[824] | 1 | //
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| 2 | // C++ Interface: Scantable
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| 3 | //
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| 4 | // Description:
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| 5 | //
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| 6 | //
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| 7 | // Author: Malte Marquarding <asap@atnf.csiro.au>, (C) 2005
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| 8 | //
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| 9 | // Copyright: See COPYING file that comes with this distribution
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| 10 | //
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| 11 | //
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| 12 | #ifndef ASAPSCANTABLE_H
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| 13 | #define ASAPSCANTABLE_H
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[2] | 14 |
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| 15 | // STL
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[2186] | 16 | #include <fstream>
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| 17 | #include <iostream>
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| 18 | #include <sstream>
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[2] | 19 | #include <string>
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| 20 | #include <vector>
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| 21 | // AIPS++
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[455] | 22 | #include <casa/aips.h>
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[322] | 23 | #include <casa/Arrays/MaskedArray.h>
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[2186] | 24 | #include <casa/Arrays/Vector.h>
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[80] | 25 | #include <casa/BasicSL/String.h>
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[2186] | 26 | #include <casa/Containers/Record.h>
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| 27 | #include <casa/Exceptions/Error.h>
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| 28 | #include <casa/Quanta/Quantum.h>
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[824] | 29 | #include <casa/Utilities/CountedPtr.h>
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[2186] | 30 | #include <coordinates/Coordinates/SpectralCoordinate.h>
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[824] | 31 | #include <measures/TableMeasures/ScalarMeasColumn.h>
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[2186] | 32 | #include <scimath/Mathematics/FFTServer.h>
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| 33 | #include <tables/Tables/ArrayColumn.h>
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| 34 | #include <tables/Tables/ScalarColumn.h>
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| 35 | #include <tables/Tables/Table.h>
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[1819] | 36 |
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[2186] | 37 | #include "MathUtils.h"
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[2767] | 38 | #include "STBaselineEnum.h"
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[2186] | 39 | #include "STFit.h"
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| 40 | #include "STFitEntry.h"
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| 41 | #include "STFocus.h"
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| 42 | #include "STFrequencies.h"
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[901] | 43 | #include "STHeader.h"
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[2186] | 44 | #include "STHistory.h"
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[824] | 45 | #include "STMolecules.h"
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[2186] | 46 | #include "STPol.h"
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[824] | 47 | #include "STSelector.h"
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[2186] | 48 | #include "STTcal.h"
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| 49 | #include "STWeather.h"
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[2] | 50 |
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[824] | 51 | namespace asap {
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[2] | 52 |
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[2666] | 53 | class Fitter;
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[2773] | 54 | class STLineFinder;
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| 55 | class STBaselineTable;
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[2666] | 56 |
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[824] | 57 | /**
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| 58 | * This class contains and wraps a casa::Table, which is used to store
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| 59 | * all the information. This can be either a MemoryTable or a
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| 60 | * disk based Table.
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| 61 | * It provides access functions to the underlying table
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| 62 | * It contains n subtables:
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| 63 | * @li weather
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| 64 | * @li frequencies
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| 65 | * @li molecules
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| 66 | * @li tcal
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| 67 | * @li focus
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| 68 | * @li fits
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| 69 | *
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| 70 | * @brief The main ASAP data container
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| 71 | * @author Malte Marquarding
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| 72 | * @date
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| 73 | * @version
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| 74 | */
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[2658] | 75 | class Scantable
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[824] | 76 | {
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[902] | 77 |
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| 78 | friend class STMath;
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| 79 |
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[2] | 80 | public:
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[824] | 81 | /**
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| 82 | * Default constructor
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| 83 | */
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[1350] | 84 | explicit Scantable(casa::Table::TableType ttype = casa::Table::Memory);
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[19] | 85 |
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[824] | 86 | /**
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[2321] | 87 | * Create a Scantable object from an existing table on disk
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[824] | 88 | * @param[in] name the name of the existing Scantable
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| 89 | */
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[2321] | 90 | explicit Scantable(const std::string& name,
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| 91 | casa::Table::TableType ttype = casa::Table::Memory);
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[2] | 92 |
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[824] | 93 | /// @fixme this is only sensible for MemoryTables....
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| 94 | Scantable(const Scantable& other, bool clear=true);
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[161] | 95 |
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[824] | 96 | /**
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| 97 | * Destructor
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| 98 | */
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| 99 | virtual ~Scantable();
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[745] | 100 |
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[824] | 101 | /**
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| 102 | * get a const reference to the underlying casa::Table
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[1104] | 103 | * @return const \ref casa::Table reference
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[824] | 104 | */
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| 105 | const casa::Table& table() const;
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[19] | 106 |
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[824] | 107 | /**
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| 108 | * get a reference to the underlying casa::Table with the Selection
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| 109 | * object applied if set
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| 110 | * @return casa::Table reference
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| 111 | */
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| 112 | casa::Table& table();
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[21] | 113 |
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[845] | 114 |
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| 115 | /**
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| 116 | * Get a handle to the selection object
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| 117 | * @return constant STSelector reference
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| 118 | */
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| 119 | const STSelector& getSelection() const { return selector_; }
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| 120 |
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| 121 | /**
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| 122 | * Set the data to be a subset as defined by the STSelector
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| 123 | * @param selection a STSelector object
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| 124 | */
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[824] | 125 | void setSelection(const STSelector& selection);
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[845] | 126 |
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| 127 | /**
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| 128 | * unset the selection of the data
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| 129 | */
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[824] | 130 | void unsetSelection();
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| 131 | /**
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| 132 | * set the header
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[1295] | 133 | * @param[in] sth an STHeader object
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[824] | 134 | */
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[901] | 135 | void setHeader( const STHeader& sth );
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[386] | 136 |
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[824] | 137 | /**
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| 138 | * get the header information
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[901] | 139 | * @return an STHeader object
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[824] | 140 | */
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[901] | 141 | STHeader getHeader( ) const;
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[1068] | 142 |
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[824] | 143 | /**
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| 144 | * Checks if the "other" Scantable is conformant with this,
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| 145 | * i.e. if header values are the same.
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| 146 | * @param[in] other another Scantable
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| 147 | * @return true or false
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| 148 | */
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| 149 | bool conformant( const Scantable& other);
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[430] | 150 |
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[824] | 151 | /**
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[1068] | 152 | *
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| 153 | * @param stype The type of the source, 0 = on, 1 = off
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| 154 | */
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| 155 | void setSourceType(int stype);
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| 156 |
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[2818] | 157 | /**
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| 158 | *
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| 159 | * @param stype The name of the source
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| 160 | */
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| 161 | void setSourceName(const std::string& name);
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[1068] | 162 |
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[2818] | 163 |
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[1068] | 164 | /**
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[1104] | 165 | * The number of scans in the table
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[824] | 166 | * @return number of scans in the table
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| 167 | */
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[845] | 168 | int nscan() const;
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[490] | 169 |
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[915] | 170 | casa::MEpoch::Types getTimeReference() const;
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[21] | 171 |
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[1411] | 172 |
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| 173 | casa::MEpoch getEpoch(int whichrow) const;
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| 174 |
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[824] | 175 | /**
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| 176 | * Get global antenna position
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[845] | 177 | * @return casa::MPosition
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[824] | 178 | */
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| 179 | casa::MPosition getAntennaPosition() const;
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[490] | 180 |
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[1441] | 181 | /**
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| 182 | * the @ref casa::MDirection for a specific row
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| 183 | * @param[in] whichrow the row number
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| 184 | * return casa::MDirection
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| 185 | */
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[987] | 186 | casa::MDirection getDirection( int whichrow ) const;
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[1598] | 187 |
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[1441] | 188 | /**
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| 189 | * get the direction type as a string, e.g. "J2000"
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| 190 | * @param[in] whichrow the row number
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| 191 | * return the direction string
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| 192 | */
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[1068] | 193 | std::string getDirectionString( int whichrow ) const;
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| 194 |
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[1441] | 195 | /**
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| 196 | * set the direction type as a string, e.g. "J2000"
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| 197 | * @param[in] refstr the direction type
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| 198 | */
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[987] | 199 | void setDirectionRefString(const std::string& refstr="");
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[1441] | 200 |
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[1104] | 201 | /**
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| 202 | * get the direction reference string
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| 203 | * @return a string describing the direction reference
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| 204 | */
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[1598] | 205 | std::string getDirectionRefString() const;
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[987] | 206 |
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[824] | 207 | /**
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[845] | 208 | * Return the Flux unit of the data, e.g. "Jy" or "K"
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| 209 | * @return string
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[824] | 210 | */
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| 211 | std::string getFluxUnit() const;
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[472] | 212 |
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[824] | 213 | /**
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[845] | 214 | * Set the Flux unit of the data
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| 215 | * @param unit a string representing the unit, e.g "Jy" or "K"
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[824] | 216 | */
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| 217 | void setFluxUnit( const std::string& unit );
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[472] | 218 |
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[824] | 219 | /**
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[1189] | 220 | * Set the Stokes type of the data
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[1295] | 221 | * @param feedtype a string representing the type, e.g "circular" or "linear"
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[1189] | 222 | */
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| 223 | void setFeedType( const std::string& feedtype );
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| 224 |
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| 225 | /**
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[824] | 226 | *
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[845] | 227 | * @param instrument a string representing an insturment. see xxx
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[824] | 228 | */
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| 229 | void setInstrument( const std::string& instrument );
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[2] | 230 |
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[845] | 231 | /**
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| 232 | * (Re)calculate the azimuth and elevationnfor all rows
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| 233 | */
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[824] | 234 | void calculateAZEL();
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[745] | 235 |
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[824] | 236 | /**
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[845] | 237 | * "hard" flag the data, this flags everything selected in setSelection()
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[1104] | 238 | * param[in] msk a boolean mask of length nchan describing the points to
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| 239 | * to be flagged
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[824] | 240 | */
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[1430] | 241 | //void flag( const std::vector<bool>& msk = std::vector<bool>());
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[1994] | 242 | //void flag( const std::vector<bool>& msk = std::vector<bool>(), bool unflag=false);
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[455] | 243 |
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[1994] | 244 | void flag( int whichrow = -1, const std::vector<bool>& msk = std::vector<bool>(), bool unflag=false);
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| 245 |
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[852] | 246 | /**
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[1819] | 247 | * Flag the data in a row-based manner. (CAS-1433 Wataru Kawasaki)
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| 248 | * param[in] rows list of row numbers to be flagged
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| 249 | */
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| 250 | void flagRow( const std::vector<casa::uInt>& rows = std::vector<casa::uInt>(), bool unflag=false);
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| 251 |
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| 252 | /**
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| 253 | * Get flagRow info at the specified row. If true, the whole data
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| 254 | * at the row should be flagged.
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| 255 | */
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| 256 | bool getFlagRow(int whichrow) const
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| 257 | { return (flagrowCol_(whichrow) > 0); }
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| 258 |
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| 259 | /**
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| 260 | * Flag the data outside a specified range (in a channel-based manner).
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| 261 | * (CAS-1807 Wataru Kawasaki)
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| 262 | */
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| 263 | void clip(const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag);
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| 264 |
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| 265 | /**
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| 266 | * Return a list of booleans with the size of nchan for a specified row, to get info
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| 267 | * about which channel is clipped.
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| 268 | */
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| 269 | std::vector<bool> getClipMask(int whichrow, const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag);
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| 270 | void srchChannelsToClip(casa::uInt whichrow, const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag,
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| 271 | casa::Vector<casa::uChar> flgs);
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| 272 |
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| 273 | /**
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[852] | 274 | * Return a list of row numbers with respect to the original table.
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[902] | 275 | * @return a list of unsigned ints
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[852] | 276 | */
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| 277 | std::vector<unsigned int> rownumbers() const;
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[845] | 278 |
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[852] | 279 |
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[845] | 280 | /**
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| 281 | * Get the number of beams in the data or a specific scan
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| 282 | * @param scanno the scan number to get the number of beams for.
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| 283 | * If scanno<0 the number is retrieved from the header.
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| 284 | * @return an integer number
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| 285 | */
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[824] | 286 | int nbeam(int scanno=-1) const;
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[845] | 287 | /**
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| 288 | * Get the number of IFs in the data or a specific scan
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| 289 | * @param scanno the scan number to get the number of IFs for.
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| 290 | * If scanno<0 the number is retrieved from the header.
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| 291 | * @return an integer number
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| 292 | */
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[824] | 293 | int nif(int scanno=-1) const;
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[845] | 294 | /**
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| 295 | * Get the number of polarizations in the data or a specific scan
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| 296 | * @param scanno the scan number to get the number of polarizations for.
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| 297 | * If scanno<0 the number is retrieved from the header.
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| 298 | * @return an integer number
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| 299 | */
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[824] | 300 | int npol(int scanno=-1) const;
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[794] | 301 |
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[896] | 302 | std::string getPolType() const;
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| 303 |
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[845] | 304 |
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| 305 | /**
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| 306 | * Get the number of integartion cycles
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| 307 | * @param scanno the scan number to get the number of rows for.
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| 308 | * If scanno<0 the number is retrieved from the header.
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[1104] | 309 | * @return the number of rows (for the specified scanno)
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[845] | 310 | */
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[824] | 311 | int nrow(int scanno=-1) const;
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[794] | 312 |
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[1111] | 313 | int getBeam(int whichrow) const;
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[1694] | 314 | std::vector<uint> getBeamNos() const { return getNumbers(beamCol_); }
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[50] | 315 |
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[847] | 316 | int getIF(int whichrow) const;
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[1694] | 317 | std::vector<uint> getIFNos() const { return getNumbers(ifCol_); }
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[1111] | 318 |
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[847] | 319 | int getPol(int whichrow) const;
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[1694] | 320 | std::vector<uint> getPolNos() const { return getNumbers(polCol_); }
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[1111] | 321 |
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[1694] | 322 | std::vector<uint> getScanNos() const { return getNumbers(scanCol_); }
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[865] | 323 | int getScan(int whichrow) const { return scanCol_(whichrow); }
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[1111] | 324 |
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[2667] | 325 | std::vector<uint> getCycleNos() const { return getNumbers(cycleCol_); }
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| 326 | int getCycle(int whichrow) const { return cycleCol_(whichrow); }
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| 327 |
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[1819] | 328 | //TT addition
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| 329 | std::vector<uint> getMolNos() {return getNumbers(mmolidCol_); }
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| 330 |
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[1111] | 331 | /**
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| 332 | * Get the number of channels in the data or a specific IF. This currently
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| 333 | * varies only with IF number
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| 334 | * @param ifno the IF number to get the number of channels for.
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| 335 | * If ifno<0 the number is retrieved from the header.
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| 336 | * @return an integer number
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| 337 | */
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| 338 | int nchan(int ifno=-1) const;
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[923] | 339 | int getChannels(int whichrow) const;
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[206] | 340 |
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[1111] | 341 | int ncycle(int scanno=-1) const;
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| 342 |
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[2667] | 343 |
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[847] | 344 | double getInterval(int whichrow) const
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| 345 | { return integrCol_(whichrow); }
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[845] | 346 |
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[865] | 347 | float getTsys(int whichrow) const
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| 348 | { return casa::Vector<casa::Float>(tsysCol_(whichrow))(0); }
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[2161] | 349 | std::vector<float> getTsysSpectrum(int whichrow) const ;
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[2791] | 350 |
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| 351 | void setTsys(const std::vector<float>& newvals, int whichrow);
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| 352 |
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[847] | 353 | float getElevation(int whichrow) const
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| 354 | { return elCol_(whichrow); }
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| 355 | float getAzimuth(int whichrow) const
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| 356 | { return azCol_(whichrow); }
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[865] | 357 | float getParAngle(int whichrow) const
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[1819] | 358 | { return focus().getParAngle(mfocusidCol_(whichrow)); }
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| 359 | int getTcalId(int whichrow) const
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| 360 | { return mtcalidCol_(whichrow); }
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[386] | 361 |
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[865] | 362 | std::string getSourceName(int whichrow) const
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| 363 | { return srcnCol_(whichrow); }
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| 364 |
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[847] | 365 | std::vector<bool> getMask(int whichrow) const;
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[896] | 366 | std::vector<float> getSpectrum(int whichrow,
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[905] | 367 | const std::string& poltype = "" ) const;
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[847] | 368 |
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[884] | 369 | void setSpectrum(const std::vector<float>& spec, int whichrow);
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| 370 |
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[902] | 371 | std::string getPolarizationLabel(int index, const std::string& ptype) const
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| 372 | { return STPol::getPolLabel(index, ptype ); }
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[401] | 373 |
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[845] | 374 | /**
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| 375 | * Write the Scantable to disk
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| 376 | * @param filename the output file name
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| 377 | */
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[824] | 378 | void makePersistent(const std::string& filename);
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[745] | 379 |
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[2820] | 380 | std::vector<std::string> getHistory(int nrow=-1, int start=0) const
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| 381 | { return historyTable_.getHistory(nrow, start); }
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[483] | 382 |
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[2820] | 383 | uint historyLength()
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| 384 | { return historyTable_.nrow(); }
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| 385 |
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| 386 | void dropHistory() { historyTable_.drop(); }
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| 387 |
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[860] | 388 | void addHistory(const std::string& hist) { historyTable_.addEntry(hist); }
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[488] | 389 |
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[860] | 390 | void appendToHistoryTable(const STHistory& otherhist)
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| 391 | { historyTable_.append(otherhist); }
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| 392 |
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[2163] | 393 | std::string headerSummary();
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[2290] | 394 | void summary(const std::string& filename="");
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| 395 | std::string oldheaderSummary();
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[2286] | 396 | // std::string summary();
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[2290] | 397 | void oldsummary(const std::string& filename="");
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| 398 |
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[1947] | 399 | //std::string getTime(int whichrow=-1, bool showdate=true) const;
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[2818] | 400 | std::string getTime(int whichrow=-1, bool showdate=true,
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| 401 | casa::uInt prec=0) const;
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[1350] | 402 | double getIntTime(int whichrow) const { return integrCol_(whichrow); }
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[19] | 403 |
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[847] | 404 | // returns unit, conversion frame, doppler, base-frame
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[18] | 405 |
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[847] | 406 | /**
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| 407 | * Get the frequency set up
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| 408 | * This is forwarded to the STFrequencies subtable
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| 409 | * @return unit, frame, doppler
|
---|
| 410 | */
|
---|
| 411 | std::vector<std::string> getCoordInfo() const
|
---|
| 412 | { return freqTable_.getInfo(); };
|
---|
| 413 |
|
---|
| 414 | void setCoordInfo(std::vector<string> theinfo)
|
---|
| 415 | { return freqTable_.setInfo(theinfo); };
|
---|
| 416 |
|
---|
[865] | 417 |
|
---|
| 418 | std::vector<double> getAbcissa(int whichrow) const;
|
---|
| 419 |
|
---|
[1730] | 420 | std::vector<float> getWeather(int whichrow) const;
|
---|
| 421 |
|
---|
[847] | 422 | std::string getAbcissaLabel(int whichrow) const;
|
---|
| 423 | std::vector<double> getRestFrequencies() const
|
---|
| 424 | { return moleculeTable_.getRestFrequencies(); }
|
---|
[1819] | 425 | std::vector<double> getRestFrequency(int id) const
|
---|
| 426 | { return moleculeTable_.getRestFrequency(id); }
|
---|
[847] | 427 |
|
---|
[1819] | 428 | /**
|
---|
[1170] | 429 | void setRestFrequencies(double rf, const std::string& name = "",
|
---|
| 430 | const std::string& = "Hz");
|
---|
[1819] | 431 | **/
|
---|
| 432 | // Modified by Takeshi Nakazato 05/09/2008
|
---|
| 433 | /***
|
---|
| 434 | void setRestFrequencies(vector<double> rf, const vector<std::string>& name = "",
|
---|
| 435 | const std::string& = "Hz");
|
---|
| 436 | ***/
|
---|
| 437 | void setRestFrequencies(vector<double> rf,
|
---|
| 438 | const vector<std::string>& name = vector<std::string>(1,""),
|
---|
| 439 | const std::string& = "Hz");
|
---|
[847] | 440 |
|
---|
[1819] | 441 | //void setRestFrequencies(const std::string& name);
|
---|
| 442 | void setRestFrequencies(const vector<std::string>& name);
|
---|
| 443 |
|
---|
[1360] | 444 | void shift(int npix);
|
---|
| 445 |
|
---|
[1598] | 446 | casa::SpectralCoordinate getSpectralCoordinate(int whichrow) const;
|
---|
| 447 |
|
---|
[987] | 448 | void convertDirection(const std::string& newframe);
|
---|
| 449 |
|
---|
[824] | 450 | STFrequencies& frequencies() { return freqTable_; }
|
---|
[1375] | 451 | const STFrequencies& frequencies() const { return freqTable_; }
|
---|
[824] | 452 | STWeather& weather() { return weatherTable_; }
|
---|
[1375] | 453 | const STWeather& weather() const { return weatherTable_; }
|
---|
[824] | 454 | STFocus& focus() { return focusTable_; }
|
---|
[1375] | 455 | const STFocus& focus() const { return focusTable_; }
|
---|
[824] | 456 | STTcal& tcal() { return tcalTable_; }
|
---|
[1375] | 457 | const STTcal& tcal() const { return tcalTable_; }
|
---|
[824] | 458 | STMolecules& molecules() { return moleculeTable_; }
|
---|
[1375] | 459 | const STMolecules& molecules() const { return moleculeTable_; }
|
---|
[860] | 460 | STHistory& history() { return historyTable_; }
|
---|
[1375] | 461 | const STHistory& history() const { return historyTable_; }
|
---|
[972] | 462 | STFit& fit() { return fitTable_; }
|
---|
[1375] | 463 | const STFit& fit() const { return fitTable_; }
|
---|
[2] | 464 |
|
---|
[902] | 465 | std::vector<std::string> columnNames() const;
|
---|
[896] | 466 |
|
---|
[972] | 467 | void addFit(const STFitEntry& fit, int row);
|
---|
| 468 | STFitEntry getFit(int row) const
|
---|
| 469 | { STFitEntry fe; fitTable_.getEntry(fe, mfitidCol_(row)); return fe; }
|
---|
| 470 |
|
---|
[1391] | 471 | //Added by TT
|
---|
| 472 | /**
|
---|
| 473 | * Get the antenna name
|
---|
| 474 | * @return antenna name string
|
---|
| 475 | */
|
---|
[1819] | 476 | casa::String getAntennaName() const;
|
---|
[1391] | 477 |
|
---|
| 478 | /**
|
---|
| 479 | * For GBT MS data only. check a scan list
|
---|
| 480 | * against the information found in GBT_GO table for
|
---|
| 481 | * scan number orders to get correct pairs.
|
---|
| 482 | * @param[in] scan list
|
---|
| 483 | * @return status
|
---|
| 484 | */
|
---|
| 485 | int checkScanInfo(const std::vector<int>& scanlist) const;
|
---|
| 486 |
|
---|
| 487 | /**
|
---|
| 488 | * Get the direction as a vector, for a specific row
|
---|
| 489 | * @param[in] whichrow the row numbyyer
|
---|
| 490 | * @return the direction in a vector
|
---|
| 491 | */
|
---|
| 492 | std::vector<double> getDirectionVector(int whichrow) const;
|
---|
| 493 |
|
---|
[1586] | 494 | /**
|
---|
| 495 | * Set a flag indicating whether the data was parallactified
|
---|
| 496 | * @param[in] flag true or false
|
---|
| 497 | */
|
---|
[1598] | 498 | void parallactify(bool flag)
|
---|
[2357] | 499 | { focusTable_.setParallactify(flag); }
|
---|
[1727] | 500 |
|
---|
[1819] | 501 | /**
|
---|
| 502 | * Reshape spectrum
|
---|
| 503 | * @param[in] nmin, nmax minimum and maximum channel
|
---|
| 504 | * @param[in] irow row number
|
---|
| 505 | *
|
---|
| 506 | * 30/07/2008 Takeshi Nakazato
|
---|
| 507 | **/
|
---|
| 508 | void reshapeSpectrum( int nmin, int nmax ) throw( casa::AipsError );
|
---|
| 509 | void reshapeSpectrum( int nmin, int nmax, int irow ) ;
|
---|
| 510 |
|
---|
| 511 | /**
|
---|
| 512 | * Change channel number under fixed bandwidth
|
---|
| 513 | * @param[in] nchan, dnu new channel number and spectral resolution
|
---|
| 514 | * @param[in] irow row number
|
---|
| 515 | *
|
---|
| 516 | * 27/08/2008 Takeshi Nakazato
|
---|
| 517 | **/
|
---|
| 518 | void regridChannel( int nchan, double dnu ) ;
|
---|
| 519 | void regridChannel( int nchan, double dnu, int irow ) ;
|
---|
[2595] | 520 | void regridChannel( int nchan, double dnu, double fmin, int irow ) ;
|
---|
[2435] | 521 | void regridSpecChannel( double dnu, int nchan=-1 ) ;
|
---|
| 522 |
|
---|
[2831] | 523 | bool isAllChannelsFlagged(casa::uInt whichrow);
|
---|
[1819] | 524 |
|
---|
[2811] | 525 | std::vector<std::string> applyBaselineTable(const std::string& bltable,
|
---|
| 526 | const bool returnfitresult,
|
---|
| 527 | const std::string& outbltable,
|
---|
| 528 | const bool outbltableexists,
|
---|
| 529 | const bool overwrite);
|
---|
| 530 | std::vector<std::string> subBaseline(const std::vector<std::string>& blInfoList,
|
---|
| 531 | const bool returnfitresult,
|
---|
| 532 | const std::string& outbltable,
|
---|
| 533 | const bool outbltableexists,
|
---|
| 534 | const bool overwrite);
|
---|
[2767] | 535 | void polyBaseline(const std::vector<bool>& mask,
|
---|
| 536 | int order,
|
---|
| 537 | float thresClip,
|
---|
| 538 | int nIterClip,
|
---|
[2094] | 539 | bool getResidual=true,
|
---|
[2189] | 540 | const std::string& progressInfo="true,1000",
|
---|
[2767] | 541 | const bool outLogger=false,
|
---|
| 542 | const std::string& blfile="",
|
---|
| 543 | const std::string& bltable="");
|
---|
[2012] | 544 | void autoPolyBaseline(const std::vector<bool>& mask,
|
---|
[2767] | 545 | int order,
|
---|
| 546 | float thresClip,
|
---|
| 547 | int nIterClip,
|
---|
| 548 | const std::vector<int>& edge,
|
---|
| 549 | float threshold=3.0,
|
---|
| 550 | int chanAvgLimit=1,
|
---|
| 551 | bool getResidual=true,
|
---|
| 552 | const std::string& progressInfo="true,1000",
|
---|
| 553 | const bool outLogger=false,
|
---|
| 554 | const std::string& blfile="",
|
---|
| 555 | const std::string& bltable="");
|
---|
[2645] | 556 | void chebyshevBaseline(const std::vector<bool>& mask,
|
---|
| 557 | int order,
|
---|
| 558 | float thresClip,
|
---|
| 559 | int nIterClip,
|
---|
| 560 | bool getResidual=true,
|
---|
| 561 | const std::string& progressInfo="true,1000",
|
---|
| 562 | const bool outLogger=false,
|
---|
[2767] | 563 | const std::string& blfile="",
|
---|
| 564 | const std::string& bltable="");
|
---|
[2645] | 565 | void autoChebyshevBaseline(const std::vector<bool>& mask,
|
---|
| 566 | int order,
|
---|
| 567 | float thresClip,
|
---|
| 568 | int nIterClip,
|
---|
| 569 | const std::vector<int>& edge,
|
---|
| 570 | float threshold=3.0,
|
---|
| 571 | int chanAvgLimit=1,
|
---|
| 572 | bool getResidual=true,
|
---|
| 573 | const std::string& progressInfo="true,1000",
|
---|
| 574 | const bool outLogger=false,
|
---|
[2767] | 575 | const std::string& blfile="",
|
---|
| 576 | const std::string& bltable="");
|
---|
[2012] | 577 | void cubicSplineBaseline(const std::vector<bool>& mask,
|
---|
| 578 | int nPiece,
|
---|
| 579 | float thresClip,
|
---|
| 580 | int nIterClip,
|
---|
[2094] | 581 | bool getResidual=true,
|
---|
[2189] | 582 | const std::string& progressInfo="true,1000",
|
---|
| 583 | const bool outLogger=false,
|
---|
[2767] | 584 | const std::string& blfile="",
|
---|
| 585 | const std::string& bltable="");
|
---|
[2012] | 586 | void autoCubicSplineBaseline(const std::vector<bool>& mask,
|
---|
| 587 | int nPiece,
|
---|
| 588 | float thresClip,
|
---|
| 589 | int nIterClip,
|
---|
| 590 | const std::vector<int>& edge,
|
---|
| 591 | float threshold=3.0,
|
---|
| 592 | int chanAvgLimit=1,
|
---|
[2094] | 593 | bool getResidual=true,
|
---|
[2189] | 594 | const std::string& progressInfo="true,1000",
|
---|
| 595 | const bool outLogger=false,
|
---|
[2767] | 596 | const std::string& blfile="",
|
---|
| 597 | const std::string& bltable="");
|
---|
[2047] | 598 | void sinusoidBaseline(const std::vector<bool>& mask,
|
---|
[2767] | 599 | const std::string& fftInfo,
|
---|
[2186] | 600 | const std::vector<int>& addNWaves,
|
---|
| 601 | const std::vector<int>& rejectNWaves,
|
---|
[2047] | 602 | float thresClip,
|
---|
| 603 | int nIterClip,
|
---|
[2081] | 604 | bool getResidual=true,
|
---|
[2189] | 605 | const std::string& progressInfo="true,1000",
|
---|
| 606 | const bool outLogger=false,
|
---|
[2767] | 607 | const std::string& blfile="",
|
---|
| 608 | const std::string& bltable="");
|
---|
[2047] | 609 | void autoSinusoidBaseline(const std::vector<bool>& mask,
|
---|
[2767] | 610 | const std::string& fftInfo,
|
---|
[2186] | 611 | const std::vector<int>& addNWaves,
|
---|
| 612 | const std::vector<int>& rejectNWaves,
|
---|
[2047] | 613 | float thresClip,
|
---|
| 614 | int nIterClip,
|
---|
| 615 | const std::vector<int>& edge,
|
---|
| 616 | float threshold=3.0,
|
---|
| 617 | int chanAvgLimit=1,
|
---|
[2081] | 618 | bool getResidual=true,
|
---|
[2189] | 619 | const std::string& progressInfo="true,1000",
|
---|
| 620 | const bool outLogger=false,
|
---|
[2767] | 621 | const std::string& blfile="",
|
---|
| 622 | const std::string& bltable="");
|
---|
[2186] | 623 | std::vector<float> execFFT(const int whichrow,
|
---|
| 624 | const std::vector<bool>& inMask,
|
---|
| 625 | bool getRealImag=false,
|
---|
| 626 | bool getAmplitudeOnly=false);
|
---|
[2012] | 627 | float getRms(const std::vector<bool>& mask, int whichrow);
|
---|
| 628 | std::string formatBaselineParams(const std::vector<float>& params,
|
---|
| 629 | const std::vector<bool>& fixed,
|
---|
| 630 | float rms,
|
---|
[2193] | 631 | int nClipped,
|
---|
[2012] | 632 | const std::string& masklist,
|
---|
| 633 | int whichrow,
|
---|
[2064] | 634 | bool verbose=false,
|
---|
[2641] | 635 | bool csvformat=false,
|
---|
[2064] | 636 | int start=-1,
|
---|
| 637 | int count=-1,
|
---|
| 638 | bool resetparamid=false) const;
|
---|
[2012] | 639 | std::string formatPiecewiseBaselineParams(const std::vector<int>& ranges,
|
---|
| 640 | const std::vector<float>& params,
|
---|
| 641 | const std::vector<bool>& fixed,
|
---|
| 642 | float rms,
|
---|
[2193] | 643 | int nClipped,
|
---|
[2012] | 644 | const std::string& masklist,
|
---|
| 645 | int whichrow,
|
---|
[2641] | 646 | bool verbose=false,
|
---|
| 647 | bool csvformat=false) const;
|
---|
[2591] | 648 | std::vector<uint> getMoleculeIdColumnData() const;
|
---|
| 649 | void setMoleculeIdColumnData(const std::vector<uint>& molids);
|
---|
[2888] | 650 |
|
---|
| 651 | /**
|
---|
| 652 | * Get row idx of root table
|
---|
| 653 | **/
|
---|
| 654 | std::vector<uint> getRootTableRowNumbers() const;
|
---|
| 655 |
|
---|
[2713] | 656 | double calculateModelSelectionCriteria(const std::string& valname,
|
---|
| 657 | const std::string& blfunc,
|
---|
| 658 | int order,
|
---|
| 659 | const std::vector<bool>& inMask,
|
---|
| 660 | int whichrow,
|
---|
| 661 | bool useLineFinder,
|
---|
| 662 | const std::vector<int>& edge,
|
---|
| 663 | float threshold,
|
---|
| 664 | int chanAvgLimit);
|
---|
[2767] | 665 | static std::vector<bool> getMaskFromMaskList(const int nchan,
|
---|
[2789] | 666 | const std::vector<int>& masklist);
|
---|
| 667 | static casa::Vector<casa::uInt> getMaskListFromMask(
|
---|
| 668 | const std::vector<bool>& mask);
|
---|
| 669 | static std::vector<int> splitToIntList(const std::string& str,
|
---|
| 670 | const char delim);
|
---|
| 671 | static std::vector<string> splitToStringList(const std::string& str,
|
---|
| 672 | const char delim);
|
---|
[1907] | 673 |
|
---|
[2789] | 674 | void dropXPol();
|
---|
[2012] | 675 |
|
---|
[824] | 676 | private:
|
---|
[896] | 677 |
|
---|
| 678 | casa::Matrix<casa::Float> getPolMatrix( casa::uInt whichrow ) const;
|
---|
| 679 |
|
---|
[824] | 680 | /**
|
---|
[2005] | 681 | * Turns a time value into a formatted string
|
---|
[824] | 682 | * @param x
|
---|
| 683 | * @return
|
---|
| 684 | */
|
---|
| 685 | std::string formatSec(casa::Double x) const;
|
---|
[18] | 686 |
|
---|
[824] | 687 | std::string formatTime(const casa::MEpoch& me, bool showdate)const;
|
---|
[2818] | 688 | std::string formatTime(const casa::MEpoch& me, bool showdate,
|
---|
| 689 | casa::uInt prec)const;
|
---|
[22] | 690 |
|
---|
[824] | 691 | /**
|
---|
| 692 | * Turns a casa::MDirection into a nicely formatted string
|
---|
| 693 | * @param md an casa::MDirection
|
---|
[2969] | 694 | * @param prec output precision of direction
|
---|
[824] | 695 | * @return
|
---|
| 696 | */
|
---|
[2969] | 697 | std::string formatDirection(const casa::MDirection& md, casa::Int prec=7) const;
|
---|
[19] | 698 |
|
---|
[824] | 699 | /**
|
---|
| 700 | * Create a unique file name for the paged (temporary) table
|
---|
| 701 | * @return just the name
|
---|
| 702 | */
|
---|
| 703 | static casa::String generateName();
|
---|
[286] | 704 |
|
---|
[824] | 705 | /**
|
---|
| 706 | * attach to cached columns
|
---|
| 707 | */
|
---|
| 708 | void attach();
|
---|
[50] | 709 |
|
---|
[824] | 710 | /**
|
---|
| 711 | * Set up the main casa::Table
|
---|
| 712 | */
|
---|
| 713 | void setupMainTable();
|
---|
[88] | 714 |
|
---|
[859] | 715 | void attachSubtables();
|
---|
[865] | 716 | void copySubtables(const Scantable& other);
|
---|
| 717 |
|
---|
[824] | 718 | /**
|
---|
| 719 | * Convert an "old" asap1 style row index into a new index
|
---|
| 720 | * @param[in] therow
|
---|
| 721 | * @return and index into @table_
|
---|
| 722 | */
|
---|
| 723 | int rowToScanIndex(int therow);
|
---|
[212] | 724 |
|
---|
[1694] | 725 | std::vector<uint> getNumbers(const casa::ScalarColumn<casa::uInt>& col) const;
|
---|
[1111] | 726 |
|
---|
[2321] | 727 | static const casa::uInt version_ = 4;
|
---|
[286] | 728 |
|
---|
[824] | 729 | STSelector selector_;
|
---|
[236] | 730 |
|
---|
[824] | 731 | casa::Table::TableType type_;
|
---|
[465] | 732 |
|
---|
[824] | 733 | // the actual data
|
---|
| 734 | casa::Table table_;
|
---|
| 735 | casa::Table originalTable_;
|
---|
[745] | 736 |
|
---|
[824] | 737 | STTcal tcalTable_;
|
---|
| 738 | STFrequencies freqTable_;
|
---|
| 739 | STWeather weatherTable_;
|
---|
| 740 | STFocus focusTable_;
|
---|
| 741 | STMolecules moleculeTable_;
|
---|
[860] | 742 | STHistory historyTable_;
|
---|
[960] | 743 | STFit fitTable_;
|
---|
[860] | 744 |
|
---|
[824] | 745 | // Cached Columns to avoid reconstructing them for each row get/put
|
---|
[847] | 746 | casa::ScalarColumn<casa::Double> integrCol_;
|
---|
[824] | 747 | casa::MDirection::ScalarColumn dirCol_;
|
---|
[847] | 748 | casa::MEpoch::ScalarColumn timeCol_;
|
---|
[923] | 749 | casa::ScalarColumn<casa::Float> azCol_;
|
---|
| 750 | casa::ScalarColumn<casa::Float> elCol_;
|
---|
[824] | 751 | casa::ScalarColumn<casa::String> srcnCol_, fldnCol_;
|
---|
[1819] | 752 | casa::ScalarColumn<casa::uInt> scanCol_, beamCol_, ifCol_, polCol_, cycleCol_, flagrowCol_;
|
---|
[1068] | 753 | casa::ScalarColumn<casa::Int> rbeamCol_, srctCol_;
|
---|
[865] | 754 | casa::ArrayColumn<casa::Float> specCol_, tsysCol_;
|
---|
[824] | 755 | casa::ArrayColumn<casa::uChar> flagsCol_;
|
---|
[430] | 756 |
|
---|
[824] | 757 | // id in frequencies table
|
---|
| 758 | casa::ScalarColumn<casa::uInt> mfreqidCol_;
|
---|
| 759 | // id in tcal table
|
---|
| 760 | casa::ScalarColumn<casa::uInt> mtcalidCol_;
|
---|
[430] | 761 |
|
---|
[824] | 762 | casa::ArrayColumn<casa::String> histitemCol_;
|
---|
[972] | 763 | casa::ScalarColumn<casa::Int> mfitidCol_;
|
---|
[824] | 764 | casa::ScalarColumn<casa::uInt> mweatheridCol_;
|
---|
[322] | 765 |
|
---|
[824] | 766 | casa::ScalarColumn<casa::uInt> mfocusidCol_;
|
---|
| 767 |
|
---|
| 768 | casa::ScalarColumn<casa::uInt> mmolidCol_;
|
---|
| 769 |
|
---|
[896] | 770 | static std::map<std::string, STPol::STPolFactory *> factories_;
|
---|
| 771 | void initFactories();
|
---|
| 772 |
|
---|
[1819] | 773 | /**
|
---|
| 774 | * Add an auxiliary column to the main table and attach it to a
|
---|
| 775 | * cached column. Use for adding new columns that the original asap2
|
---|
| 776 | * tables do not have.
|
---|
| 777 | * @param[in] col reference to the cached column to be attached
|
---|
| 778 | * @param[in] colName column name in asap table
|
---|
| 779 | * @param[in] defValue default value to fill in the column
|
---|
| 780 | *
|
---|
| 781 | * 25/10/2009 Wataru Kawasaki
|
---|
| 782 | */
|
---|
| 783 | template<class T, class T2> void attachAuxColumnDef(casa::ScalarColumn<T>&,
|
---|
| 784 | const casa::String&,
|
---|
| 785 | const T2&);
|
---|
| 786 | template<class T, class T2> void attachAuxColumnDef(casa::ArrayColumn<T>&,
|
---|
| 787 | const casa::String&,
|
---|
| 788 | const casa::Array<T2>&);
|
---|
[1907] | 789 |
|
---|
[2767] | 790 | double getNormalPolynomial(int n, double x);
|
---|
[2645] | 791 | double getChebyshevPolynomial(int n, double x);
|
---|
[2773] | 792 | std::vector<std::vector<double> > getPolynomialModel(int order,
|
---|
| 793 | int nchan,
|
---|
| 794 | double (Scantable::*pfunc)(int, double));
|
---|
| 795 | std::vector<std::vector<std::vector<double> > > getPolynomialModelReservoir(int order,
|
---|
| 796 | double (Scantable::*pfunc)(int, double),
|
---|
| 797 | std::vector<int>& nChanNos);
|
---|
[2767] | 798 | std::vector<float> doPolynomialFitting(const std::vector<float>& data,
|
---|
| 799 | const std::vector<bool>& mask,
|
---|
| 800 | int order,
|
---|
| 801 | std::vector<float>& params,
|
---|
| 802 | float& rms,
|
---|
| 803 | std::vector<bool>& finalMask,
|
---|
| 804 | float clipth,
|
---|
| 805 | int clipn);
|
---|
| 806 | std::vector<float> doPolynomialFitting(const std::vector<float>& data,
|
---|
| 807 | const std::vector<bool>& mask,
|
---|
| 808 | int order,
|
---|
| 809 | std::vector<float>& params,
|
---|
| 810 | float& rms,
|
---|
| 811 | std::vector<bool>& finalMask,
|
---|
| 812 | int& nClipped,
|
---|
| 813 | float thresClip=3.0,
|
---|
| 814 | int nIterClip=0,
|
---|
| 815 | bool getResidual=true);
|
---|
[2645] | 816 | std::vector<float> doChebyshevFitting(const std::vector<float>& data,
|
---|
[2767] | 817 | const std::vector<bool>& mask,
|
---|
| 818 | int order,
|
---|
| 819 | std::vector<float>& params,
|
---|
| 820 | float& rms,
|
---|
| 821 | std::vector<bool>& finalMask,
|
---|
| 822 | float clipth,
|
---|
| 823 | int clipn);
|
---|
| 824 | std::vector<float> doChebyshevFitting(const std::vector<float>& data,
|
---|
| 825 | const std::vector<bool>& mask,
|
---|
| 826 | int order,
|
---|
| 827 | std::vector<float>& params,
|
---|
| 828 | float& rms,
|
---|
| 829 | std::vector<bool>& finalMask,
|
---|
| 830 | int& nClipped,
|
---|
| 831 | float thresClip=3.0,
|
---|
| 832 | int nIterClip=0,
|
---|
| 833 | bool getResidual=true);
|
---|
| 834 | std::vector<float> doLeastSquareFitting(const std::vector<float>& data,
|
---|
| 835 | const std::vector<bool>& mask,
|
---|
[2773] | 836 | const std::vector<std::vector<double> >& model,
|
---|
[2767] | 837 | std::vector<float>& params,
|
---|
| 838 | float& rms,
|
---|
| 839 | std::vector<bool>& finalMask,
|
---|
| 840 | int& nClipped,
|
---|
| 841 | float thresClip=3.0,
|
---|
| 842 | int nIterClip=0,
|
---|
| 843 | bool getResidual=true);
|
---|
| 844 | std::vector<float> doCubicSplineFitting(const std::vector<float>& data,
|
---|
[2645] | 845 | const std::vector<bool>& mask,
|
---|
[2767] | 846 | std::vector<int>& idxEdge,
|
---|
[2645] | 847 | std::vector<float>& params,
|
---|
[2767] | 848 | float& rms,
|
---|
[2737] | 849 | std::vector<bool>& finalMask,
|
---|
[2767] | 850 | float clipth,
|
---|
| 851 | int clipn);
|
---|
| 852 | std::vector<float> doCubicSplineFitting(const std::vector<float>& data,
|
---|
| 853 | const std::vector<bool>& mask,
|
---|
| 854 | int nPiece,
|
---|
| 855 | std::vector<int>& idxEdge,
|
---|
| 856 | std::vector<float>& params,
|
---|
[2737] | 857 | float& rms,
|
---|
[2767] | 858 | std::vector<bool>& finalMask,
|
---|
| 859 | float clipth,
|
---|
| 860 | int clipn);
|
---|
[2012] | 861 | std::vector<float> doCubicSplineFitting(const std::vector<float>& data,
|
---|
| 862 | const std::vector<bool>& mask,
|
---|
[2081] | 863 | int nPiece,
|
---|
[2767] | 864 | bool useGivenPieceBoundary,
|
---|
[2064] | 865 | std::vector<int>& idxEdge,
|
---|
[2012] | 866 | std::vector<float>& params,
|
---|
[2767] | 867 | float& rms,
|
---|
| 868 | std::vector<bool>& finalMask,
|
---|
[2193] | 869 | int& nClipped,
|
---|
[2012] | 870 | float thresClip=3.0,
|
---|
[2767] | 871 | int nIterClip=0,
|
---|
[2094] | 872 | bool getResidual=true);
|
---|
[2773] | 873 | std::vector<float> doCubicSplineLeastSquareFitting(const std::vector<float>& data,
|
---|
| 874 | const std::vector<bool>& mask,
|
---|
| 875 | const std::vector<std::vector<double> >& model,
|
---|
| 876 | int nPiece,
|
---|
| 877 | bool useGivenPieceBoundary,
|
---|
| 878 | std::vector<int>& idxEdge,
|
---|
| 879 | std::vector<float>& params,
|
---|
| 880 | float& rms,
|
---|
| 881 | std::vector<bool>& finalMask,
|
---|
| 882 | int& nClipped,
|
---|
| 883 | float thresClip=3.0,
|
---|
| 884 | int nIterClip=0,
|
---|
| 885 | bool getResidual=true);
|
---|
[2047] | 886 | std::vector<float> doSinusoidFitting(const std::vector<float>& data,
|
---|
| 887 | const std::vector<bool>& mask,
|
---|
[2081] | 888 | const std::vector<int>& waveNumbers,
|
---|
[2047] | 889 | std::vector<float>& params,
|
---|
[2767] | 890 | float& rms,
|
---|
| 891 | std::vector<bool>& finalMask,
|
---|
| 892 | float clipth,
|
---|
| 893 | int clipn);
|
---|
| 894 | std::vector<float> doSinusoidFitting(const std::vector<float>& data,
|
---|
| 895 | const std::vector<bool>& mask,
|
---|
| 896 | const std::vector<int>& waveNumbers,
|
---|
| 897 | std::vector<float>& params,
|
---|
| 898 | float& rms,
|
---|
| 899 | std::vector<bool>& finalMask,
|
---|
[2193] | 900 | int& nClipped,
|
---|
[2047] | 901 | float thresClip=3.0,
|
---|
[2767] | 902 | int nIterClip=0,
|
---|
[2094] | 903 | bool getResidual=true);
|
---|
[2773] | 904 | std::vector<std::vector<double> > getSinusoidModel(const std::vector<int>& waveNumbers, int nchan);
|
---|
| 905 | std::vector<std::vector<std::vector<double> > > getSinusoidModelReservoir(const std::vector<int>& waveNumbers,
|
---|
| 906 | std::vector<int>& nChanNos);
|
---|
| 907 | std::vector<int> selectWaveNumbers(const std::vector<int>& addNWaves,
|
---|
| 908 | const std::vector<int>& rejectNWaves);
|
---|
| 909 | std::vector<int> selectWaveNumbers(const int whichrow,
|
---|
| 910 | const std::vector<bool>& chanMask,
|
---|
| 911 | //const std::string& fftInfo,
|
---|
| 912 | const bool applyFFT,
|
---|
| 913 | const std::string& fftMethod,
|
---|
| 914 | const std::string& fftThresh,
|
---|
| 915 | const std::vector<int>& addNWaves,
|
---|
| 916 | const std::vector<int>& rejectNWaves);
|
---|
| 917 | int getIdxOfNchan(const int nChan, const std::vector<int>& nChanNos);
|
---|
[2767] | 918 | void parseFFTInfo(const std::string& fftInfo,
|
---|
| 919 | bool& applyFFT,
|
---|
| 920 | std::string& fftMethod,
|
---|
| 921 | std::string& fftThresh);
|
---|
[2773] | 922 | void parseFFTThresholdInfo(const std::string& fftThresh,
|
---|
| 923 | std::string& fftThAttr,
|
---|
| 924 | float& fftThSigma,
|
---|
| 925 | int& fftThTop);
|
---|
[2186] | 926 | void doSelectWaveNumbers(const int whichrow,
|
---|
| 927 | const std::vector<bool>& chanMask,
|
---|
| 928 | const std::string& fftMethod,
|
---|
| 929 | const float fftThSigma,
|
---|
| 930 | const int fftThTop,
|
---|
| 931 | const std::string& fftThAttr,
|
---|
| 932 | std::vector<int>& nWaves);
|
---|
[2411] | 933 | void addAuxWaveNumbers(const int whichrow,
|
---|
| 934 | const std::vector<int>& addNWaves,
|
---|
[2186] | 935 | const std::vector<int>& rejectNWaves,
|
---|
| 936 | std::vector<int>& nWaves);
|
---|
[2411] | 937 | void setWaveNumberListUptoNyquistFreq(const int whichrow,
|
---|
| 938 | std::vector<int>& nWaves);
|
---|
[2773] | 939 | void initialiseBaselining(const std::string& blfile,
|
---|
| 940 | std::ofstream& ofs,
|
---|
| 941 | const bool outLogger,
|
---|
| 942 | bool& outTextFile,
|
---|
| 943 | bool& csvFormat,
|
---|
| 944 | casa::String& coordInfo,
|
---|
| 945 | bool& hasSameNchan,
|
---|
| 946 | const std::string& progressInfo,
|
---|
| 947 | bool& showProgress,
|
---|
| 948 | int& minNRow,
|
---|
| 949 | casa::Vector<casa::Double>& timeSecCol);
|
---|
| 950 | void finaliseBaselining(const bool outBaselineTable,
|
---|
| 951 | STBaselineTable* pbt,
|
---|
| 952 | const string& bltable,
|
---|
| 953 | const bool outTextFile,
|
---|
| 954 | std::ofstream& ofs);
|
---|
| 955 | void initLineFinder(const std::vector<int>& edge,
|
---|
| 956 | const float threshold,
|
---|
| 957 | const int chanAvgLimit,
|
---|
| 958 | STLineFinder& lineFinder);
|
---|
[2012] | 959 | bool hasSameNchanOverIFs();
|
---|
| 960 | std::string getMaskRangeList(const std::vector<bool>& mask,
|
---|
| 961 | int whichrow,
|
---|
| 962 | const casa::String& coordInfo,
|
---|
[2047] | 963 | bool hasSameNchan,
|
---|
| 964 | bool verbose=false);
|
---|
| 965 | std::vector<int> getMaskEdgeIndices(const std::vector<bool>& mask);
|
---|
[2641] | 966 | std::string formatBaselineParamsHeader(int whichrow, const std::string& masklist, bool verbose, bool csvformat) const;
|
---|
| 967 | std::string formatBaselineParamsFooter(float rms, int nClipped, bool verbose, bool csvformat) const;
|
---|
[2012] | 968 | std::vector<bool> getCompositeChanMask(int whichrow, const std::vector<bool>& inMask);
|
---|
[2773] | 969 | std::vector<bool> getCompositeChanMask(int whichrow, const std::vector<bool>& inMask, const std::vector<int>& edge, std::vector<int>& currEdge, STLineFinder& lineFinder);
|
---|
[2641] | 970 | void outputFittingResult(bool outLogger, bool outTextFile, bool csvFormat, const std::vector<bool>& chanMask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, std::ofstream& ofs, const casa::String& funcName, const std::vector<int>& edge, const std::vector<float>& params, const int nClipped);
|
---|
| 971 | void outputFittingResult(bool outLogger, bool outTextFile, bool csvFormat, const std::vector<bool>& chanMask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, std::ofstream& ofs, const casa::String& funcName, const std::vector<float>& params, const int nClipped);
|
---|
[2189] | 972 | void parseProgressInfo(const std::string& progressInfo, bool& showProgress, int& minNRow);
|
---|
| 973 | void showProgressOnTerminal(const int nProcessed, const int nTotal, const bool showProgress=true, const int nTotalThreshold=1000);
|
---|
[1994] | 974 |
|
---|
| 975 | void applyChanFlag( casa::uInt whichrow, const std::vector<bool>& msk, casa::uChar flagval);
|
---|
| 976 |
|
---|
[2713] | 977 | double doCalculateModelSelectionCriteria(const std::string& valname,
|
---|
| 978 | const std::vector<float>& spec,
|
---|
| 979 | const std::vector<bool>& mask,
|
---|
| 980 | const std::string& blfunc,
|
---|
| 981 | int order);
|
---|
[2737] | 982 | double doGetRms(const std::vector<bool>& mask, const casa::Vector<casa::Float>& spec);
|
---|
[2767] | 983 | std::string packFittingResults(const int irow, const std::vector<float>& params, const float rms);
|
---|
| 984 | void parseBlInfo(const std::string& blInfo, int& whichrow, STBaselineFunc::FuncName& ftype, std::vector<int>& fpar, std::vector<bool>& mask, float& thresClip, int& nIterClip, bool& useLineFinder, float& thresLF, std::vector<int>& edgeLF, int& avgLF);
|
---|
| 985 | std::vector<float> doApplyBaselineTable(std::vector<float>& spec, std::vector<bool>& mask, const STBaselineFunc::FuncName ftype, std::vector<int>& fpar, std::vector<float>& params, float&rms);
|
---|
| 986 | std::vector<float> doSubtractBaseline(std::vector<float>& spec, std::vector<bool>& mask, const STBaselineFunc::FuncName ftype, std::vector<int>& fpar, std::vector<float>& params, float&rms, std::vector<bool>& finalmask, float clipth, int clipn, bool uself, int irow, float lfth, std::vector<int>& lfedge, int lfavg);
|
---|
[2713] | 987 |
|
---|
[2] | 988 | };
|
---|
[824] | 989 | } // namespace
|
---|
| 990 |
|
---|
[2] | 991 | #endif
|
---|