| 1 | //#---------------------------------------------------------------------------
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| 2 | //# SDFITSImageWriter.cc: ASAP class to write out single dish spectra as FITS images
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| 3 | //#---------------------------------------------------------------------------
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| 4 | //# Copyright (C) 2004
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| 5 | //# ATNF
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| 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: SDFITSImageWriter.cc 901 2006-03-10 02:29:22Z mar637 $
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| 30 | //#---------------------------------------------------------------------------
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| 31 |
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| 32 | #include "SDFITSImageWriter.h"
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| 33 |
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| 34 | #include <casa/aips.h>
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| 35 | #include <casa/Arrays/Array.h>
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| 36 | #include <casa/Arrays/Vector.h>
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| 37 | #include <casa/Arrays/VectorIter.h>
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| 38 | #include <casa/Utilities/CountedPtr.h>
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| 39 | #include <casa/OS/Directory.h>
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| 40 |
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| 41 | #include <coordinates/Coordinates/CoordinateUtil.h>
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| 42 | #include <coordinates/Coordinates/CoordinateSystem.h>
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| 43 | #include <coordinates/Coordinates/SpectralCoordinate.h>
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| 44 | #include <coordinates/Coordinates/DirectionCoordinate.h>
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| 45 | #include <coordinates/Coordinates/StokesCoordinate.h>
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| 46 | #include <coordinates/Coordinates/ObsInfo.h>
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| 47 |
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| 48 | #include <images/Images/ImageFITSConverter.h>
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| 49 | #include <images/Images/TempImage.h>
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| 50 |
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| 51 | #include <lattices/Lattices/ArrayLattice.h>
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| 52 |
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| 53 | #include <measures/Measures/MEpoch.h>
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| 54 | #include <measures/Measures/Stokes.h>
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| 55 |
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| 56 | #include <tables/Tables/Table.h>
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| 57 | #include <tables/Tables/ScalarColumn.h>
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| 58 | #include <tables/Tables/ArrayColumn.h>
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| 59 |
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| 60 | #include "STDefs.h"
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| 61 | #include "STHeader.h"
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| 62 | #include "SDMemTable.h"
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| 63 | #include "SDPol.h"
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| 64 |
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| 65 | using namespace casa;
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| 66 | using namespace asap;
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| 67 |
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| 68 |
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| 69 | SDFITSImageWriter::SDFITSImageWriter()
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| 70 | {;}
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| 71 |
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| 72 | SDFITSImageWriter::~SDFITSImageWriter()
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| 73 | {;}
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| 74 |
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| 75 |
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| 76 | Bool SDFITSImageWriter::write(const SDMemTable& sdTable,
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| 77 | const String& dirName, Bool toStokes,
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| 78 | Bool verbose)
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| 79 | {
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| 80 |
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| 81 | // Get global Header from Table
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| 82 |
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| 83 | STHeader header = sdTable.getSTHeader();
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| 84 | MEpoch::Ref timeRef(sdTable.getTimeReference());
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| 85 | MDirection::Types dirRef = sdTable.getDirectionReference();
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| 86 |
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| 87 | // Prepare initial ObsInfo
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| 88 |
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| 89 | ObsInfo oi;
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| 90 | oi.setTelescope(String(header.antennaname));
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| 91 | oi.setObserver(String(header.observer));
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| 92 |
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| 93 | // Column keywords
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| 94 |
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| 95 | Table tab = sdTable.table();
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| 96 | ROArrayColumn<Double> dirCol(tab, String("DIRECTION"));
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| 97 | ROScalarColumn<Double> timeCol(tab, "TIME");
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| 98 | ROArrayColumn<uInt> freqidCol(tab, "FREQID");
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| 99 | ROArrayColumn<uInt> restfreqidCol(tab, "RESTFREQID");
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| 100 | ROScalarColumn<String> srcCol(tab, "SRCNAME");
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| 101 |
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| 102 | // Output Image Shape; spectral axis to be updated
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| 103 |
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| 104 | IPosition shapeOut(4,1); // spectral, direction (2), stokes
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| 105 |
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| 106 | // Axes (should be in header)
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| 107 |
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| 108 | const uInt beamAxis = asap::BeamAxis;
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| 109 | const uInt ifAxis = asap::IFAxis;
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| 110 | const uInt stokesAxis = asap::PolAxis;
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| 111 | const uInt chanAxis = asap::ChanAxis;
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| 112 | const Unit RAD(String("rad"));
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| 113 |
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| 114 | // Output Directory
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| 115 |
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| 116 | String dirName2(dirName);
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| 117 | if (dirName.length()==0) {
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| 118 | dirName2 = String("asap_FITS");
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| 119 | }
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| 120 | Directory dir(dirName2);
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| 121 | dir.create(True);
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| 122 | ostringstream oss;
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| 123 | oss << "Created directory '" << dirName2 << "' for output files";
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| 124 |
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| 125 | // Temps
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| 126 |
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| 127 | Vector<Int> whichStokes(1,1);
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| 128 | Array<Double> whichDir;
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| 129 | Vector<Double> lonLat(2);
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| 130 | IPosition posDir(2,0);
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| 131 | Projection proj(Projection::SIN); // What should we use ?
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| 132 | Matrix<Double> xForm(2,2);
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| 133 | xForm = 0.0; xForm.diagonal() = 1.0;
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| 134 | Vector<Double> incLonLat(2,0.0);
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| 135 | Vector<Double> refPixLonLat(2,0.0);
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| 136 |
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| 137 | // Do we have linear or circular ? No way to know yet...
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| 138 |
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| 139 | Bool linear = True;
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| 140 |
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| 141 | // Loop over rows
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| 142 |
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| 143 | uInt maxMem = 128;
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| 144 | Bool preferVelocity = False;
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| 145 | Bool opticalVelocity = False;
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| 146 | Int bitPix = -32; // FLoating point
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| 147 | Float minPix = 1.0;
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| 148 | Float maxPix = -1.0;
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| 149 | Bool overWrite = True;
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| 150 | Bool degLast = False;
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| 151 | Bool reallyVerbose = False;
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| 152 | //
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| 153 | String errMsg;
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| 154 | const uInt nRows = sdTable.nRow();
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| 155 | for (uInt iRow=0; iRow<nRows; iRow++) {
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| 156 |
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| 157 | // Get data converted to Stokes
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| 158 |
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| 159 | const MaskedArray<Float>& dataIn(sdTable.rowAsMaskedArray(iRow,toStokes));
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| 160 | const Array<Float>& values = dataIn.getArray();
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| 161 | const Array<Bool>& mask = dataIn.getMask();
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| 162 | const IPosition& shapeIn = dataIn.shape();
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| 163 | shapeOut(0) = shapeIn(chanAxis);
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| 164 | TiledShape tShapeOut(shapeOut);
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| 165 |
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| 166 | // Update ObsInfo (time changes per integration)
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| 167 |
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| 168 | Double dTmp;
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| 169 | timeCol.get(iRow, dTmp);
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| 170 | MVEpoch tmp2(Quantum<Double>(dTmp, Unit(String("d"))));
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| 171 | MEpoch epoch(tmp2, timeRef);
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| 172 | oi.setObsDate(epoch);
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| 173 |
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| 174 | // Iterate through data in this row by spectra
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| 175 |
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| 176 | ReadOnlyVectorIterator<Float> itData(values, chanAxis);
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| 177 | ReadOnlyVectorIterator<Bool> itMask(mask, chanAxis);
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| 178 | while (!itData.pastEnd()) {
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| 179 | const IPosition& pos = itData.pos();
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| 180 |
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| 181 | // Form SpectralCoordinate
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| 182 |
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| 183 | Vector<uInt> iTmp;
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| 184 | freqidCol.get(iRow, iTmp);
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| 185 | uInt freqID = iTmp(pos(ifAxis));
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| 186 | //
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| 187 | restfreqidCol.get(iRow, iTmp);
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| 188 | uInt restFreqID = iTmp(pos(ifAxis));
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| 189 | //
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| 190 | SpectralCoordinate sC = sdTable.getSpectralCoordinate(freqID, restFreqID, iRow);
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| 191 |
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| 192 | // Form DirectionCoordinate
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| 193 |
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| 194 | dirCol.get(iRow, whichDir);
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| 195 | posDir(0) = pos(beamAxis);
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| 196 | posDir(1) = 0;
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| 197 | lonLat[0] = whichDir(posDir);
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| 198 | //
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| 199 | posDir(0) = pos(beamAxis);
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| 200 | posDir(1) = 1;
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| 201 | lonLat[1] = whichDir(posDir);
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| 202 | DirectionCoordinate dC(dirRef, proj, lonLat[0], lonLat[1],
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| 203 | incLonLat[0], incLonLat[1], xForm,
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| 204 | refPixLonLat[0], refPixLonLat[1]);
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| 205 |
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| 206 | // Form Stokes Coordinate (Stokes info still sketchy);
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| 207 |
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| 208 | Stokes::StokesTypes stokes = SDPolUtil::convertStokes(pos(stokesAxis), toStokes, linear);
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| 209 | String stokesName = Stokes::name(stokes);
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| 210 | whichStokes(0) = Int(stokes);
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| 211 | StokesCoordinate stC(whichStokes);
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| 212 |
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| 213 | // Create CoordinateSystem
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| 214 |
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| 215 | CoordinateSystem cSys;
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| 216 | cSys.addCoordinate(sC);
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| 217 | cSys.addCoordinate(dC);
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| 218 | cSys.addCoordinate(stC);
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| 219 | cSys.setObsInfo(oi);
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| 220 |
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| 221 | // Reform data into correct shape for output
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| 222 |
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| 223 | Array<Float> t1(itData.array().reform(shapeOut));
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| 224 | Array<Bool> m1(itMask.array().reform(shapeOut));
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| 225 |
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| 226 | // Create aips++ Image
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| 227 |
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| 228 | TempImage<Float> tIm(tShapeOut, cSys);
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| 229 | tIm.put(t1);
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| 230 | //
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| 231 | ArrayLattice<Bool> latMask(m1);
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| 232 | tIm.attachMask(latMask);
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| 233 |
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| 234 | // Write out as FITS Image file
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| 235 |
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| 236 | ostringstream oss2;
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| 237 | oss2 << "row" << iRow << "_beam" << pos(0) << "_if"
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| 238 | << pos(1) << "_" << stokesName << "_" << srcCol(iRow) << ".fits";
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| 239 | String tS(oss2);
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| 240 | String fileName = dirName2 + String("/") + tS;
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| 241 | if (verbose) oss << endl << "Writing row " << iRow
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| 242 | << " into file '" << tS << "'";
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| 243 | //
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| 244 | Bool ok = ImageFITSConverter::ImageToFITS(errMsg, tIm, fileName,
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| 245 | maxMem, preferVelocity,
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| 246 | opticalVelocity, bitPix,
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| 247 | minPix, maxPix, overWrite,
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| 248 | degLast, reallyVerbose);
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| 249 | if (!ok) {
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| 250 | oss << endl<< "Error writing fits - " << errMsg;
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| 251 | }
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| 252 |
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| 253 | // Next spectrum
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| 254 |
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| 255 | itData.next();
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| 256 | itMask.next();
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| 257 | }
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| 258 | }
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| 259 | //
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| 260 | if (!verbose) {
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| 261 | oss << endl<< "Wrote " << nRows << " into individual FITS files";
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| 262 | }
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| 263 | pushLog(String(oss));
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| 264 | return True;
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| 265 | }
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| 266 |
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