| 1 | //#---------------------------------------------------------------------------
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| 2 | //# SDMemTable.h: A MemoryTable container for single dish integrations
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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:
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| 30 | //#---------------------------------------------------------------------------
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| 31 | #ifndef SDMEMTABLE_H
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| 32 | #define SDMEMTABLE_H
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| 33 |
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| 34 | // STL
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| 35 | #include <string>
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| 36 | #include <vector>
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| 37 | // AIPS++
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| 38 | #include <casa/aips.h>
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| 39 | #include <casa/Arrays/MaskedArray.h>
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| 40 | #include <casa/BasicSL/String.h>
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| 41 | #include <coordinates/Coordinates/SpectralCoordinate.h>
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| 42 | #include <tables/Tables/Table.h>
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| 43 | #include <tables/Tables/ArrayColumn.h>
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| 44 | #include <tables/Tables/ScalarColumn.h>
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| 45 |
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| 46 | #include "SDDefs.h"
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| 47 | #include "SDFitTable.h"
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| 48 |
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| 49 | namespace asap {
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| 50 |
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| 51 | class SDContainer;
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| 52 | class SDHeader;
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| 53 | class SDFrequencyTable;
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| 54 | class SDFitTable;
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| 55 |
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| 56 |
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| 57 |
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| 58 | class SDMemTable {
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| 59 | public:
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| 60 | // create a new (empty) SDMemTable
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| 61 | SDMemTable();
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| 62 | // create a SDMemTable from an (aips++) table on disk
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| 63 | SDMemTable(const std::string& name);
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| 64 |
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| 65 | // Copy Construct a SDMemTable, if clear==True only header and
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| 66 | // skeleton are copied, otherwise the whole table is copied.
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| 67 | SDMemTable(const SDMemTable& other, casa::Bool clear=casa::False);
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| 68 |
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| 69 | // Copy Construct (copy semantics) a SDMemTable, give a scanid constraint
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| 70 | // see also getScan()
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| 71 | SDMemTable(const casa::Table& tab, const std::string& expr);
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| 72 |
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| 73 | // Assignment operator (copy semantics)
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| 74 | SDMemTable &operator=(const SDMemTable& other);
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| 75 |
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| 76 | virtual ~SDMemTable();
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| 77 |
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| 78 | // put data from meta conatiner into the table
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| 79 | bool putSDContainer(const SDContainer& sdc);
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| 80 | bool putSDHeader(const SDHeader& sdh);
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| 81 | bool putSDFreqTable(const SDFrequencyTable& sdft);
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| 82 |
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| 83 | //get the data wrapped up in a meta container
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| 84 |
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| 85 | SDContainer getSDContainer(casa::uInt whichRow=0) const;
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| 86 | SDHeader getSDHeader() const;
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| 87 |
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| 88 | // Get SD Frequency table.
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| 89 | SDFrequencyTable getSDFreqTable() const;
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| 90 |
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| 91 | // get spectrum,mask and tsys for the given row, at the selected
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| 92 | // cursor - all as stl vectors
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| 93 | virtual std::vector<float> getSpectrum(casa::Int whichRow=0) const;
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| 94 | virtual std::vector<bool> getMask(casa::Int whichRow=0) const;
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| 95 |
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| 96 | // When we can handle input correlations being either circular or
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| 97 | // linear, we should probably have functions; getLinear,
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| 98 | // getCircular, getStokes since one can inter-convert between all
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| 99 | // three regardless of the input provided there are 4
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| 100 | // polarizations. For now, we are assuming, if there are 4
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| 101 | // polarizations, that we have linears. getSpectrum is then
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| 102 | // 'getLinear', getStokesSpectrum is 'getStokes' and
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| 103 | // getCircularSpectrum is 'getCircular'
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| 104 |
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| 105 | // Get specific Stokes at cursor location. One of either I,Q,U,V or I,P,PA,V (doPol=True)
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| 106 | // (determined by the polSel cursor location 0->3)
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| 107 | // If the latter, you can add a PA offset (degrees)
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| 108 | virtual std::vector<float> getStokesSpectrum(casa::Int whichRow=0,
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| 109 | casa::Bool doPol=casa::False,
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| 110 | casa::Float paOffset=0.0) const;
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| 111 |
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| 112 | // Get RR or LL at cursor location (except not polSel_)
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| 113 | virtual std::vector<float> getCircularSpectrum(casa::Int whichRow=0,
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| 114 | casa::Bool rr=casa::True) const;
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| 115 |
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| 116 | // Get all Stokes at the specified Beam/IF cursor location (ignoring
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| 117 | // the internal cursor). -1 means all on that axis. Really, this function
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| 118 | // should not be here, and the SDContainer should hold the stokes spectrum
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| 119 | // as well. However, because the Stokes column is virtual, and its shape
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| 120 | // is not the same as nPol(), I have put it here for direct access as needed
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| 121 | virtual casa::Array<casa::Float> getStokesSpectrum(casa::Int whichRow=0,
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| 122 | casa::Int iBeam=-1,
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| 123 | casa::Int iIF=-1) const;
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| 124 |
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| 125 | // Get Tsys at cursor location
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| 126 | virtual casa::Float getTsys(casa::Int whichRow=0) const;
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| 127 |
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| 128 | // get all as aips++ Vectors
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| 129 | virtual void getSpectrum(casa::Vector<casa::Float>& spectrum,
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| 130 | casa::Int whichRow=0) const;
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| 131 | //virtual void getMask(Vector<Bool>& mask,Int whichRow=0) const;
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| 132 |
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| 133 | // Get rest frequencies
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| 134 | std::vector<double> getRestFreqs() const;
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| 135 |
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| 136 | // get info for current row
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| 137 | // if whichRow == -1 the Header time is given
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| 138 | std::string getTime(casa::Int whichRow=0,
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| 139 | casa::Bool showDate=casa::False) const ;
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| 140 | casa::MEpoch getEpoch(casa::Int whichRow=0) const;
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| 141 | casa::MDirection getDirection(casa::Int whichRow=0,
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| 142 | casa::Bool refBeam=casa::False) const;
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| 143 |
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| 144 | std::string getSourceName(casa::Int whichRow=0) const;
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| 145 | double getInterval(casa::Int whichRow=0) const;
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| 146 |
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| 147 | virtual void setSpectrum(std::vector<float> spectrum, int whichRow=0);
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| 148 | virtual void setCoordInfo(std::vector<string> theinfo);
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| 149 |
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| 150 | // Set RestFreqID. source="" and IF=-1 means select all
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| 151 | virtual casa::Bool setRestFreqs(const casa::Vector<casa::Double>& restFreqs,
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| 152 | const casa::String& unit,
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| 153 | const std::vector<std::string>& lines,
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| 154 | const casa::String& source,
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| 155 | casa::Int whichIF=-1);
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| 156 |
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| 157 | // List lines
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| 158 | void spectralLines() const;
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| 159 |
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| 160 | // Get/Set flux unit
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| 161 | std::string getFluxUnit() const;
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| 162 | void setFluxUnit (const std::string& unit);
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| 163 |
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| 164 | // Set Instrument
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| 165 | void setInstrument (const std::string& instrument);
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| 166 |
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| 167 | // set the current value
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| 168 | virtual bool setIF(casa::Int whichIF=0);
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| 169 | virtual bool setBeam(casa::Int whichBeam=0);
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| 170 | virtual bool setPol(casa::Int whichPol=0);
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| 171 |
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| 172 | // REset cursor to 0
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| 173 | virtual void resetCursor();
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| 174 |
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| 175 | //sets the user mask applied to all spectra
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| 176 | virtual bool setMask(std::vector<int> whichChans);
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| 177 | // Hard flags the current spectrum, not reversible
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| 178 | virtual void flag(int whichRow);
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| 179 |
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| 180 | // return the currently selected values
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| 181 | virtual casa::Int getIF() const { return IFSel_; }
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| 182 | virtual casa::Int getBeam() const { return beamSel_; }
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| 183 | virtual casa::Int getPol() const { return polSel_; }
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| 184 |
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| 185 | // returns unit, conversion frame, doppler, base-frame
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| 186 | virtual std::vector<std::string> getCoordInfo() const;
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| 187 |
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| 188 | // number of scans in table
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| 189 | virtual casa::Int nScan() const;
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| 190 |
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| 191 | // get a summary of the table
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| 192 | virtual std::string summary(bool verbose=false) const;
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| 193 |
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| 194 | std::vector<std::string> history(int whichRow=0) const;
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| 195 | bool appendHistory(const std::string& hist, int whichRow=0);
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| 196 | // write to disk as aips++ table
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| 197 | void makePersistent(const std::string& filename);
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| 198 |
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| 199 | // get a new SDMemTable containing all rows with the same give SCANID
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| 200 | SDMemTable getScan(casa::Int scanID) const;
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| 201 | SDMemTable getSource(const std::string& source) const;
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| 202 |
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| 203 | const casa::TableRecord& getHeader() const {return table_.keywordSet();}
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| 204 | // get a handle to the "raw" aips++ table
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| 205 | const casa::Table& table() const { return table_; }
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| 206 |
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| 207 | // return the number of values
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| 208 | casa::Int nBeam() const;
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| 209 | casa::Int nIF() const;
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| 210 | casa::Int nPol() const;
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| 211 | casa::Int nChan() const;
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| 212 |
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| 213 | // return the number of rows (integrations) in the table
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| 214 | casa::Int nRow() const { return table_.nrow(); }
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| 215 |
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| 216 | // return a row as a Masked array, internally converting uChar flags
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| 217 | // to bool mask
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| 218 | casa::MaskedArray<casa::Float> rowAsMaskedArray(casa::uInt whichRow,
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| 219 | casa::Bool toStokes=casa::False) const;
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| 220 |
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| 221 | // Return SC, setting only the basic construction state (i.e.
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| 222 | // no conversion or velocity or rest frequency state).
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| 223 | // Specify the index of the FreqID you want
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| 224 | casa::SpectralCoordinate getSpectralCoordinate(casa::uInt whichIdx) const;
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| 225 |
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| 226 | // Return SC. Set velocity conversion state (unit,doppler), and
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| 227 | // rest frequency. If row number given (>=0), also set
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| 228 | // frame conversion layer (needs direction & time which require row)
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| 229 | casa::SpectralCoordinate getSpectralCoordinate(casa::uInt freqID,
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| 230 | casa::uInt restFreqID,
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| 231 | casa::uInt row) const;
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| 232 |
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| 233 | // Set just the reference value, pixel and increment into the table
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| 234 | // No other state is extracted.
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| 235 | casa::Bool setCoordinate(const casa::SpectralCoordinate& speccord,
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| 236 | casa::uInt whichIdx);
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| 237 |
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| 238 | casa::Int nCoordinates() const;
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| 239 |
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| 240 | std::vector<double> getAbcissa(int whichRow=0) const;
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| 241 | std::string getAbcissaString(casa::Int whichRow=0) const;
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| 242 |
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| 243 | // Get global reference types
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| 244 | casa::MDirection::Types getDirectionReference() const;
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| 245 | casa::MEpoch::Types getTimeReference() const;
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| 246 |
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| 247 | // Get global antenna position
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| 248 | casa::MPosition getAntennaPosition() const;
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| 249 |
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| 250 | // Helper function to check instrument (antenna) name and give enum
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| 251 | static Instrument convertInstrument(const casa::String& instrument,
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| 252 | casa::Bool throwIt);
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| 253 |
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| 254 | bool putSDFitTable(const SDFitTable& sdft);
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| 255 | SDFitTable getSDFitTable() const;
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| 256 | SDFitTable getSDFitTable(casa::uInt whichRow) const;
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| 257 |
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| 258 | void addFit(casa::uInt whichRow,
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| 259 | const casa::Vector<casa::Double>& p,
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| 260 | const casa::Vector<casa::Bool>& m,
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| 261 | const casa::Vector<casa::String>& f,
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| 262 | const casa::Vector<casa::Int>& c);
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| 263 |
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| 264 |
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| 265 | private:
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| 266 | // utility func for nice printout
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| 267 | casa::String formatSec(casa::Double x) const;
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| 268 | casa::String formatDirection(const casa::MDirection& md) const;
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| 269 | std::vector<float> getFloatSpectrum(const casa::Array<casa::Float>& arr) const;
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| 270 | void setup();
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| 271 | void attach();
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| 272 | void renumber();
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| 273 |
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| 274 | // Generate start and end for shape and current cursor selection
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| 275 | void setCursorSlice(casa::IPosition& start, casa::IPosition& end,
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| 276 | const casa::IPosition& shape) const;
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| 277 |
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| 278 | // the current cursor into the array
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| 279 | casa::Int IFSel_,beamSel_,polSel_;
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| 280 | std::vector<bool> chanMask_;
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| 281 | // the underlying memory table
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| 282 | casa::Table table_;
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| 283 |
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| 284 | // Cached Columns to avoid reconstructing them for each row get/put
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| 285 | casa::ScalarColumn<casa::Double> timeCol_, integrCol_;
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| 286 | casa::ScalarColumn<casa::Float> azCol_, elCol_, paraCol_;
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| 287 | casa::ScalarColumn<casa::String> srcnCol_, fldnCol_, tcaltCol_;
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| 288 | casa::ScalarColumn<casa::Int> scanCol_, rbeamCol_;
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| 289 | casa::ArrayColumn<casa::Float> specCol_, tsCol_, tcalCol_;
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| 290 | casa::ArrayColumn<casa::Double> dirCol_;
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| 291 | casa::ArrayColumn<casa::uChar> flagsCol_;
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| 292 | casa::ArrayColumn<casa::uInt> freqidCol_, restfreqidCol_;
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| 293 | casa::ArrayColumn<casa::String> histCol_;
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| 294 | casa::ArrayColumn<casa::Int> fitCol_;
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| 295 | casa::ROArrayColumn<casa::Float> stokesCol_;
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| 296 | };
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| 297 |
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| 298 | }// namespace
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| 299 | #endif
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