[1604] | 1 | //#--------------------------------------------------------------------------- |
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| 2 | //# STFITSImageWriter.cc: Class to write out single dish spectra as FITS images |
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| 3 | //#--------------------------------------------------------------------------- |
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| 4 | //# Copyright (C) 2008 |
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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: $ |
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| 30 | //#--------------------------------------------------------------------------- |
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| 31 | |
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| 32 | #include <fitsio.h> |
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| 33 | #include <images/Images/TempImage.h> |
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| 34 | |
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| 35 | #include <lattices/Lattices/ArrayLattice.h> |
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| 36 | |
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| 37 | #include <measures/Measures/MEpoch.h> |
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| 38 | #include <measures/Measures/Stokes.h> |
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| 39 | |
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| 40 | #include <tables/Tables/Table.h> |
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| 41 | #include <tables/Tables/TableIter.h> |
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| 42 | #include <tables/Tables/TableRecord.h> |
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| 43 | #include <casa/Containers/RecordField.h> |
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| 44 | #include <tables/Tables/TableRow.h> |
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| 45 | #include <tables/Tables/ScalarColumn.h> |
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| 46 | #include <tables/Tables/ArrayColumn.h> |
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| 47 | |
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| 48 | |
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| 49 | #include <coordinates/Coordinates/CoordinateUtil.h> |
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| 50 | #include <coordinates/Coordinates/CoordinateSystem.h> |
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| 51 | #include <coordinates/Coordinates/SpectralCoordinate.h> |
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| 52 | #include <coordinates/Coordinates/DirectionCoordinate.h> |
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| 53 | #include <coordinates/Coordinates/StokesCoordinate.h> |
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| 54 | #include <coordinates/Coordinates/ObsInfo.h> |
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| 55 | |
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| 56 | #include <images/Images/ImageFITSConverter.h> |
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| 57 | #include <images/Images/TempImage.h> |
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| 58 | |
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| 59 | #include <lattices/Lattices/ArrayLattice.h> |
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| 60 | |
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| 61 | |
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| 62 | //#include "STDefs.h" |
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| 63 | #include "STHeader.h" |
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| 64 | #include "Scantable.h" |
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| 65 | #include "STFITSImageWriter.h" |
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| 66 | |
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| 67 | using namespace casa; |
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| 68 | using namespace asap; |
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| 69 | |
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| 70 | |
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| 71 | STFITSImageWriter::STFITSImageWriter() : isClass_(False) |
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| 72 | {;} |
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| 73 | |
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| 74 | STFITSImageWriter::~STFITSImageWriter() |
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| 75 | {;} |
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| 76 | |
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| 77 | |
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| 78 | Bool STFITSImageWriter::write(const Scantable& stable, |
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| 79 | const String& fileName) |
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| 80 | { |
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| 81 | |
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| 82 | // Get global Header from Table |
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| 83 | |
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| 84 | STHeader hdr = stable.getHeader(); |
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| 85 | |
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| 86 | // Column keywords |
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| 87 | |
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| 88 | Table tab = stable.table(); |
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| 89 | |
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| 90 | // Temps |
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| 91 | |
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| 92 | const Unit RAD(String("rad")); |
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| 93 | |
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| 94 | // Open and write header file |
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| 95 | |
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| 96 | String rootName(fileName); |
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| 97 | if (rootName.length()==0) rootName = String("fits"); |
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| 98 | |
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| 99 | ObsInfo oi; |
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| 100 | oi.setTelescope(String(hdr.antennaname)); |
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| 101 | oi.setObserver(String(hdr.observer)); |
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| 102 | |
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| 103 | uInt maxMem = 128; |
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| 104 | Bool preferVelocity = False; |
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| 105 | Bool opticalVelocity = False; |
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| 106 | Int bitPix = -32; // FLoating point |
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| 107 | Float minPix = 1.0; |
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| 108 | Float maxPix = -1.0; |
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| 109 | Bool overWrite = True; |
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| 110 | Bool degLast = False; |
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| 111 | Bool reallyVerbose = False; |
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| 112 | String errMsg; |
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| 113 | |
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| 114 | |
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| 115 | Block<String> cols(5); |
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| 116 | cols[0] = String("SCANNO"); |
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| 117 | cols[1] = String("CYCLENO"); |
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| 118 | cols[2] = String("BEAMNO"); |
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| 119 | cols[3] = String("IFNO"); |
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| 120 | cols[4] = String("POLNO"); |
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| 121 | TableIterator iter(tab, cols); |
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| 122 | // Open data file |
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[1757] | 123 | |
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[1604] | 124 | while ( !iter.pastEnd() ) { |
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| 125 | Table t = iter.table(); |
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| 126 | ROTableRow row(t); |
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| 127 | const TableRecord& rec = row.get(0); |
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| 128 | String dirtype = stable.getDirectionRefString(); |
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| 129 | ostringstream onstr; |
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[1757] | 130 | if (rootName.length()==0) { |
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| 131 | rootName = "fits"; |
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| 132 | } |
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| 133 | if (tab.nrow() > 1) { |
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| 134 | if (stable.nscan() > 1) |
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| 135 | onstr << "_SCAN" << rec.asuInt("SCANNO"); |
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| 136 | if (stable.ncycle(rec.asuInt("SCANNO")) > 1) |
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| 137 | onstr << "_CYCLE" << rec.asuInt("CYCLENO"); |
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| 138 | if (stable.nbeam(rec.asuInt("SCANNO")) > 1) |
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| 139 | onstr << "_BEAM" << rec.asuInt("BEAMNO"); |
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| 140 | if (stable.nif(rec.asuInt("SCANNO")) > 1) |
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| 141 | onstr << "_IF" << rec.asuInt("IFNO"); |
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| 142 | if (stable.npol(rec.asuInt("SCANNO")) > 1) |
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| 143 | onstr << "_POL" << rec.asuInt("POLNO"); |
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| 144 | } |
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[1604] | 145 | String fileName = rootName + String(onstr) + String(".fits"); |
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| 146 | int row0 = t.rowNumbers(tab)[0]; |
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| 147 | |
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| 148 | const MPosition& mp = stable.getAntennaPosition(); |
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| 149 | const MDirection& md = stable.getDirection(row0); |
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| 150 | const MEpoch& me = stable.getEpoch(row0); |
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| 151 | oi.setObsDate(me); |
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| 152 | |
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| 153 | //const Double& rf = |
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| 154 | // stable.molecules().getRestFrequency(rec.asuInt("MOLECULE_ID") ); |
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| 155 | const std::vector<double>& rf = |
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| 156 | stable.molecules().getRestFrequency(rec.asuInt("MOLECULE_ID") ); |
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| 157 | SpectralCoordinate sC = |
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| 158 | stable.frequencies().getSpectralCoordinate(md, mp, me, rf, |
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| 159 | rec.asuInt("FREQ_ID")); |
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| 160 | |
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| 161 | Int polno = rec.asuInt("POLNO"); |
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| 162 | Stokes::StokesTypes stokes = |
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| 163 | Stokes::type(stable.getPolarizationLabel(polno, stable.getPolType())); |
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| 164 | Vector<Int> whichStokes(1); |
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| 165 | whichStokes(0) = Int(stokes); |
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| 166 | StokesCoordinate stC(whichStokes); |
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| 167 | |
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| 168 | |
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| 169 | CoordinateSystem cSys; |
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| 170 | Vector<Double> lonlat = md.getAngle().getValue(); |
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| 171 | DirectionCoordinate dC = |
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| 172 | getDirectionCoordinate(stable.getDirectionRefString(), |
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| 173 | lonlat[0], lonlat[1]); |
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| 174 | cSys.addCoordinate(sC); |
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| 175 | cSys.addCoordinate(dC); |
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| 176 | cSys.addCoordinate(stC); |
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| 177 | cSys.setObsInfo(oi); |
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| 178 | |
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| 179 | Vector<Float> spec = rec.asArrayFloat("SPECTRA"); |
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| 180 | Vector<uChar> flag = rec.asArrayuChar("FLAGTRA"); |
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| 181 | Vector<Bool> bflag(flag.shape()); |
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| 182 | convertArray(bflag, flag); |
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| 183 | |
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| 184 | // Create casacore Image |
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| 185 | IPosition shp(4, 1); |
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| 186 | shp(0)= spec.nelements(); |
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| 187 | TempImage<Float> tIm(shp, cSys); |
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| 188 | tIm.put(spec); |
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| 189 | ArrayLattice<Bool> latMask(shp); |
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| 190 | IPosition where(4,0); |
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| 191 | IPosition stride(4,1); |
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| 192 | latMask.putSlice(!bflag, where, stride); |
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| 193 | tIm.attachMask(latMask); |
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| 194 | if (isClass_) { |
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| 195 | preferVelocity = True; |
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| 196 | } |
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| 197 | Bool ok = ImageFITSConverter::ImageToFITS(errMsg, tIm, fileName, |
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| 198 | maxMem, preferVelocity, |
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| 199 | opticalVelocity, bitPix, |
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| 200 | minPix, maxPix, overWrite, |
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| 201 | degLast, reallyVerbose); |
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| 202 | if (!ok) { |
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| 203 | throw(AipsError(errMsg)); |
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| 204 | } |
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| 205 | |
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| 206 | int status = 0; |
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| 207 | fitsfile *fptr; |
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| 208 | if( fits_open_file(&fptr, fileName.c_str(), READWRITE, &status) ) |
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| 209 | throw AipsError("Coudn't open fits file for modification"); |
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| 210 | |
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| 211 | if (isClass_) { |
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| 212 | // Add CLASS specific information |
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| 213 | // Apply hacks to fits file so it can be read by class |
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| 214 | // modifications are |
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| 215 | // CTYPE1 : FREQ-XYZ -> FREQ |
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| 216 | // CRVAL1 : -> CRVAL1-RESTFREQ |
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| 217 | |
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| 218 | // Use preferVelocity which seems to work. |
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| 219 | // When no restfrequency is given this will set up the correct |
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| 220 | // frequency axis. Otherwise it uses a velocity axis |
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| 221 | char ctyp[84]; |
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| 222 | fits_read_key(fptr, TSTRING, "CTYPE1", ctyp, NULL, &status); |
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| 223 | if (String(ctyp).contains("FREQ", 0)) { |
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| 224 | float restf,refval; |
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| 225 | fits_read_key(fptr, TFLOAT, "CRVAL1", |
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| 226 | &refval, NULL, &status); |
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| 227 | restf = 0.0; |
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| 228 | if ( fits_update_key(fptr, TFLOAT, "CRVAL1", &restf, |
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| 229 | NULL, &status) ) { |
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| 230 | throw AipsError("Couldn't modify CRVAL1"); |
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| 231 | } |
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| 232 | if ( fits_update_key(fptr, TFLOAT, "RESTFREQ", &refval, |
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| 233 | NULL, &status) ) { |
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| 234 | throw AipsError("Couldn't modify RESTFREQ"); |
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| 235 | } |
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| 236 | } else { |
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| 237 | float refval = sC.referenceValue()[0]; |
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| 238 | if ( fits_update_key(fptr, TFLOAT, "RESTFREQ", &refval, |
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| 239 | NULL, &status) ) { |
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| 240 | throw AipsError("Couldn't modify RESTFREQ"); |
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| 241 | } |
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| 242 | |
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| 243 | } |
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| 244 | } |
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| 245 | |
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| 246 | Float tsys = stable.getTsys(row0); |
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| 247 | if ( fits_update_key(fptr, TFLOAT, "TSYS", &tsys, |
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| 248 | "System temperature", &status) ) { |
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| 249 | throw AipsError("Couldn't modify TSYS"); |
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| 250 | } |
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| 251 | Float otime = Float(stable.getIntTime(row0)); |
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| 252 | if ( fits_update_key(fptr, TFLOAT, "OBSTIME", &otime, |
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| 253 | "Integration time", &status) ) { |
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| 254 | throw AipsError("Couldn't modify OBSTIME"); |
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| 255 | } |
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| 256 | |
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| 257 | const char* oname = stable.getSourceName(row0).c_str(); |
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| 258 | if ( fits_update_key(fptr, TSTRING, "OBJECT", (char *)oname, |
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| 259 | NULL, &status) ) { |
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| 260 | throw AipsError("Couldn't modify OBJECT"); |
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| 261 | } |
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| 262 | Float elev = stable.getElevation(row0)/C::pi*180.0; |
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| 263 | if ( fits_update_key(fptr, TFLOAT, "ELEVATIO", &elev, |
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| 264 | "Telescope elevation (degrees)", &status) ) { |
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| 265 | throw AipsError("Couldn't modify ELEVATIO"); |
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| 266 | } |
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| 267 | Float azi = stable.getAzimuth(row0)/C::pi*180.0; |
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| 268 | if ( fits_update_key(fptr, TFLOAT, "AZIMUTH", &azi, |
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| 269 | "Telescope azimuth (degrees)", &status) ) { |
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| 270 | throw AipsError("Couldn't modify AZIMUTH"); |
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| 271 | } |
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| 272 | fits_close_file(fptr, &status); |
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[1757] | 273 | ostringstream oss; |
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| 274 | oss << "Wrote " << fileName; |
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| 275 | pushLog(String(oss)); |
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[1604] | 276 | //pushLog(String(oss)); |
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| 277 | ++iter; |
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| 278 | } |
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| 279 | return True; |
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| 280 | } |
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| 281 | |
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| 282 | DirectionCoordinate |
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| 283 | STFITSImageWriter::getDirectionCoordinate(const String& reff, |
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| 284 | Double lon, Double lat) |
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| 285 | { |
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| 286 | |
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| 287 | Projection proj(Projection::SIN); // What should we use ? |
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| 288 | Matrix<Double> xForm(2,2); |
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| 289 | xForm = 0.0; xForm.diagonal() = 1.0; |
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| 290 | Vector<Double> incLonLat(2,0.0); |
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| 291 | Vector<Double> refPixLonLat(2,0.0); |
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| 292 | MDirection::Types mdt; |
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| 293 | if (!MDirection::getType(mdt, reff)) { |
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| 294 | throw(AipsError("Illegal Direction frame.")); |
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| 295 | } |
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| 296 | return DirectionCoordinate(mdt, proj, lon, lat, |
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| 297 | incLonLat[0], incLonLat[1], xForm, |
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| 298 | refPixLonLat[0], refPixLonLat[1]); |
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| 299 | |
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| 300 | } |
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| 301 | |
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