 1039 | Bool toKelvin = True; |
---|
[354] | 1040 | Double cFac = 1.0; |
---|
[221] | 1041 | if (fluxUnit==JY) { |
---|
[414] | 1042 | cout << "Converting to K" << endl; |
---|
[221] | 1043 | // |
---|
| 1044 | Quantum<Double> t(1.0,fluxUnit); |
---|
| 1045 | Quantum<Double> t2 = t.get(JY); |
---|
[354] | 1046 | cFac = (t2 / t).getValue(); // value to Jy |
---|
[221] | 1047 | // |
---|
| 1048 | toKelvin = True; |
---|
| 1049 | sh.fluxunit = "K"; |
---|
| 1050 | } else if (fluxUnit==K) { |
---|
[414] | 1051 | cout << "Converting to Jy" << endl; |
---|
[221] | 1052 | // |
---|
| 1053 | Quantum<Double> t(1.0,fluxUnit); |
---|
| 1054 | Quantum<Double> t2 = t.get(K); |
---|
[354] | 1055 | cFac = (t2 / t).getValue(); // value to K |
---|
[221] | 1056 | // |
---|
| 1057 | toKelvin = False; |
---|
| 1058 | sh.fluxunit = "Jy"; |
---|
| 1059 | } else { |
---|
[248] | 1060 | throw(AipsError("Unrecognized brightness units in Table - must be consistent with Jy or K")); |
---|
[221] | 1061 | } |
---|
| 1062 | pTabOut->putSDHeader(sh); |
---|
[177] | 1063 | |
---|
[354] | 1064 | // Make sure input values are converted to either Jy or K first... |
---|
[221] | 1065 | |
---|
[354] | 1066 | Float factor = cFac; |
---|
[221] | 1067 | |
---|
[354] | 1068 | // Select method |
---|
[221] | 1069 | |
---|
[354] | 1070 | if (JyPerK>0.0) { |
---|
| 1071 | factor *= JyPerK; |
---|
| 1072 | if (toKelvin) factor = 1.0 / JyPerK; |
---|
| 1073 | // |
---|
[414] | 1074 | cout << "Applying supplied conversion factor = " << factor << endl; |
---|
[354] | 1075 | Vector<Float> factors(in.nRow(), factor); |
---|
| 1076 | correctFromVector (pTabOut, in, doAll, factors); |
---|
| 1077 | } else if (etaAp>0.0) { |
---|
| 1078 | factor *= SDAttr::findJyPerKFac (etaAp, D); |
---|
| 1079 | if (toKelvin) { |
---|
| 1080 | factor = 1.0 / factor; |
---|
| 1081 | } |
---|
| 1082 | // |
---|
[414] | 1083 | cout << "Applying supplied conversion factor = " << factor << endl; |
---|
[354] | 1084 | Vector<Float> factors(in.nRow(), factor); |
---|
| 1085 | correctFromVector (pTabOut, in, doAll, factors); |
---|
| 1086 | } else { |
---|
[221] | 1087 | |
---|
[354] | 1088 | // OK now we must deal with automatic look up of values. |
---|
| 1089 | // We must also deal with the fact that the factors need |
---|
| 1090 | // to be computed per IF and may be different and may |
---|
| 1091 | // change per integration. |
---|
[221] | 1092 | |
---|
[414] | 1093 | cout << "Looking up conversion factors" << endl; |
---|
[354] | 1094 | convertBrightnessUnits (pTabOut, in, toKelvin, cFac, doAll); |
---|
| 1095 | } |
---|
[221] | 1096 | // |
---|
| 1097 | return pTabOut; |
---|
| 1098 | } |
---|
| 1099 | |
---|
| 1100 | |
---|
[354] | 1101 | |
---|
| 1102 | |
---|
| 1103 | |
---|
[234] | 1104 | SDMemTable* SDMath::gainElevation (const SDMemTable& in, const Vector<Float>& coeffs, |
---|
| 1105 | const String& fileName, |
---|
| 1106 | const String& methodStr, Bool doAll) const |
---|
[227] | 1107 | { |
---|
[234] | 1108 | |
---|
| 1109 | // Get header and clone output table |
---|
| 1110 | |
---|
[227] | 1111 | SDHeader sh = in.getSDHeader(); |
---|
| 1112 | SDMemTable* pTabOut = new SDMemTable(in, True); |
---|
| 1113 | |
---|
[234] | 1114 | // Get elevation data from SDMemTable and convert to degrees |
---|
[227] | 1115 | |
---|
| 1116 | const Table& tab = in.table(); |
---|
| 1117 | ROScalarColumn<Float> elev(tab, "ELEVATION"); |
---|
[234] | 1118 | Vector<Float> x = elev.getColumn(); |
---|
[363] | 1119 | x *= Float(180 / C::pi); // Degrees |
---|
[227] | 1120 | // |
---|
[234] | 1121 | const uInt nC = coeffs.nelements(); |
---|
| 1122 | if (fileName.length()>0 && nC>0) { |
---|
[248] | 1123 | throw(AipsError("You must choose either polynomial coefficients or an ascii file, not both")); |
---|
[234] | 1124 | } |
---|
| 1125 | |
---|
| 1126 | // Correct |
---|
| 1127 | |
---|
| 1128 | if (nC>0 || fileName.length()==0) { |
---|
| 1129 | |
---|
| 1130 | // Find instrument |
---|
| 1131 | |
---|
| 1132 | Bool throwIt = True; |
---|
| 1133 | Instrument inst = SDMemTable::convertInstrument (sh.antennaname, throwIt); |
---|
| 1134 | |
---|
| 1135 | // Set polynomial |
---|
| 1136 | |
---|
| 1137 | Polynomial<Float>* pPoly = 0; |
---|
| 1138 | Vector<Float> coeff; |
---|
| 1139 | String msg; |
---|
| 1140 | if (nC>0) { |
---|
| 1141 | pPoly = new Polynomial<Float>(nC); |
---|
| 1142 | coeff = coeffs; |
---|
| 1143 | msg = String("user"); |
---|
| 1144 | } else { |
---|
[363] | 1145 | SDAttr sdAttr; |
---|
| 1146 | coeff = sdAttr.gainElevationPoly(inst); |
---|
| 1147 | pPoly = new Polynomial<Float>(3); |
---|
[234] | 1148 | msg = String("built in"); |
---|
| 1149 | } |
---|
[227] | 1150 | // |
---|
[234] | 1151 | if (coeff.nelements()>0) { |
---|
| 1152 | pPoly->setCoefficients(coeff); |
---|
| 1153 | } else { |
---|
[363] | 1154 | throw(AipsError("There is no known gain-elevation polynomial known for this instrument")); |
---|
[234] | 1155 | } |
---|
| 1156 | // |
---|
[414] | 1157 | cout << "Making polynomial correction with " << msg << " coefficients" << endl; |
---|
[234] | 1158 | const uInt nRow = in.nRow(); |
---|
| 1159 | Vector<Float> factor(nRow); |
---|
| 1160 | for (uInt i=0; i<nRow; i++) { |
---|
| 1161 | factor[i] = (*pPoly)(x[i]); |
---|
| 1162 | } |
---|
| 1163 | delete pPoly; |
---|
| 1164 | // |
---|
| 1165 | correctFromVector (pTabOut, in, doAll, factor); |
---|
| 1166 | } else { |
---|
| 1167 | |
---|
| 1168 | // Indicate which columns to read from ascii file |
---|
| 1169 | |
---|
| 1170 | String col0("ELEVATION"); |
---|
| 1171 | String col1("FACTOR"); |
---|
| 1172 | |
---|
| 1173 | // Read and correct |
---|
| 1174 | |
---|
[414] | 1175 | cout << "Making correction from ascii Table" << endl; |
---|
[234] | 1176 | correctFromAsciiTable (pTabOut, in, fileName, col0, col1, |
---|
| 1177 | methodStr, doAll, x); |
---|
| 1178 | } |
---|
| 1179 | // |
---|
| 1180 | return pTabOut; |
---|
[230] | 1181 | } |
---|
[227] | 1182 | |
---|
[230] | 1183 | |
---|
[227] | 1184 | |
---|
[234] | 1185 | SDMemTable* SDMath::opacity (const SDMemTable& in, Float tau, Bool doAll) const |
---|
| 1186 | { |
---|
[227] | 1187 | |
---|
[234] | 1188 | // Get header and clone output table |
---|
[227] | 1189 | |
---|
[234] | 1190 | SDHeader sh = in.getSDHeader(); |
---|
| 1191 | SDMemTable* pTabOut = new SDMemTable(in, True); |
---|
| 1192 | |
---|
| 1193 | // Get elevation data from SDMemTable and convert to degrees |
---|
| 1194 | |
---|
| 1195 | const Table& tab = in.table(); |
---|
| 1196 | ROScalarColumn<Float> elev(tab, "ELEVATION"); |
---|
| 1197 | Vector<Float> zDist = elev.getColumn(); |
---|
| 1198 | zDist = Float(C::pi_2) - zDist; |
---|
| 1199 | |
---|
| 1200 | // Generate correction factor |
---|
| 1201 | |
---|
| 1202 | const uInt nRow = in.nRow(); |
---|
| 1203 | Vector<Float> factor(nRow); |
---|
| 1204 | Vector<Float> factor2(nRow); |
---|
| 1205 | for (uInt i=0; i<nRow; i++) { |
---|
| 1206 | factor[i] = exp(tau)/cos(zDist[i]); |
---|
| 1207 | } |
---|
| 1208 | |
---|
| 1209 | // Correct |
---|
| 1210 | |
---|
| 1211 | correctFromVector (pTabOut, in, doAll, factor); |
---|
| 1212 | // |
---|
| 1213 | return pTabOut; |
---|
| 1214 | } |
---|
| 1215 | |
---|
| 1216 | |
---|
[457] | 1217 | void SDMath::rotateXYPhase (SDMemTable& in, Float value, Bool doAll) |
---|
| 1218 | // |
---|
| 1219 | // phase in degrees |
---|
| 1220 | // Applies to all Beams and IFs |
---|
| 1221 | // Might want to optionally select on Beam/IF |
---|
| 1222 | // |
---|
| 1223 | { |
---|
| 1224 | if (in.nPol() != 4) { |
---|
| 1225 | throw(AipsError("You must have 4 polarizations to run this function")); |
---|
| 1226 | } |
---|
| 1227 | // |
---|
| 1228 | const Table& tabIn = in.table(); |
---|
| 1229 | ArrayColumn<Float> specCol(tabIn,"SPECTRA"); |
---|
| 1230 | IPosition start(asap::nAxes,0); |
---|
| 1231 | IPosition end(asap::nAxes); |
---|
[234] | 1232 | |
---|
[457] | 1233 | // Set cursor slice. Assumes shape the same for all rows |
---|
| 1234 | |
---|
| 1235 | setCursorSlice (start, end, doAll, in); |
---|
| 1236 | IPosition start3(start); |
---|
| 1237 | start3(asap::PolAxis) = 2; // Real(XY) |
---|
| 1238 | IPosition end3(end); |
---|
| 1239 | end3(asap::PolAxis) = 2; |
---|
| 1240 | // |
---|
| 1241 | IPosition start4(start); |
---|
| 1242 | start4(asap::PolAxis) = 3; // Imag (XY) |
---|
| 1243 | IPosition end4(end); |
---|
| 1244 | end4(asap::PolAxis) = 3; |
---|
| 1245 | // |
---|
| 1246 | uInt nRow = in.nRow(); |
---|
| 1247 | Array<Float> data; |
---|
| 1248 | for (uInt i=0; i<nRow;++i) { |
---|
| 1249 | specCol.get(i,data); |
---|
| 1250 | IPosition shape = data.shape(); |
---|
| 1251 | |
---|
| 1252 | // Get polarization slice references |
---|
| 1253 | |
---|
| 1254 | Array<Float> C3 = data(start3,end3); |
---|
| 1255 | Array<Float> C4 = data(start4,end4); |
---|
| 1256 | |
---|
| 1257 | // Rotate |
---|
| 1258 | |
---|
| 1259 | SDPolUtil::rotateXYPhase(C3, C4, value); |
---|
| 1260 | |
---|
| 1261 | // Put |
---|
| 1262 | |
---|
| 1263 | specCol.put(i,data); |
---|
| 1264 | } |
---|
| 1265 | } |
---|
[234] | 1266 | |
---|
[457] | 1267 | |
---|
| 1268 | |
---|
[169] | 1269 | // 'private' functions |
---|
| 1270 | |
---|
[354] | 1271 | void SDMath::convertBrightnessUnits (SDMemTable* pTabOut, const SDMemTable& in, |
---|
| 1272 | Bool toKelvin, Float cFac, Bool doAll) const |
---|
| 1273 | { |
---|
[309] | 1274 | |
---|
[354] | 1275 | // Get header |
---|
| 1276 | |
---|
| 1277 | SDHeader sh = in.getSDHeader(); |
---|
| 1278 | const uInt nChan = sh.nchan; |
---|
| 1279 | |
---|
| 1280 | // Get instrument |
---|
| 1281 | |
---|
| 1282 | Bool throwIt = True; |
---|
| 1283 | Instrument inst = SDMemTable::convertInstrument (sh.antennaname, throwIt); |
---|
| 1284 | |
---|
| 1285 | // Get Diameter (m) |
---|
| 1286 | |
---|
| 1287 | SDAttr sdAtt; |
---|
| 1288 | |
---|
| 1289 | // Get epoch of first row |
---|
| 1290 | |
---|
| 1291 | MEpoch dateObs = in.getEpoch(0); |
---|
| 1292 | |
---|
| 1293 | // Generate a Vector of correction factors. One per FreqID |
---|
| 1294 | |
---|
| 1295 | SDFrequencyTable sdft = in.getSDFreqTable(); |
---|
| 1296 | Vector<uInt> freqIDs; |
---|
| 1297 | // |
---|
| 1298 | Vector<Float> freqs(sdft.length()); |
---|
| 1299 | for (uInt i=0; i<sdft.length(); i++) { |
---|
| 1300 | freqs(i) = (nChan/2 - sdft.referencePixel(i))*sdft.increment(i) + sdft.referenceValue(i); |
---|
| 1301 | } |
---|
| 1302 | // |
---|
| 1303 | Vector<Float> JyPerK = sdAtt.JyPerK(inst, dateObs, freqs); |
---|
[414] | 1304 | cout << "Jy/K = " << JyPerK << endl; |
---|
[354] | 1305 | Vector<Float> factors = cFac * JyPerK; |
---|
| 1306 | if (toKelvin) factors = Float(1.0) / factors; |
---|
| 1307 | |
---|
[434] | 1308 | // Get data slice bounds |
---|
[354] | 1309 | |
---|
| 1310 | IPosition start, end; |
---|
[434] | 1311 | setCursorSlice (start, end, doAll, in); |
---|
[354] | 1312 | const uInt ifAxis = in.getIF(); |
---|
| 1313 | |
---|
| 1314 | // Iteration axes |
---|
| 1315 | |
---|
| 1316 | IPosition axes(asap::nAxes-1,0); |
---|
| 1317 | for (uInt i=0,j=0; i<asap::nAxes; i++) { |
---|
| 1318 | if (i!=asap::IFAxis) { |
---|
| 1319 | axes(j++) = i; |
---|
| 1320 | } |
---|
| 1321 | } |
---|
| 1322 | |
---|
| 1323 | // Loop over rows and apply correction factor |
---|
| 1324 | |
---|
| 1325 | Float factor = 1.0; |
---|
| 1326 | const uInt axis = asap::ChanAxis; |
---|
| 1327 | for (uInt i=0; i < in.nRow(); ++i) { |
---|
| 1328 | |
---|
| 1329 | // Get data |
---|
| 1330 | |
---|
[434] | 1331 | MaskedArray<Float> dataIn = in.rowAsMaskedArray(i); |
---|
| 1332 | Array<Float>& values = dataIn.getRWArray(); // Ref to dataIn |
---|
| 1333 | Array<Float> values2 = values(start,end); // Ref to values to dataIn |
---|
[354] | 1334 | |
---|
| 1335 | // Get SDCOntainer |
---|
| 1336 | |
---|
| 1337 | SDContainer sc = in.getSDContainer(i); |
---|
| 1338 | |
---|
| 1339 | // Get FreqIDs |
---|
| 1340 | |
---|
| 1341 | freqIDs = sc.getFreqMap(); |
---|
| 1342 | |
---|
| 1343 | // Now the conversion factor depends only upon frequency |
---|
| 1344 | // So we need to iterate through by IF only giving |
---|
| 1345 | // us BEAM/POL/CHAN cubes |
---|
| 1346 | |
---|
[434] | 1347 | ArrayIterator<Float> itIn(values2, axes); |
---|
| 1348 | uInt ax = 0; |
---|
| 1349 | while (!itIn.pastEnd()) { |
---|
| 1350 | itIn.array() *= factors(freqIDs(ax)); // Writes back to dataIn |
---|
| 1351 | itIn.next(); |
---|
[354] | 1352 | } |
---|
| 1353 | |
---|
| 1354 | // Write out |
---|
| 1355 | |
---|
| 1356 | putDataInSDC(sc, dataIn.getArray(), dataIn.getMask()); |
---|
| 1357 | // |
---|
| 1358 | pTabOut->putSDContainer(sc); |
---|
| 1359 | } |
---|
| 1360 | } |
---|
| 1361 | |
---|
| 1362 | |
---|
| 1363 | |
---|
[309] | 1364 | SDMemTable* SDMath::frequencyAlign (const SDMemTable& in, |
---|
| 1365 | MFrequency::Types freqSystem, |
---|
[397] | 1366 | const String& refTime, |
---|
| 1367 | const String& methodStr, |
---|
| 1368 | Bool perFreqID) const |
---|
[267] | 1369 | { |
---|
| 1370 | // Get Header |
---|
| 1371 | |
---|
| 1372 | SDHeader sh = in.getSDHeader(); |
---|
| 1373 | const uInt nChan = sh.nchan; |
---|
| 1374 | const uInt nRows = in.nRow(); |
---|
[330] | 1375 | const uInt nIF = sh.nif; |
---|
[267] | 1376 | |
---|
| 1377 | // Get Table reference |
---|
| 1378 | |
---|
| 1379 | const Table& tabIn = in.table(); |
---|
| 1380 | |
---|
| 1381 | // Get Columns from Table |
---|
| 1382 | |
---|
[294] | 1383 | ROScalarColumn<Double> mjdCol(tabIn, "TIME"); |
---|
| 1384 | ROScalarColumn<String> srcCol(tabIn, "SRCNAME"); |
---|
| 1385 | ROArrayColumn<uInt> fqIDCol(tabIn, "FREQID"); |
---|
| 1386 | Vector<Double> times = mjdCol.getColumn(); |
---|
[267] | 1387 | |
---|
[397] | 1388 | // Generate DataDesc table |
---|
[330] | 1389 | |
---|
| 1390 | Matrix<uInt> ddIdx; |
---|
| 1391 | SDDataDesc dDesc; |
---|
[397] | 1392 | generateDataDescTable (ddIdx, dDesc, nIF, in, tabIn, srcCol, fqIDCol, perFreqID); |
---|
[267] | 1393 | |
---|
[294] | 1394 | // Get reference Epoch to time of first row or given String |
---|
[267] | 1395 | |
---|
| 1396 | Unit DAY(String("d")); |
---|
[272] | 1397 | MEpoch::Ref epochRef(in.getTimeReference()); |
---|
| 1398 | MEpoch refEpoch; |
---|
| 1399 | if (refTime.length()>0) { |
---|
| 1400 | refEpoch = epochFromString(refTime, in.getTimeReference()); |
---|
| 1401 | } else { |
---|
[288] | 1402 | refEpoch = in.getEpoch(0); |
---|
[272] | 1403 | } |
---|
[414] | 1404 | cout << "Aligning at reference Epoch " << formatEpoch(refEpoch) |
---|
| 1405 | << " in frame " << MFrequency::showType(freqSystem) << endl; |
---|
| 1406 | |
---|
[294] | 1407 | // Get Reference Position |
---|
[267] | 1408 | |
---|
[288] | 1409 | MPosition refPos = in.getAntennaPosition(); |
---|
[267] | 1410 | |
---|
[397] | 1411 | // Create FrequencyAligner Block. One FA for each possible |
---|
| 1412 | // source/freqID (perFreqID=True) or source/IF (perFreqID=False) combination |
---|
[267] | 1413 | |
---|
[330] | 1414 | PtrBlock<FrequencyAligner<Float>* > a(dDesc.length()); |
---|
[397] | 1415 | generateFrequencyAligners (a, dDesc, in, nChan, freqSystem, refPos, |
---|
| 1416 | refEpoch, perFreqID); |
---|
[267] | 1417 | |
---|
[397] | 1418 | // Generate and fill output Frequency Table. WHen perFreqID=True, there is one output FreqID |
---|
| 1419 | // for each entry in the SDDataDesc table. However, in perFreqID=False mode, there may be |
---|
| 1420 | // some degeneracy, so we need a little translation map |
---|
[330] | 1421 | |
---|
| 1422 | SDFrequencyTable freqTabOut = in.getSDFreqTable(); |
---|
| 1423 | freqTabOut.setLength(0); |
---|
| 1424 | Vector<String> units(1); |
---|
| 1425 | units = String("Hz"); |
---|
| 1426 | Bool linear=True; |
---|
| 1427 | // |
---|
[397] | 1428 | Vector<uInt> ddFQTrans(dDesc.length(),0); |
---|
[330] | 1429 | for (uInt i=0; i<dDesc.length(); i++) { |
---|
| 1430 | |
---|
| 1431 | // Get Aligned SC in Hz |
---|
| 1432 | |
---|
| 1433 | SpectralCoordinate sC = a[i]->alignedSpectralCoordinate(linear); |
---|
| 1434 | sC.setWorldAxisUnits(units); |
---|
| 1435 | |
---|
| 1436 | // Add FreqID |
---|
| 1437 | |
---|
[397] | 1438 | uInt idx = freqTabOut.addFrequency(sC.referencePixel()[0], |
---|
| 1439 | sC.referenceValue()[0], |
---|
| 1440 | sC.increment()[0]); |
---|
| 1441 | ddFQTrans(i) = idx; // output FreqID = ddFQTrans(ddIdx) |
---|
[330] | 1442 | } |
---|
| 1443 | |
---|
[317] | 1444 | // Interpolation method |
---|
| 1445 | |
---|
| 1446 | InterpolateArray1D<Double,Float>::InterpolationMethod interp; |
---|
| 1447 | convertInterpString(interp, methodStr); |
---|
| 1448 | |
---|
[267] | 1449 | // New output Table |
---|
| 1450 | |
---|
[414] | 1451 | cout << "Create output table" << endl; |
---|
[267] | 1452 | SDMemTable* pTabOut = new SDMemTable(in,True); |
---|
[330] | 1453 | pTabOut->putSDFreqTable(freqTabOut); |
---|
[267] | 1454 | |
---|
| 1455 | // Loop over rows in Table |
---|
| 1456 | |
---|
[330] | 1457 | Bool extrapolate=False; |
---|
[294] | 1458 | const IPosition polChanAxes(2, asap::PolAxis, asap::ChanAxis); |
---|
| 1459 | Bool useCachedAbcissa = False; |
---|
| 1460 | Bool first = True; |
---|
| 1461 | Bool ok; |
---|
| 1462 | Vector<Float> yOut; |
---|
| 1463 | Vector<Bool> maskOut; |
---|
[330] | 1464 | Vector<uInt> freqID(nIF); |
---|
[309] | 1465 | uInt ifIdx, faIdx; |
---|
[397] | 1466 | Vector<Double> xIn; |
---|
[267] | 1467 | // |
---|
[294] | 1468 | for (uInt iRow=0; iRow<nRows; ++iRow) { |
---|
| 1469 | if (iRow%10==0) { |
---|
[414] | 1470 | cout << "Processing row " << iRow << endl; |
---|
[294] | 1471 | } |
---|
[267] | 1472 | |
---|
| 1473 | // Get EPoch |
---|
| 1474 | |
---|
[294] | 1475 | Quantum<Double> tQ2(times[iRow],DAY); |
---|
| 1476 | MVEpoch mv2(tQ2); |
---|
| 1477 | MEpoch epoch(mv2, epochRef); |
---|
[267] | 1478 | |
---|
| 1479 | // Get copy of data |
---|
| 1480 | |
---|
[294] | 1481 | const MaskedArray<Float>& mArrIn(in.rowAsMaskedArray(iRow)); |
---|
| 1482 | Array<Float> values = mArrIn.getArray(); |
---|
| 1483 | Array<Bool> mask = mArrIn.getMask(); |
---|
[267] | 1484 | |
---|
[309] | 1485 | // For each row, the Frequency abcissa will be the same regardless |
---|
[267] | 1486 | // of polarization. For all other axes (IF and BEAM) the abcissa |
---|
| 1487 | // will change. So we iterate through the data by pol-chan planes |
---|
[330] | 1488 | // to mimimize the work. Probably won't work for multiple beams |
---|
| 1489 | // at this point. |
---|
[267] | 1490 | |
---|
[294] | 1491 | ArrayIterator<Float> itValuesPlane(values, polChanAxes); |
---|
| 1492 | ArrayIterator<Bool> itMaskPlane(mask, polChanAxes); |
---|
| 1493 | while (!itValuesPlane.pastEnd()) { |
---|
[267] | 1494 | |
---|
[309] | 1495 | // Find the IF index and then the FA PtrBlock index |
---|
[267] | 1496 | |
---|
[294] | 1497 | const IPosition& pos = itValuesPlane.pos(); |
---|
| 1498 | ifIdx = pos(asap::IFAxis); |
---|
[330] | 1499 | faIdx = ddIdx(iRow,ifIdx); |
---|
[397] | 1500 | |
---|
| 1501 | // Generate abcissa for perIF. Could cache this in a Matrix |
---|
| 1502 | // on a per scan basis. Pretty expensive doing it for every row. |
---|
| 1503 | |
---|
| 1504 | if (!perFreqID) { |
---|
| 1505 | xIn.resize(nChan); |
---|
| 1506 | uInt fqID = dDesc.secID(ddIdx(iRow,ifIdx)); |
---|
| 1507 | SpectralCoordinate sC = in.getSpectralCoordinate(fqID); |
---|
| 1508 | Double w; |
---|
| 1509 | for (uInt i=0; i<nChan; i++) { |
---|
| 1510 | sC.toWorld(w,Double(i)); |
---|
| 1511 | xIn[i] = w; |
---|
| 1512 | } |
---|
| 1513 | } |
---|
[267] | 1514 | // |
---|
[294] | 1515 | VectorIterator<Float> itValuesVec(itValuesPlane.array(), 1); |
---|
| 1516 | VectorIterator<Bool> itMaskVec(itMaskPlane.array(), 1); |
---|
[330] | 1517 | |
---|
| 1518 | // Iterate through the plane by vector and align |
---|
| 1519 | |
---|
[294] | 1520 | first = True; |
---|
| 1521 | useCachedAbcissa=False; |
---|
| 1522 | while (!itValuesVec.pastEnd()) { |
---|
[397] | 1523 | if (perFreqID) { |
---|
| 1524 | ok = a[faIdx]->align (yOut, maskOut, itValuesVec.vector(), |
---|
| 1525 | itMaskVec.vector(), epoch, useCachedAbcissa, |
---|
| 1526 | interp, extrapolate); |
---|
| 1527 | } else { |
---|
| 1528 | ok = a[faIdx]->align (yOut, maskOut, xIn, itValuesVec.vector(), |
---|
| 1529 | itMaskVec.vector(), epoch, useCachedAbcissa, |
---|
| 1530 | interp, extrapolate); |
---|
| 1531 | } |
---|
[330] | 1532 | // |
---|
[294] | 1533 | itValuesVec.vector() = yOut; |
---|
| 1534 | itMaskVec.vector() = maskOut; |
---|
[267] | 1535 | // |
---|
[294] | 1536 | itValuesVec.next(); |
---|
| 1537 | itMaskVec.next(); |
---|
[267] | 1538 | // |
---|
[294] | 1539 | if (first) { |
---|
| 1540 | useCachedAbcissa = True; |
---|
| 1541 | first = False; |
---|
| 1542 | } |
---|
| 1543 | } |
---|
[267] | 1544 | // |
---|
| 1545 | itValuesPlane.next(); |
---|
| 1546 | itMaskPlane.next(); |
---|
[294] | 1547 | } |
---|
[267] | 1548 | |
---|
[330] | 1549 | // Create SDContainer and put back |
---|
[267] | 1550 | |
---|
| 1551 | SDContainer sc = in.getSDContainer(iRow); |
---|
| 1552 | putDataInSDC(sc, values, mask); |
---|
[397] | 1553 | |
---|
| 1554 | // Set output FreqIDs |
---|
| 1555 | |
---|
[330] | 1556 | for (uInt i=0; i<nIF; i++) { |
---|
[397] | 1557 | uInt idx = ddIdx(iRow,i); // Index into SDDataDesc table |
---|
| 1558 | freqID(i) = ddFQTrans(idx); // FreqID in output FQ table |
---|
[330] | 1559 | } |
---|
| 1560 | sc.putFreqMap(freqID); |
---|
[267] | 1561 | // |
---|
| 1562 | pTabOut->putSDContainer(sc); |
---|
[294] | 1563 | } |
---|
[267] | 1564 | |
---|
[309] | 1565 | // Now we must set the base and extra frames to the |
---|
| 1566 | // input frame |
---|
| 1567 | |
---|
| 1568 | std::vector<string> info = pTabOut->getCoordInfo(); |
---|
| 1569 | info[1] = MFrequency::showType(freqSystem); // Conversion frame |
---|
| 1570 | info[3] = info[1]; // Base frame |
---|
| 1571 | pTabOut->setCoordInfo(info); |
---|
| 1572 | |
---|
[267] | 1573 | // Clean up PointerBlock |
---|
| 1574 | |
---|
[309] | 1575 | for (uInt i=0; i<a.nelements(); i++) delete a[i]; |
---|
[267] | 1576 | // |
---|
[309] | 1577 | return pTabOut; |
---|
[267] | 1578 | } |
---|
| 1579 | |
---|
| 1580 | |
---|
[185] | 1581 | void SDMath::fillSDC(SDContainer& sc, |
---|
| 1582 | const Array<Bool>& mask, |
---|
| 1583 | const Array<Float>& data, |
---|
| 1584 | const Array<Float>& tSys, |
---|
| 1585 | Int scanID, Double timeStamp, |
---|
| 1586 | Double interval, const String& sourceName, |
---|
[227] | 1587 | const Vector<uInt>& freqID) const |
---|
[167] | 1588 | { |
---|
[169] | 1589 | // Data and mask |
---|
[167] | 1590 | |
---|
[185] | 1591 | putDataInSDC(sc, data, mask); |
---|
[167] | 1592 | |
---|
[169] | 1593 | // TSys |
---|
| 1594 | |
---|
| 1595 | sc.putTsys(tSys); |
---|
| 1596 | |
---|
| 1597 | // Time things |
---|
| 1598 | |
---|
| 1599 | sc.timestamp = timeStamp; |
---|
| 1600 | sc.interval = interval; |
---|
| 1601 | sc.scanid = scanID; |
---|
[167] | 1602 | // |
---|
[169] | 1603 | sc.sourcename = sourceName; |
---|
| 1604 | sc.putFreqMap(freqID); |
---|
| 1605 | } |
---|
[167] | 1606 | |
---|
[185] | 1607 | void SDMath::normalize(MaskedArray<Float>& sum, |
---|
[169] | 1608 | const Array<Float>& sumSq, |
---|
| 1609 | const Array<Float>& nPts, |
---|
| 1610 | WeightType wtType, Int axis, |
---|
[227] | 1611 | Int nAxesSub) const |
---|
[169] | 1612 | { |
---|
| 1613 | IPosition pos2(nAxesSub,0); |
---|
| 1614 | // |
---|
| 1615 | if (wtType==NONE) { |
---|
[167] | 1616 | |
---|
[169] | 1617 | // We just average by the number of points accumulated. |
---|
| 1618 | // We need to make a MA out of nPts so that no divide by |
---|
| 1619 | // zeros occur |
---|
[167] | 1620 | |
---|
[169] | 1621 | MaskedArray<Float> t(nPts, (nPts>Float(0.0))); |
---|
| 1622 | sum /= t; |
---|
| 1623 | } else if (wtType==VAR) { |
---|
[167] | 1624 | |
---|
[169] | 1625 | // Normalize each spectrum by sum(1/var) where the variance |
---|
| 1626 | // is worked out for each spectrum |
---|
| 1627 | |
---|
| 1628 | Array<Float>& data = sum.getRWArray(); |
---|
| 1629 | VectorIterator<Float> itData(data, axis); |
---|
| 1630 | while (!itData.pastEnd()) { |
---|
| 1631 | pos2 = itData.pos().getFirst(nAxesSub); |
---|
| 1632 | itData.vector() /= sumSq(pos2); |
---|
| 1633 | itData.next(); |
---|
| 1634 | } |
---|
| 1635 | } else if (wtType==TSYS) { |
---|
| 1636 | } |
---|
| 1637 | } |
---|
| 1638 | |
---|
| 1639 | |
---|
[185] | 1640 | void SDMath::accumulate(Double& timeSum, Double& intSum, Int& nAccum, |
---|
| 1641 | MaskedArray<Float>& sum, Array<Float>& sumSq, |
---|
| 1642 | Array<Float>& nPts, Array<Float>& tSysSum, |
---|
| 1643 | const Array<Float>& tSys, const Array<Float>& nInc, |
---|
| 1644 | const Vector<Bool>& mask, Double time, Double interval, |
---|
| 1645 | const Block<CountedPtr<SDMemTable> >& in, |
---|
| 1646 | uInt iTab, uInt iRow, uInt axis, |
---|
| 1647 | uInt nAxesSub, Bool useMask, |
---|
[227] | 1648 | WeightType wtType) const |
---|
[169] | 1649 | { |
---|
| 1650 | |
---|
| 1651 | // Get data |
---|
| 1652 | |
---|
| 1653 | MaskedArray<Float> dataIn(in[iTab]->rowAsMaskedArray(iRow)); |
---|
| 1654 | Array<Float>& valuesIn = dataIn.getRWArray(); // writable reference |
---|
| 1655 | const Array<Bool>& maskIn = dataIn.getMask(); // RO reference |
---|
[167] | 1656 | // |
---|
[169] | 1657 | if (wtType==NONE) { |
---|
| 1658 | const MaskedArray<Float> n(nInc,dataIn.getMask()); |
---|
| 1659 | nPts += n; // Only accumulates where mask==T |
---|
| 1660 | } else if (wtType==VAR) { |
---|
[167] | 1661 | |
---|
[169] | 1662 | // We are going to average the data, weighted by the noise for each pol, beam and IF. |
---|
| 1663 | // So therefore we need to iterate through by spectrum (axis 3) |
---|
[167] | 1664 | |
---|
[169] | 1665 | VectorIterator<Float> itData(valuesIn, axis); |
---|
| 1666 | ReadOnlyVectorIterator<Bool> itMask(maskIn, axis); |
---|
| 1667 | Float fac = 1.0; |
---|
| 1668 | IPosition pos(nAxesSub,0); |
---|
| 1669 | // |
---|
| 1670 | while (!itData.pastEnd()) { |
---|
[167] | 1671 | |
---|
[169] | 1672 | // Make MaskedArray of Vector, optionally apply OTF mask, and find scaling factor |
---|
[167] | 1673 | |
---|
[169] | 1674 | if (useMask) { |
---|
| 1675 | MaskedArray<Float> tmp(itData.vector(),mask&&itMask.vector()); |
---|
| 1676 | fac = 1.0/variance(tmp); |
---|
| 1677 | } else { |
---|
| 1678 | MaskedArray<Float> tmp(itData.vector(),itMask.vector()); |
---|
| 1679 | fac = 1.0/variance(tmp); |
---|
| 1680 | } |
---|
| 1681 | |
---|
| 1682 | // Scale data |
---|
| 1683 | |
---|
| 1684 | itData.vector() *= fac; // Writes back into 'dataIn' |
---|
[167] | 1685 | // |
---|
[169] | 1686 | // Accumulate variance per if/pol/beam averaged over spectrum |
---|
| 1687 | // This method to get pos2 from itData.pos() is only valid |
---|
| 1688 | // because the spectral axis is the last one (so we can just |
---|
| 1689 | // copy the first nAXesSub positions out) |
---|
[167] | 1690 | |
---|
[169] | 1691 | pos = itData.pos().getFirst(nAxesSub); |
---|
| 1692 | sumSq(pos) += fac; |
---|
| 1693 | // |
---|
| 1694 | itData.next(); |
---|
| 1695 | itMask.next(); |
---|
| 1696 | } |
---|
| 1697 | } else if (wtType==TSYS) { |
---|
| 1698 | } |
---|
[167] | 1699 | |
---|
[169] | 1700 | // Accumulate sum of (possibly scaled) data |
---|
| 1701 | |
---|
| 1702 | sum += dataIn; |
---|
| 1703 | |
---|
| 1704 | // Accumulate Tsys, time, and interval |
---|
| 1705 | |
---|
| 1706 | tSysSum += tSys; |
---|
| 1707 | timeSum += time; |
---|
| 1708 | intSum += interval; |
---|
| 1709 | nAccum += 1; |
---|
| 1710 | } |
---|
| 1711 | |
---|
| 1712 | |
---|
[434] | 1713 | void SDMath::setCursorSlice (IPosition& start, IPosition& end, Bool doAll, const SDMemTable& in) const |
---|
[169] | 1714 | { |
---|
[434] | 1715 | const uInt nDim = asap::nAxes; |
---|
| 1716 | DebugAssert(nDim==4,AipsError); |
---|
[167] | 1717 | // |
---|
[169] | 1718 | start.resize(nDim); |
---|
[434] | 1719 | end.resize(nDim); |
---|
| 1720 | if (doAll) { |
---|
| 1721 | start = 0; |
---|
| 1722 | end(0) = in.nBeam()-1; |
---|
| 1723 | end(1) = in.nIF()-1; |
---|
| 1724 | end(2) = in.nPol()-1; |
---|
| 1725 | end(3) = in.nChan()-1; |
---|
| 1726 | } else { |
---|
| 1727 | start(0) = in.getBeam(); |
---|
| 1728 | end(0) = start(0); |
---|
[167] | 1729 | // |
---|
[434] | 1730 | start(1) = in.getIF(); |
---|
| 1731 | end(1) = start(1); |
---|
| 1732 | // |
---|
| 1733 | start(2) = in.getPol(); |
---|
| 1734 | end(2) = start(2); |
---|
| 1735 | // |
---|
| 1736 | start(3) = 0; |
---|
| 1737 | end(3) = in.nChan()-1; |
---|
| 1738 | } |
---|
[169] | 1739 | } |
---|
| 1740 | |
---|
| 1741 | |
---|
[227] | 1742 | void SDMath::convertWeightString(WeightType& wtType, const String& weightStr) const |
---|
[169] | 1743 | { |
---|
| 1744 | String tStr(weightStr); |
---|
| 1745 | tStr.upcase(); |
---|
| 1746 | if (tStr.contains(String("NONE"))) { |
---|
| 1747 | wtType = NONE; |
---|
| 1748 | } else if (tStr.contains(String("VAR"))) { |
---|
| 1749 | wtType = VAR; |
---|
| 1750 | } else if (tStr.contains(String("TSYS"))) { |
---|
| 1751 | wtType = TSYS; |
---|
[185] | 1752 | throw(AipsError("T_sys weighting not yet implemented")); |
---|
[169] | 1753 | } else { |
---|
[185] | 1754 | throw(AipsError("Unrecognized weighting type")); |
---|
[167] | 1755 | } |
---|
| 1756 | } |
---|
| 1757 | |
---|
[317] | 1758 | |
---|
| 1759 | void SDMath::convertInterpString(casa::InterpolateArray1D<Double,Float>::InterpolationMethod& type, |
---|
| 1760 | const casa::String& interp) const |
---|
[227] | 1761 | { |
---|
| 1762 | String tStr(interp); |
---|
| 1763 | tStr.upcase(); |
---|
| 1764 | if (tStr.contains(String("NEAR"))) { |
---|
[317] | 1765 | type = InterpolateArray1D<Double,Float>::nearestNeighbour; |
---|
[227] | 1766 | } else if (tStr.contains(String("LIN"))) { |
---|
[317] | 1767 | type = InterpolateArray1D<Double,Float>::linear; |
---|
[227] | 1768 | } else if (tStr.contains(String("CUB"))) { |
---|
[317] | 1769 | type = InterpolateArray1D<Double,Float>::cubic; |
---|
[227] | 1770 | } else if (tStr.contains(String("SPL"))) { |
---|
[317] | 1771 | type = InterpolateArray1D<Double,Float>::spline; |
---|
[227] | 1772 | } else { |
---|
| 1773 | throw(AipsError("Unrecognized interpolation type")); |
---|
| 1774 | } |
---|
| 1775 | } |
---|
| 1776 | |
---|
[185] | 1777 | void SDMath::putDataInSDC(SDContainer& sc, const Array<Float>& data, |
---|
[227] | 1778 | const Array<Bool>& mask) const |
---|
[169] | 1779 | { |
---|
| 1780 | sc.putSpectrum(data); |
---|
| 1781 | // |
---|
| 1782 | Array<uChar> outflags(data.shape()); |
---|
| 1783 | convertArray(outflags,!mask); |
---|
| 1784 | sc.putFlags(outflags); |
---|
| 1785 | } |
---|
[227] | 1786 | |
---|
| 1787 | Table SDMath::readAsciiFile (const String& fileName) const |
---|
| 1788 | { |
---|
[230] | 1789 | String formatString; |
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| 1790 | Table tbl = readAsciiTable (formatString, Table::Memory, fileName, "", "", False); |
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[227] | 1791 | return tbl; |
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| 1792 | } |
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[230] | 1793 | |
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| 1794 | |
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[234] | 1795 | |
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| 1796 | void SDMath::correctFromAsciiTable(SDMemTable* pTabOut, |
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| 1797 | const SDMemTable& in, const String& fileName, |
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| 1798 | const String& col0, const String& col1, |
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| 1799 | const String& methodStr, Bool doAll, |
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| 1800 | const Vector<Float>& xOut) const |
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[230] | 1801 | { |
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| 1802 | |
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| 1803 | // Read gain-elevation ascii file data into a Table. |
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| 1804 | |
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[234] | 1805 | Table geTable = readAsciiFile (fileName); |
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[230] | 1806 | // |
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[234] | 1807 | correctFromTable (pTabOut, in, geTable, col0, col1, methodStr, doAll, xOut); |
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[230] | 1808 | } |
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| 1809 | |
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[234] | 1810 | void SDMath::correctFromTable(SDMemTable* pTabOut, const SDMemTable& in, |
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| 1811 | const Table& tTable, const String& col0, |
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| 1812 | const String& col1, |
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| 1813 | const String& methodStr, Bool doAll, |
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| 1814 | const Vector<Float>& xOut) const |
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[230] | 1815 | { |
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| 1816 | |
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| 1817 | // Get data from Table |
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| 1818 | |
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| 1819 | ROScalarColumn<Float> geElCol(tTable, col0); |
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| 1820 | ROScalarColumn<Float> geFacCol(tTable, col1); |
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| 1821 | Vector<Float> xIn = geElCol.getColumn(); |
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| 1822 | Vector<Float> yIn = geFacCol.getColumn(); |
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| 1823 | Vector<Bool> maskIn(xIn.nelements(),True); |
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| 1824 | |
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| 1825 | // Interpolate (and extrapolate) with desired method |
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| 1826 | |
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[317] | 1827 | InterpolateArray1D<Double,Float>::InterpolationMethod method; |
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[230] | 1828 | convertInterpString(method, methodStr); |
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[317] | 1829 | Int intMethod(method); |
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[230] | 1830 | // |
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| 1831 | Vector<Float> yOut; |
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| 1832 | Vector<Bool> maskOut; |
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| 1833 | InterpolateArray1D<Float,Float>::interpolate(yOut, maskOut, xOut, |
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[317] | 1834 | xIn, yIn, maskIn, intMethod, |
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[230] | 1835 | True, True); |
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[234] | 1836 | // Apply |
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[230] | 1837 | |
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[234] | 1838 | correctFromVector (pTabOut, in, doAll, yOut); |
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| 1839 | } |
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| 1840 | |
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| 1841 | |
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| 1842 | void SDMath::correctFromVector (SDMemTable* pTabOut, const SDMemTable& in, |
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| 1843 | Bool doAll, const Vector<Float>& factor) const |
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| 1844 | { |
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[270] | 1845 | |
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[434] | 1846 | // Set up data slice |
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[230] | 1847 | |
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| 1848 | IPosition start, end; |
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[434] | 1849 | setCursorSlice (start, end, doAll, in); |
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[230] | 1850 | |
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[270] | 1851 | // Loop over rows and apply correction factor |
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[230] | 1852 | |
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| 1853 | const uInt axis = asap::ChanAxis; |
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| 1854 | for (uInt i=0; i < in.nRow(); ++i) { |
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| 1855 | |
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| 1856 | // Get data |
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| 1857 | |
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[434] | 1858 | MaskedArray<Float> dataIn(in.rowAsMaskedArray(i)); |
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| 1859 | MaskedArray<Float> dataIn2 = dataIn(start,end); // reference to dataIn |
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[230] | 1860 | |
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| 1861 | // Apply factor |
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| 1862 | |
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[434] | 1863 | dataIn2 *= factor[i]; |
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[230] | 1864 | |
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| 1865 | // Write out |
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| 1866 | |
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[434] | 1867 | SDContainer sc = in.getSDContainer(i); |
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| 1868 | putDataInSDC(sc, dataIn.getArray(), dataIn.getMask()); |
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[230] | 1869 | // |
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[434] | 1870 | pTabOut->putSDContainer(sc); |
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[230] | 1871 | } |
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| 1872 | } |
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| 1873 | |
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[234] | 1874 | |
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[262] | 1875 | |
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| 1876 | |
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[330] | 1877 | void SDMath::generateDataDescTable (Matrix<uInt>& ddIdx, |
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| 1878 | SDDataDesc& dDesc, |
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| 1879 | uInt nIF, |
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| 1880 | const SDMemTable& in, |
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| 1881 | const Table& tabIn, |
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| 1882 | const ROScalarColumn<String>& srcCol, |
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[397] | 1883 | const ROArrayColumn<uInt>& fqIDCol, |
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| 1884 | Bool perFreqID) const |
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[330] | 1885 | { |
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| 1886 | const uInt nRows = tabIn.nrow(); |
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| 1887 | ddIdx.resize(nRows,nIF); |
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[262] | 1888 | // |
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[330] | 1889 | String srcName; |
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| 1890 | Vector<uInt> freqIDs; |
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| 1891 | for (uInt iRow=0; iRow<nRows; iRow++) { |
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| 1892 | srcCol.get(iRow, srcName); |
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| 1893 | fqIDCol.get(iRow, freqIDs); |
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| 1894 | const MDirection& dir = in.getDirection(iRow); |
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| 1895 | // |
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[397] | 1896 | if (perFreqID) { |
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| 1897 | |
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| 1898 | // One entry per source/freqID pair |
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| 1899 | |
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| 1900 | for (uInt iIF=0; iIF<nIF; iIF++) { |
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| 1901 | ddIdx(iRow,iIF) = dDesc.addEntry(srcName, freqIDs[iIF], dir, 0); |
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| 1902 | } |
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| 1903 | } else { |
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| 1904 | |
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| 1905 | // One entry per source/IF pair. Hang onto the FreqID as well |
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| 1906 | |
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| 1907 | for (uInt iIF=0; iIF<nIF; iIF++) { |
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| 1908 | ddIdx(iRow,iIF) = dDesc.addEntry(srcName, iIF, dir, freqIDs[iIF]); |
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| 1909 | } |
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[262] | 1910 | } |
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| 1911 | } |
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| 1912 | } |
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[272] | 1913 | |
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[397] | 1914 | |
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| 1915 | |
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| 1916 | |
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| 1917 | |
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[272] | 1918 | MEpoch SDMath::epochFromString (const String& str, MEpoch::Types timeRef) const |
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| 1919 | { |
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| 1920 | Quantum<Double> qt; |
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| 1921 | if (MVTime::read(qt,str)) { |
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| 1922 | MVEpoch mv(qt); |
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| 1923 | MEpoch me(mv, timeRef); |
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| 1924 | return me; |
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| 1925 | } else { |
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| 1926 | throw(AipsError("Invalid format for Epoch string")); |
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| 1927 | } |
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| 1928 | } |
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| 1929 | |
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| 1930 | |
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| 1931 | String SDMath::formatEpoch(const MEpoch& epoch) const |
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| 1932 | { |
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| 1933 | MVTime mvt(epoch.getValue()); |
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| 1934 | return mvt.string(MVTime::YMD) + String(" (") + epoch.getRefString() + String(")"); |
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| 1935 | } |
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| 1936 | |
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[294] | 1937 | |
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[309] | 1938 | |
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| 1939 | void SDMath::generateFrequencyAligners (PtrBlock<FrequencyAligner<Float>* >& a, |
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[330] | 1940 | const SDDataDesc& dDesc, |
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| 1941 | const SDMemTable& in, uInt nChan, |
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| 1942 | MFrequency::Types system, |
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| 1943 | const MPosition& refPos, |
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[397] | 1944 | const MEpoch& refEpoch, |
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| 1945 | Bool perFreqID) const |
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[294] | 1946 | { |
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[330] | 1947 | for (uInt i=0; i<dDesc.length(); i++) { |
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[397] | 1948 | uInt ID = dDesc.ID(i); |
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| 1949 | uInt secID = dDesc.secID(i); |
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| 1950 | const MDirection& refDir = dDesc.secDir(i); |
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[330] | 1951 | // |
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[397] | 1952 | if (perFreqID) { |
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| 1953 | |
---|
| 1954 | // One aligner per source/FreqID pair. |
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| 1955 | |
---|
| 1956 | SpectralCoordinate sC = in.getSpectralCoordinate(ID); |
---|
| 1957 | a[i] = new FrequencyAligner<Float>(sC, nChan, refEpoch, refDir, refPos, system); |
---|
| 1958 | } else { |
---|
| 1959 | |
---|
| 1960 | // One aligner per source/IF pair. But we still need the FreqID to |
---|
| 1961 | // get the right SC. Hence the messing about with the secondary ID |
---|
| 1962 | |
---|
| 1963 | SpectralCoordinate sC = in.getSpectralCoordinate(secID); |
---|
| 1964 | a[i] = new FrequencyAligner<Float>(sC, nChan, refEpoch, refDir, refPos, system); |
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| 1965 | } |
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[294] | 1966 | } |
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| 1967 | } |
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