[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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[3043] | 21 | #include <map>
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[2] | 22 | // AIPS++
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[455] | 23 | #include <casa/aips.h>
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[322] | 24 | #include <casa/Arrays/MaskedArray.h>
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[2186] | 25 | #include <casa/Arrays/Vector.h>
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[80] | 26 | #include <casa/BasicSL/String.h>
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[2186] | 27 | #include <casa/Containers/Record.h>
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| 28 | #include <casa/Exceptions/Error.h>
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| 29 | #include <casa/Quanta/Quantum.h>
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[824] | 30 | #include <casa/Utilities/CountedPtr.h>
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[2186] | 31 | #include <coordinates/Coordinates/SpectralCoordinate.h>
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[824] | 32 | #include <measures/TableMeasures/ScalarMeasColumn.h>
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[2186] | 33 | #include <scimath/Mathematics/FFTServer.h>
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| 34 | #include <tables/Tables/ArrayColumn.h>
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| 35 | #include <tables/Tables/ScalarColumn.h>
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| 36 | #include <tables/Tables/Table.h>
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[1819] | 37 |
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[2186] | 38 | #include "MathUtils.h"
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[2767] | 39 | #include "STBaselineEnum.h"
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[2186] | 40 | #include "STFit.h"
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| 41 | #include "STFitEntry.h"
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| 42 | #include "STFocus.h"
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| 43 | #include "STFrequencies.h"
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[901] | 44 | #include "STHeader.h"
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[2186] | 45 | #include "STHistory.h"
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[824] | 46 | #include "STMolecules.h"
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[2186] | 47 | #include "STPol.h"
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[824] | 48 | #include "STSelector.h"
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[2186] | 49 | #include "STTcal.h"
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| 50 | #include "STWeather.h"
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[2] | 51 |
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[824] | 52 | namespace asap {
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[2] | 53 |
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[2666] | 54 | class Fitter;
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[2773] | 55 | class STLineFinder;
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| 56 | class STBaselineTable;
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[2666] | 57 |
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[824] | 58 | /**
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| 59 | * This class contains and wraps a casa::Table, which is used to store
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| 60 | * all the information. This can be either a MemoryTable or a
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| 61 | * disk based Table.
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| 62 | * It provides access functions to the underlying table
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| 63 | * It contains n subtables:
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| 64 | * @li weather
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| 65 | * @li frequencies
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| 66 | * @li molecules
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| 67 | * @li tcal
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| 68 | * @li focus
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| 69 | * @li fits
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| 70 | *
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| 71 | * @brief The main ASAP data container
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| 72 | * @author Malte Marquarding
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| 73 | * @date
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| 74 | * @version
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| 75 | */
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[2658] | 76 | class Scantable
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[824] | 77 | {
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[902] | 78 |
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| 79 | friend class STMath;
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| 80 |
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[2] | 81 | public:
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[824] | 82 | /**
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| 83 | * Default constructor
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| 84 | */
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[1350] | 85 | explicit Scantable(casa::Table::TableType ttype = casa::Table::Memory);
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[19] | 86 |
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[824] | 87 | /**
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[2321] | 88 | * Create a Scantable object from an existing table on disk
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[824] | 89 | * @param[in] name the name of the existing Scantable
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| 90 | */
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[2321] | 91 | explicit Scantable(const std::string& name,
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| 92 | casa::Table::TableType ttype = casa::Table::Memory);
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[2] | 93 |
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[824] | 94 | /// @fixme this is only sensible for MemoryTables....
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| 95 | Scantable(const Scantable& other, bool clear=true);
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[161] | 96 |
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[824] | 97 | /**
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| 98 | * Destructor
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| 99 | */
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| 100 | virtual ~Scantable();
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[745] | 101 |
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[824] | 102 | /**
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| 103 | * get a const reference to the underlying casa::Table
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[1104] | 104 | * @return const \ref casa::Table reference
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[824] | 105 | */
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| 106 | const casa::Table& table() const;
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[19] | 107 |
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[824] | 108 | /**
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| 109 | * get a reference to the underlying casa::Table with the Selection
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| 110 | * object applied if set
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| 111 | * @return casa::Table reference
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| 112 | */
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| 113 | casa::Table& table();
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[21] | 114 |
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[845] | 115 |
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| 116 | /**
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| 117 | * Get a handle to the selection object
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| 118 | * @return constant STSelector reference
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| 119 | */
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| 120 | const STSelector& getSelection() const { return selector_; }
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| 121 |
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| 122 | /**
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| 123 | * Set the data to be a subset as defined by the STSelector
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| 124 | * @param selection a STSelector object
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| 125 | */
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[824] | 126 | void setSelection(const STSelector& selection);
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[845] | 127 |
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| 128 | /**
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| 129 | * unset the selection of the data
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| 130 | */
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[824] | 131 | void unsetSelection();
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| 132 | /**
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| 133 | * set the header
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[1295] | 134 | * @param[in] sth an STHeader object
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[824] | 135 | */
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[901] | 136 | void setHeader( const STHeader& sth );
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[386] | 137 |
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[824] | 138 | /**
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| 139 | * get the header information
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[901] | 140 | * @return an STHeader object
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[824] | 141 | */
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[901] | 142 | STHeader getHeader( ) const;
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[1068] | 143 |
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[824] | 144 | /**
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| 145 | * Checks if the "other" Scantable is conformant with this,
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| 146 | * i.e. if header values are the same.
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| 147 | * @param[in] other another Scantable
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| 148 | * @return true or false
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| 149 | */
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| 150 | bool conformant( const Scantable& other);
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[430] | 151 |
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[824] | 152 | /**
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[1068] | 153 | *
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| 154 | * @param stype The type of the source, 0 = on, 1 = off
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| 155 | */
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| 156 | void setSourceType(int stype);
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| 157 |
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[2818] | 158 | /**
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| 159 | *
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| 160 | * @param stype The name of the source
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| 161 | */
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| 162 | void setSourceName(const std::string& name);
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[1068] | 163 |
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[2818] | 164 |
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[1068] | 165 | /**
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[1104] | 166 | * The number of scans in the table
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[824] | 167 | * @return number of scans in the table
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| 168 | */
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[845] | 169 | int nscan() const;
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[490] | 170 |
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[915] | 171 | casa::MEpoch::Types getTimeReference() const;
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[21] | 172 |
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[1411] | 173 |
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| 174 | casa::MEpoch getEpoch(int whichrow) const;
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| 175 |
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[824] | 176 | /**
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| 177 | * Get global antenna position
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[845] | 178 | * @return casa::MPosition
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[824] | 179 | */
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| 180 | casa::MPosition getAntennaPosition() const;
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[490] | 181 |
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[1441] | 182 | /**
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| 183 | * the @ref casa::MDirection for a specific row
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| 184 | * @param[in] whichrow the row number
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| 185 | * return casa::MDirection
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| 186 | */
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[987] | 187 | casa::MDirection getDirection( int whichrow ) const;
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[1598] | 188 |
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[1441] | 189 | /**
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| 190 | * get the direction type as a string, e.g. "J2000"
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| 191 | * @param[in] whichrow the row number
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| 192 | * return the direction string
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| 193 | */
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[1068] | 194 | std::string getDirectionString( int whichrow ) const;
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| 195 |
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[1441] | 196 | /**
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| 197 | * set the direction type as a string, e.g. "J2000"
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| 198 | * @param[in] refstr the direction type
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| 199 | */
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[987] | 200 | void setDirectionRefString(const std::string& refstr="");
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[1441] | 201 |
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[1104] | 202 | /**
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| 203 | * get the direction reference string
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| 204 | * @return a string describing the direction reference
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| 205 | */
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[1598] | 206 | std::string getDirectionRefString() const;
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[987] | 207 |
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[824] | 208 | /**
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[845] | 209 | * Return the Flux unit of the data, e.g. "Jy" or "K"
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| 210 | * @return string
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[824] | 211 | */
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| 212 | std::string getFluxUnit() const;
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[472] | 213 |
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[824] | 214 | /**
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[845] | 215 | * Set the Flux unit of the data
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| 216 | * @param unit a string representing the unit, e.g "Jy" or "K"
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[824] | 217 | */
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| 218 | void setFluxUnit( const std::string& unit );
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[472] | 219 |
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[824] | 220 | /**
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[1189] | 221 | * Set the Stokes type of the data
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[1295] | 222 | * @param feedtype a string representing the type, e.g "circular" or "linear"
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[1189] | 223 | */
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| 224 | void setFeedType( const std::string& feedtype );
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| 225 |
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| 226 | /**
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[824] | 227 | *
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[845] | 228 | * @param instrument a string representing an insturment. see xxx
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[824] | 229 | */
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| 230 | void setInstrument( const std::string& instrument );
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[2] | 231 |
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[845] | 232 | /**
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| 233 | * (Re)calculate the azimuth and elevationnfor all rows
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| 234 | */
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[824] | 235 | void calculateAZEL();
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[745] | 236 |
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[824] | 237 | /**
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[845] | 238 | * "hard" flag the data, this flags everything selected in setSelection()
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[1104] | 239 | * param[in] msk a boolean mask of length nchan describing the points to
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| 240 | * to be flagged
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[824] | 241 | */
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[1430] | 242 | //void flag( const std::vector<bool>& msk = std::vector<bool>());
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[1994] | 243 | //void flag( const std::vector<bool>& msk = std::vector<bool>(), bool unflag=false);
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[455] | 244 |
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[1994] | 245 | void flag( int whichrow = -1, const std::vector<bool>& msk = std::vector<bool>(), bool unflag=false);
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| 246 |
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[852] | 247 | /**
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[1819] | 248 | * Flag the data in a row-based manner. (CAS-1433 Wataru Kawasaki)
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| 249 | * param[in] rows list of row numbers to be flagged
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| 250 | */
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| 251 | void flagRow( const std::vector<casa::uInt>& rows = std::vector<casa::uInt>(), bool unflag=false);
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| 252 |
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| 253 | /**
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| 254 | * Get flagRow info at the specified row. If true, the whole data
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| 255 | * at the row should be flagged.
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| 256 | */
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| 257 | bool getFlagRow(int whichrow) const
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| 258 | { return (flagrowCol_(whichrow) > 0); }
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| 259 |
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| 260 | /**
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| 261 | * Flag the data outside a specified range (in a channel-based manner).
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| 262 | * (CAS-1807 Wataru Kawasaki)
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| 263 | */
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| 264 | void clip(const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag);
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| 265 |
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| 266 | /**
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| 267 | * Return a list of booleans with the size of nchan for a specified row, to get info
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| 268 | * about which channel is clipped.
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| 269 | */
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| 270 | std::vector<bool> getClipMask(int whichrow, const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag);
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| 271 | void srchChannelsToClip(casa::uInt whichrow, const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag,
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| 272 | casa::Vector<casa::uChar> flgs);
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| 273 |
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| 274 | /**
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[852] | 275 | * Return a list of row numbers with respect to the original table.
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[902] | 276 | * @return a list of unsigned ints
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[852] | 277 | */
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| 278 | std::vector<unsigned int> rownumbers() const;
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[845] | 279 |
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[852] | 280 |
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[845] | 281 | /**
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| 282 | * Get the number of beams in the data or a specific scan
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| 283 | * @param scanno the scan number to get the number of beams for.
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| 284 | * If scanno<0 the number is retrieved from the header.
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| 285 | * @return an integer number
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| 286 | */
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[824] | 287 | int nbeam(int scanno=-1) const;
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[845] | 288 | /**
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| 289 | * Get the number of IFs in the data or a specific scan
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| 290 | * @param scanno the scan number to get the number of IFs for.
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| 291 | * If scanno<0 the number is retrieved from the header.
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| 292 | * @return an integer number
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| 293 | */
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[824] | 294 | int nif(int scanno=-1) const;
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[845] | 295 | /**
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| 296 | * Get the number of polarizations in the data or a specific scan
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| 297 | * @param scanno the scan number to get the number of polarizations for.
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| 298 | * If scanno<0 the number is retrieved from the header.
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| 299 | * @return an integer number
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| 300 | */
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[824] | 301 | int npol(int scanno=-1) const;
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[794] | 302 |
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[896] | 303 | std::string getPolType() const;
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| 304 |
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[845] | 305 |
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| 306 | /**
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| 307 | * Get the number of integartion cycles
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| 308 | * @param scanno the scan number to get the number of rows for.
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| 309 | * If scanno<0 the number is retrieved from the header.
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[1104] | 310 | * @return the number of rows (for the specified scanno)
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[845] | 311 | */
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[824] | 312 | int nrow(int scanno=-1) const;
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[794] | 313 |
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[1111] | 314 | int getBeam(int whichrow) const;
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[1694] | 315 | std::vector<uint> getBeamNos() const { return getNumbers(beamCol_); }
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[50] | 316 |
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[847] | 317 | int getIF(int whichrow) const;
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[1694] | 318 | std::vector<uint> getIFNos() const { return getNumbers(ifCol_); }
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[1111] | 319 |
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[847] | 320 | int getPol(int whichrow) const;
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[1694] | 321 | std::vector<uint> getPolNos() const { return getNumbers(polCol_); }
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[1111] | 322 |
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[1694] | 323 | std::vector<uint> getScanNos() const { return getNumbers(scanCol_); }
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[865] | 324 | int getScan(int whichrow) const { return scanCol_(whichrow); }
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[1111] | 325 |
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[2667] | 326 | std::vector<uint> getCycleNos() const { return getNumbers(cycleCol_); }
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| 327 | int getCycle(int whichrow) const { return cycleCol_(whichrow); }
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| 328 |
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[1819] | 329 | //TT addition
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| 330 | std::vector<uint> getMolNos() {return getNumbers(mmolidCol_); }
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| 331 |
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[1111] | 332 | /**
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| 333 | * Get the number of channels in the data or a specific IF. This currently
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| 334 | * varies only with IF number
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| 335 | * @param ifno the IF number to get the number of channels for.
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| 336 | * If ifno<0 the number is retrieved from the header.
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| 337 | * @return an integer number
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| 338 | */
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| 339 | int nchan(int ifno=-1) const;
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[923] | 340 | int getChannels(int whichrow) const;
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[206] | 341 |
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[1111] | 342 | int ncycle(int scanno=-1) const;
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| 343 |
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[2667] | 344 |
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[847] | 345 | double getInterval(int whichrow) const
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| 346 | { return integrCol_(whichrow); }
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[845] | 347 |
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[865] | 348 | float getTsys(int whichrow) const
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| 349 | { return casa::Vector<casa::Float>(tsysCol_(whichrow))(0); }
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[2161] | 350 | std::vector<float> getTsysSpectrum(int whichrow) const ;
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[2791] | 351 |
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| 352 | void setTsys(const std::vector<float>& newvals, int whichrow);
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| 353 |
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[847] | 354 | float getElevation(int whichrow) const
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| 355 | { return elCol_(whichrow); }
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| 356 | float getAzimuth(int whichrow) const
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| 357 | { return azCol_(whichrow); }
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[865] | 358 | float getParAngle(int whichrow) const
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[1819] | 359 | { return focus().getParAngle(mfocusidCol_(whichrow)); }
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| 360 | int getTcalId(int whichrow) const
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| 361 | { return mtcalidCol_(whichrow); }
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[386] | 362 |
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[865] | 363 | std::string getSourceName(int whichrow) const
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| 364 | { return srcnCol_(whichrow); }
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| 365 |
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[847] | 366 | std::vector<bool> getMask(int whichrow) const;
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[896] | 367 | std::vector<float> getSpectrum(int whichrow,
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[905] | 368 | const std::string& poltype = "" ) const;
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[847] | 369 |
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[884] | 370 | void setSpectrum(const std::vector<float>& spec, int whichrow);
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| 371 |
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[902] | 372 | std::string getPolarizationLabel(int index, const std::string& ptype) const
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| 373 | { return STPol::getPolLabel(index, ptype ); }
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[401] | 374 |
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[845] | 375 | /**
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| 376 | * Write the Scantable to disk
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| 377 | * @param filename the output file name
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| 378 | */
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[824] | 379 | void makePersistent(const std::string& filename);
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[745] | 380 |
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[2820] | 381 | std::vector<std::string> getHistory(int nrow=-1, int start=0) const
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| 382 | { return historyTable_.getHistory(nrow, start); }
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[483] | 383 |
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[2820] | 384 | uint historyLength()
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| 385 | { return historyTable_.nrow(); }
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| 386 |
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| 387 | void dropHistory() { historyTable_.drop(); }
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| 388 |
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[860] | 389 | void addHistory(const std::string& hist) { historyTable_.addEntry(hist); }
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[488] | 390 |
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[860] | 391 | void appendToHistoryTable(const STHistory& otherhist)
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| 392 | { historyTable_.append(otherhist); }
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| 393 |
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[2163] | 394 | std::string headerSummary();
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[2290] | 395 | void summary(const std::string& filename="");
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| 396 | std::string oldheaderSummary();
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[2286] | 397 | // std::string summary();
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[2290] | 398 | void oldsummary(const std::string& filename="");
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| 399 |
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[1947] | 400 | //std::string getTime(int whichrow=-1, bool showdate=true) const;
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[2818] | 401 | std::string getTime(int whichrow=-1, bool showdate=true,
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| 402 | casa::uInt prec=0) const;
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[1350] | 403 | double getIntTime(int whichrow) const { return integrCol_(whichrow); }
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[19] | 404 |
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[847] | 405 | // returns unit, conversion frame, doppler, base-frame
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[18] | 406 |
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[847] | 407 | /**
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| 408 | * Get the frequency set up
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| 409 | * This is forwarded to the STFrequencies subtable
|
---|
| 410 | * @return unit, frame, doppler
|
---|
| 411 | */
|
---|
| 412 | std::vector<std::string> getCoordInfo() const
|
---|
| 413 | { return freqTable_.getInfo(); };
|
---|
| 414 |
|
---|
| 415 | void setCoordInfo(std::vector<string> theinfo)
|
---|
| 416 | { return freqTable_.setInfo(theinfo); };
|
---|
| 417 |
|
---|
[865] | 418 |
|
---|
| 419 | std::vector<double> getAbcissa(int whichrow) const;
|
---|
| 420 |
|
---|
[1730] | 421 | std::vector<float> getWeather(int whichrow) const;
|
---|
| 422 |
|
---|
[847] | 423 | std::string getAbcissaLabel(int whichrow) const;
|
---|
| 424 | std::vector<double> getRestFrequencies() const
|
---|
| 425 | { return moleculeTable_.getRestFrequencies(); }
|
---|
[1819] | 426 | std::vector<double> getRestFrequency(int id) const
|
---|
| 427 | { return moleculeTable_.getRestFrequency(id); }
|
---|
[847] | 428 |
|
---|
[1819] | 429 | /**
|
---|
[1170] | 430 | void setRestFrequencies(double rf, const std::string& name = "",
|
---|
| 431 | const std::string& = "Hz");
|
---|
[1819] | 432 | **/
|
---|
| 433 | // Modified by Takeshi Nakazato 05/09/2008
|
---|
| 434 | /***
|
---|
| 435 | void setRestFrequencies(vector<double> rf, const vector<std::string>& name = "",
|
---|
| 436 | const std::string& = "Hz");
|
---|
| 437 | ***/
|
---|
| 438 | void setRestFrequencies(vector<double> rf,
|
---|
| 439 | const vector<std::string>& name = vector<std::string>(1,""),
|
---|
| 440 | const std::string& = "Hz");
|
---|
[847] | 441 |
|
---|
[1819] | 442 | //void setRestFrequencies(const std::string& name);
|
---|
| 443 | void setRestFrequencies(const vector<std::string>& name);
|
---|
| 444 |
|
---|
[1360] | 445 | void shift(int npix);
|
---|
| 446 |
|
---|
[1598] | 447 | casa::SpectralCoordinate getSpectralCoordinate(int whichrow) const;
|
---|
| 448 |
|
---|
[987] | 449 | void convertDirection(const std::string& newframe);
|
---|
| 450 |
|
---|
[824] | 451 | STFrequencies& frequencies() { return freqTable_; }
|
---|
[1375] | 452 | const STFrequencies& frequencies() const { return freqTable_; }
|
---|
[824] | 453 | STWeather& weather() { return weatherTable_; }
|
---|
[1375] | 454 | const STWeather& weather() const { return weatherTable_; }
|
---|
[824] | 455 | STFocus& focus() { return focusTable_; }
|
---|
[1375] | 456 | const STFocus& focus() const { return focusTable_; }
|
---|
[824] | 457 | STTcal& tcal() { return tcalTable_; }
|
---|
[1375] | 458 | const STTcal& tcal() const { return tcalTable_; }
|
---|
[824] | 459 | STMolecules& molecules() { return moleculeTable_; }
|
---|
[1375] | 460 | const STMolecules& molecules() const { return moleculeTable_; }
|
---|
[860] | 461 | STHistory& history() { return historyTable_; }
|
---|
[1375] | 462 | const STHistory& history() const { return historyTable_; }
|
---|
[972] | 463 | STFit& fit() { return fitTable_; }
|
---|
[1375] | 464 | const STFit& fit() const { return fitTable_; }
|
---|
[2] | 465 |
|
---|
[902] | 466 | std::vector<std::string> columnNames() const;
|
---|
[896] | 467 |
|
---|
[972] | 468 | void addFit(const STFitEntry& fit, int row);
|
---|
| 469 | STFitEntry getFit(int row) const
|
---|
| 470 | { STFitEntry fe; fitTable_.getEntry(fe, mfitidCol_(row)); return fe; }
|
---|
| 471 |
|
---|
[1391] | 472 | //Added by TT
|
---|
| 473 | /**
|
---|
| 474 | * Get the antenna name
|
---|
| 475 | * @return antenna name string
|
---|
| 476 | */
|
---|
[1819] | 477 | casa::String getAntennaName() const;
|
---|
[1391] | 478 |
|
---|
| 479 | /**
|
---|
| 480 | * For GBT MS data only. check a scan list
|
---|
| 481 | * against the information found in GBT_GO table for
|
---|
| 482 | * scan number orders to get correct pairs.
|
---|
| 483 | * @param[in] scan list
|
---|
| 484 | * @return status
|
---|
| 485 | */
|
---|
| 486 | int checkScanInfo(const std::vector<int>& scanlist) const;
|
---|
| 487 |
|
---|
| 488 | /**
|
---|
| 489 | * Get the direction as a vector, for a specific row
|
---|
| 490 | * @param[in] whichrow the row numbyyer
|
---|
| 491 | * @return the direction in a vector
|
---|
| 492 | */
|
---|
| 493 | std::vector<double> getDirectionVector(int whichrow) const;
|
---|
| 494 |
|
---|
[1586] | 495 | /**
|
---|
| 496 | * Set a flag indicating whether the data was parallactified
|
---|
| 497 | * @param[in] flag true or false
|
---|
| 498 | */
|
---|
[1598] | 499 | void parallactify(bool flag)
|
---|
[2357] | 500 | { focusTable_.setParallactify(flag); }
|
---|
[1727] | 501 |
|
---|
[1819] | 502 | /**
|
---|
| 503 | * Reshape spectrum
|
---|
| 504 | * @param[in] nmin, nmax minimum and maximum channel
|
---|
| 505 | * @param[in] irow row number
|
---|
| 506 | *
|
---|
| 507 | * 30/07/2008 Takeshi Nakazato
|
---|
| 508 | **/
|
---|
| 509 | void reshapeSpectrum( int nmin, int nmax ) throw( casa::AipsError );
|
---|
| 510 | void reshapeSpectrum( int nmin, int nmax, int irow ) ;
|
---|
| 511 |
|
---|
| 512 | /**
|
---|
| 513 | * Change channel number under fixed bandwidth
|
---|
| 514 | * @param[in] nchan, dnu new channel number and spectral resolution
|
---|
| 515 | * @param[in] irow row number
|
---|
| 516 | *
|
---|
| 517 | * 27/08/2008 Takeshi Nakazato
|
---|
| 518 | **/
|
---|
| 519 | void regridChannel( int nchan, double dnu ) ;
|
---|
| 520 | void regridChannel( int nchan, double dnu, int irow ) ;
|
---|
[2595] | 521 | void regridChannel( int nchan, double dnu, double fmin, int irow ) ;
|
---|
[2435] | 522 | void regridSpecChannel( double dnu, int nchan=-1 ) ;
|
---|
| 523 |
|
---|
[2831] | 524 | bool isAllChannelsFlagged(casa::uInt whichrow);
|
---|
[1819] | 525 |
|
---|
[2811] | 526 | std::vector<std::string> applyBaselineTable(const std::string& bltable,
|
---|
| 527 | const bool returnfitresult,
|
---|
| 528 | const std::string& outbltable,
|
---|
| 529 | const bool outbltableexists,
|
---|
| 530 | const bool overwrite);
|
---|
| 531 | std::vector<std::string> subBaseline(const std::vector<std::string>& blInfoList,
|
---|
| 532 | const bool returnfitresult,
|
---|
| 533 | const std::string& outbltable,
|
---|
| 534 | const bool outbltableexists,
|
---|
| 535 | const bool overwrite);
|
---|
[2767] | 536 | void polyBaseline(const std::vector<bool>& mask,
|
---|
| 537 | int order,
|
---|
| 538 | float thresClip,
|
---|
| 539 | int nIterClip,
|
---|
[2094] | 540 | bool getResidual=true,
|
---|
[2189] | 541 | const std::string& progressInfo="true,1000",
|
---|
[2767] | 542 | const bool outLogger=false,
|
---|
| 543 | const std::string& blfile="",
|
---|
| 544 | const std::string& bltable="");
|
---|
[2012] | 545 | void autoPolyBaseline(const std::vector<bool>& mask,
|
---|
[2767] | 546 | int order,
|
---|
| 547 | float thresClip,
|
---|
| 548 | int nIterClip,
|
---|
| 549 | const std::vector<int>& edge,
|
---|
| 550 | float threshold=3.0,
|
---|
| 551 | int chanAvgLimit=1,
|
---|
| 552 | bool getResidual=true,
|
---|
| 553 | const std::string& progressInfo="true,1000",
|
---|
| 554 | const bool outLogger=false,
|
---|
| 555 | const std::string& blfile="",
|
---|
| 556 | const std::string& bltable="");
|
---|
[2645] | 557 | void chebyshevBaseline(const std::vector<bool>& mask,
|
---|
| 558 | int order,
|
---|
| 559 | float thresClip,
|
---|
| 560 | int nIterClip,
|
---|
| 561 | bool getResidual=true,
|
---|
| 562 | const std::string& progressInfo="true,1000",
|
---|
| 563 | const bool outLogger=false,
|
---|
[2767] | 564 | const std::string& blfile="",
|
---|
| 565 | const std::string& bltable="");
|
---|
[2645] | 566 | void autoChebyshevBaseline(const std::vector<bool>& mask,
|
---|
| 567 | int order,
|
---|
| 568 | float thresClip,
|
---|
| 569 | int nIterClip,
|
---|
| 570 | const std::vector<int>& edge,
|
---|
| 571 | float threshold=3.0,
|
---|
| 572 | int chanAvgLimit=1,
|
---|
| 573 | bool getResidual=true,
|
---|
| 574 | const std::string& progressInfo="true,1000",
|
---|
| 575 | const bool outLogger=false,
|
---|
[2767] | 576 | const std::string& blfile="",
|
---|
| 577 | const std::string& bltable="");
|
---|
[2012] | 578 | void cubicSplineBaseline(const std::vector<bool>& mask,
|
---|
| 579 | int nPiece,
|
---|
| 580 | float thresClip,
|
---|
| 581 | int nIterClip,
|
---|
[2094] | 582 | bool getResidual=true,
|
---|
[2189] | 583 | const std::string& progressInfo="true,1000",
|
---|
| 584 | const bool outLogger=false,
|
---|
[2767] | 585 | const std::string& blfile="",
|
---|
| 586 | const std::string& bltable="");
|
---|
[2012] | 587 | void autoCubicSplineBaseline(const std::vector<bool>& mask,
|
---|
| 588 | int nPiece,
|
---|
| 589 | float thresClip,
|
---|
| 590 | int nIterClip,
|
---|
| 591 | const std::vector<int>& edge,
|
---|
| 592 | float threshold=3.0,
|
---|
| 593 | int chanAvgLimit=1,
|
---|
[2094] | 594 | bool getResidual=true,
|
---|
[2189] | 595 | const std::string& progressInfo="true,1000",
|
---|
| 596 | const bool outLogger=false,
|
---|
[2767] | 597 | const std::string& blfile="",
|
---|
| 598 | const std::string& bltable="");
|
---|
[2047] | 599 | void sinusoidBaseline(const std::vector<bool>& mask,
|
---|
[2767] | 600 | const std::string& fftInfo,
|
---|
[2186] | 601 | const std::vector<int>& addNWaves,
|
---|
| 602 | const std::vector<int>& rejectNWaves,
|
---|
[2047] | 603 | float thresClip,
|
---|
| 604 | int nIterClip,
|
---|
[2081] | 605 | bool getResidual=true,
|
---|
[2189] | 606 | const std::string& progressInfo="true,1000",
|
---|
| 607 | const bool outLogger=false,
|
---|
[2767] | 608 | const std::string& blfile="",
|
---|
| 609 | const std::string& bltable="");
|
---|
[2047] | 610 | void autoSinusoidBaseline(const std::vector<bool>& mask,
|
---|
[2767] | 611 | const std::string& fftInfo,
|
---|
[2186] | 612 | const std::vector<int>& addNWaves,
|
---|
| 613 | const std::vector<int>& rejectNWaves,
|
---|
[2047] | 614 | float thresClip,
|
---|
| 615 | int nIterClip,
|
---|
| 616 | const std::vector<int>& edge,
|
---|
| 617 | float threshold=3.0,
|
---|
| 618 | int chanAvgLimit=1,
|
---|
[2081] | 619 | bool getResidual=true,
|
---|
[2189] | 620 | const std::string& progressInfo="true,1000",
|
---|
| 621 | const bool outLogger=false,
|
---|
[2767] | 622 | const std::string& blfile="",
|
---|
| 623 | const std::string& bltable="");
|
---|
[2186] | 624 | std::vector<float> execFFT(const int whichrow,
|
---|
| 625 | const std::vector<bool>& inMask,
|
---|
| 626 | bool getRealImag=false,
|
---|
| 627 | bool getAmplitudeOnly=false);
|
---|
[2012] | 628 | float getRms(const std::vector<bool>& mask, int whichrow);
|
---|
| 629 | std::string formatBaselineParams(const std::vector<float>& params,
|
---|
| 630 | const std::vector<bool>& fixed,
|
---|
| 631 | float rms,
|
---|
[2193] | 632 | int nClipped,
|
---|
[2012] | 633 | const std::string& masklist,
|
---|
| 634 | int whichrow,
|
---|
[2064] | 635 | bool verbose=false,
|
---|
[2641] | 636 | bool csvformat=false,
|
---|
[2064] | 637 | int start=-1,
|
---|
| 638 | int count=-1,
|
---|
| 639 | bool resetparamid=false) const;
|
---|
[2012] | 640 | std::string formatPiecewiseBaselineParams(const std::vector<int>& ranges,
|
---|
| 641 | const std::vector<float>& params,
|
---|
| 642 | const std::vector<bool>& fixed,
|
---|
| 643 | float rms,
|
---|
[2193] | 644 | int nClipped,
|
---|
[2012] | 645 | const std::string& masklist,
|
---|
| 646 | int whichrow,
|
---|
[2641] | 647 | bool verbose=false,
|
---|
| 648 | bool csvformat=false) const;
|
---|
[2591] | 649 | std::vector<uint> getMoleculeIdColumnData() const;
|
---|
| 650 | void setMoleculeIdColumnData(const std::vector<uint>& molids);
|
---|
[2888] | 651 |
|
---|
| 652 | /**
|
---|
| 653 | * Get row idx of root table
|
---|
| 654 | **/
|
---|
| 655 | std::vector<uint> getRootTableRowNumbers() const;
|
---|
| 656 |
|
---|
[2713] | 657 | double calculateModelSelectionCriteria(const std::string& valname,
|
---|
| 658 | const std::string& blfunc,
|
---|
| 659 | int order,
|
---|
| 660 | const std::vector<bool>& inMask,
|
---|
| 661 | int whichrow,
|
---|
| 662 | bool useLineFinder,
|
---|
| 663 | const std::vector<int>& edge,
|
---|
| 664 | float threshold,
|
---|
| 665 | int chanAvgLimit);
|
---|
[2767] | 666 | static std::vector<bool> getMaskFromMaskList(const int nchan,
|
---|
[2789] | 667 | const std::vector<int>& masklist);
|
---|
| 668 | static casa::Vector<casa::uInt> getMaskListFromMask(
|
---|
| 669 | const std::vector<bool>& mask);
|
---|
| 670 | static std::vector<int> splitToIntList(const std::string& str,
|
---|
| 671 | const char delim);
|
---|
| 672 | static std::vector<string> splitToStringList(const std::string& str,
|
---|
| 673 | const char delim);
|
---|
[1907] | 674 |
|
---|
[2789] | 675 | void dropXPol();
|
---|
[2012] | 676 |
|
---|
[824] | 677 | private:
|
---|
[896] | 678 |
|
---|
| 679 | casa::Matrix<casa::Float> getPolMatrix( casa::uInt whichrow ) const;
|
---|
| 680 |
|
---|
[824] | 681 | /**
|
---|
[2005] | 682 | * Turns a time value into a formatted string
|
---|
[824] | 683 | * @param x
|
---|
| 684 | * @return
|
---|
| 685 | */
|
---|
| 686 | std::string formatSec(casa::Double x) const;
|
---|
[18] | 687 |
|
---|
[824] | 688 | std::string formatTime(const casa::MEpoch& me, bool showdate)const;
|
---|
[2818] | 689 | std::string formatTime(const casa::MEpoch& me, bool showdate,
|
---|
| 690 | casa::uInt prec)const;
|
---|
[22] | 691 |
|
---|
[824] | 692 | /**
|
---|
| 693 | * Turns a casa::MDirection into a nicely formatted string
|
---|
| 694 | * @param md an casa::MDirection
|
---|
[2969] | 695 | * @param prec output precision of direction
|
---|
[824] | 696 | * @return
|
---|
| 697 | */
|
---|
[2969] | 698 | std::string formatDirection(const casa::MDirection& md, casa::Int prec=7) const;
|
---|
[19] | 699 |
|
---|
[824] | 700 | /**
|
---|
| 701 | * Create a unique file name for the paged (temporary) table
|
---|
| 702 | * @return just the name
|
---|
| 703 | */
|
---|
| 704 | static casa::String generateName();
|
---|
[286] | 705 |
|
---|
[824] | 706 | /**
|
---|
| 707 | * attach to cached columns
|
---|
| 708 | */
|
---|
| 709 | void attach();
|
---|
[50] | 710 |
|
---|
[824] | 711 | /**
|
---|
| 712 | * Set up the main casa::Table
|
---|
| 713 | */
|
---|
| 714 | void setupMainTable();
|
---|
[88] | 715 |
|
---|
[859] | 716 | void attachSubtables();
|
---|
[865] | 717 | void copySubtables(const Scantable& other);
|
---|
| 718 |
|
---|
[824] | 719 | /**
|
---|
| 720 | * Convert an "old" asap1 style row index into a new index
|
---|
| 721 | * @param[in] therow
|
---|
| 722 | * @return and index into @table_
|
---|
| 723 | */
|
---|
| 724 | int rowToScanIndex(int therow);
|
---|
[212] | 725 |
|
---|
[1694] | 726 | std::vector<uint> getNumbers(const casa::ScalarColumn<casa::uInt>& col) const;
|
---|
[1111] | 727 |
|
---|
[3023] | 728 | /**
|
---|
| 729 | * Returns a number of elements with "true" in a bool vector.
|
---|
| 730 | * @param[in] mask (boolean vector)
|
---|
| 731 | * @return the numerb of elements in true
|
---|
| 732 | */
|
---|
| 733 | std::size_t nValidMask(const std::vector<bool>& mask);
|
---|
| 734 |
|
---|
[2321] | 735 | static const casa::uInt version_ = 4;
|
---|
[286] | 736 |
|
---|
[824] | 737 | STSelector selector_;
|
---|
[236] | 738 |
|
---|
[824] | 739 | casa::Table::TableType type_;
|
---|
[465] | 740 |
|
---|
[824] | 741 | // the actual data
|
---|
| 742 | casa::Table table_;
|
---|
| 743 | casa::Table originalTable_;
|
---|
[745] | 744 |
|
---|
[824] | 745 | STTcal tcalTable_;
|
---|
| 746 | STFrequencies freqTable_;
|
---|
| 747 | STWeather weatherTable_;
|
---|
| 748 | STFocus focusTable_;
|
---|
| 749 | STMolecules moleculeTable_;
|
---|
[860] | 750 | STHistory historyTable_;
|
---|
[960] | 751 | STFit fitTable_;
|
---|
[860] | 752 |
|
---|
[824] | 753 | // Cached Columns to avoid reconstructing them for each row get/put
|
---|
[847] | 754 | casa::ScalarColumn<casa::Double> integrCol_;
|
---|
[824] | 755 | casa::MDirection::ScalarColumn dirCol_;
|
---|
[847] | 756 | casa::MEpoch::ScalarColumn timeCol_;
|
---|
[923] | 757 | casa::ScalarColumn<casa::Float> azCol_;
|
---|
| 758 | casa::ScalarColumn<casa::Float> elCol_;
|
---|
[824] | 759 | casa::ScalarColumn<casa::String> srcnCol_, fldnCol_;
|
---|
[1819] | 760 | casa::ScalarColumn<casa::uInt> scanCol_, beamCol_, ifCol_, polCol_, cycleCol_, flagrowCol_;
|
---|
[1068] | 761 | casa::ScalarColumn<casa::Int> rbeamCol_, srctCol_;
|
---|
[865] | 762 | casa::ArrayColumn<casa::Float> specCol_, tsysCol_;
|
---|
[824] | 763 | casa::ArrayColumn<casa::uChar> flagsCol_;
|
---|
[430] | 764 |
|
---|
[824] | 765 | // id in frequencies table
|
---|
| 766 | casa::ScalarColumn<casa::uInt> mfreqidCol_;
|
---|
| 767 | // id in tcal table
|
---|
| 768 | casa::ScalarColumn<casa::uInt> mtcalidCol_;
|
---|
[430] | 769 |
|
---|
[824] | 770 | casa::ArrayColumn<casa::String> histitemCol_;
|
---|
[972] | 771 | casa::ScalarColumn<casa::Int> mfitidCol_;
|
---|
[824] | 772 | casa::ScalarColumn<casa::uInt> mweatheridCol_;
|
---|
[322] | 773 |
|
---|
[824] | 774 | casa::ScalarColumn<casa::uInt> mfocusidCol_;
|
---|
| 775 |
|
---|
| 776 | casa::ScalarColumn<casa::uInt> mmolidCol_;
|
---|
| 777 |
|
---|
[896] | 778 | static std::map<std::string, STPol::STPolFactory *> factories_;
|
---|
| 779 | void initFactories();
|
---|
| 780 |
|
---|
[1819] | 781 | /**
|
---|
| 782 | * Add an auxiliary column to the main table and attach it to a
|
---|
| 783 | * cached column. Use for adding new columns that the original asap2
|
---|
| 784 | * tables do not have.
|
---|
| 785 | * @param[in] col reference to the cached column to be attached
|
---|
| 786 | * @param[in] colName column name in asap table
|
---|
| 787 | * @param[in] defValue default value to fill in the column
|
---|
| 788 | *
|
---|
| 789 | * 25/10/2009 Wataru Kawasaki
|
---|
| 790 | */
|
---|
| 791 | template<class T, class T2> void attachAuxColumnDef(casa::ScalarColumn<T>&,
|
---|
| 792 | const casa::String&,
|
---|
| 793 | const T2&);
|
---|
| 794 | template<class T, class T2> void attachAuxColumnDef(casa::ArrayColumn<T>&,
|
---|
| 795 | const casa::String&,
|
---|
| 796 | const casa::Array<T2>&);
|
---|
[1907] | 797 |
|
---|
[2767] | 798 | double getNormalPolynomial(int n, double x);
|
---|
[2645] | 799 | double getChebyshevPolynomial(int n, double x);
|
---|
[2773] | 800 | std::vector<std::vector<double> > getPolynomialModel(int order,
|
---|
| 801 | int nchan,
|
---|
| 802 | double (Scantable::*pfunc)(int, double));
|
---|
| 803 | std::vector<std::vector<std::vector<double> > > getPolynomialModelReservoir(int order,
|
---|
| 804 | double (Scantable::*pfunc)(int, double),
|
---|
| 805 | std::vector<int>& nChanNos);
|
---|
[2767] | 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 | float clipth,
|
---|
| 813 | int clipn);
|
---|
| 814 | std::vector<float> doPolynomialFitting(const std::vector<float>& data,
|
---|
| 815 | const std::vector<bool>& mask,
|
---|
| 816 | int order,
|
---|
| 817 | std::vector<float>& params,
|
---|
| 818 | float& rms,
|
---|
| 819 | std::vector<bool>& finalMask,
|
---|
| 820 | int& nClipped,
|
---|
| 821 | float thresClip=3.0,
|
---|
| 822 | int nIterClip=0,
|
---|
| 823 | bool getResidual=true);
|
---|
[2645] | 824 | std::vector<float> doChebyshevFitting(const std::vector<float>& data,
|
---|
[2767] | 825 | const std::vector<bool>& mask,
|
---|
| 826 | int order,
|
---|
| 827 | std::vector<float>& params,
|
---|
| 828 | float& rms,
|
---|
| 829 | std::vector<bool>& finalMask,
|
---|
| 830 | float clipth,
|
---|
| 831 | int clipn);
|
---|
| 832 | std::vector<float> doChebyshevFitting(const std::vector<float>& data,
|
---|
| 833 | const std::vector<bool>& mask,
|
---|
| 834 | int order,
|
---|
| 835 | std::vector<float>& params,
|
---|
| 836 | float& rms,
|
---|
| 837 | std::vector<bool>& finalMask,
|
---|
| 838 | int& nClipped,
|
---|
| 839 | float thresClip=3.0,
|
---|
| 840 | int nIterClip=0,
|
---|
| 841 | bool getResidual=true);
|
---|
| 842 | std::vector<float> doLeastSquareFitting(const std::vector<float>& data,
|
---|
| 843 | const std::vector<bool>& mask,
|
---|
[2773] | 844 | const std::vector<std::vector<double> >& model,
|
---|
[2767] | 845 | std::vector<float>& params,
|
---|
| 846 | float& rms,
|
---|
| 847 | std::vector<bool>& finalMask,
|
---|
| 848 | int& nClipped,
|
---|
| 849 | float thresClip=3.0,
|
---|
| 850 | int nIterClip=0,
|
---|
| 851 | bool getResidual=true);
|
---|
| 852 | std::vector<float> doCubicSplineFitting(const std::vector<float>& data,
|
---|
[2645] | 853 | const std::vector<bool>& mask,
|
---|
[2767] | 854 | std::vector<int>& idxEdge,
|
---|
[2645] | 855 | std::vector<float>& params,
|
---|
[2767] | 856 | float& rms,
|
---|
[2737] | 857 | std::vector<bool>& finalMask,
|
---|
[2767] | 858 | float clipth,
|
---|
| 859 | int clipn);
|
---|
| 860 | std::vector<float> doCubicSplineFitting(const std::vector<float>& data,
|
---|
| 861 | const std::vector<bool>& mask,
|
---|
| 862 | int nPiece,
|
---|
| 863 | std::vector<int>& idxEdge,
|
---|
| 864 | std::vector<float>& params,
|
---|
[2737] | 865 | float& rms,
|
---|
[2767] | 866 | std::vector<bool>& finalMask,
|
---|
| 867 | float clipth,
|
---|
| 868 | int clipn);
|
---|
[2012] | 869 | std::vector<float> doCubicSplineFitting(const std::vector<float>& data,
|
---|
| 870 | const std::vector<bool>& mask,
|
---|
[2081] | 871 | int nPiece,
|
---|
[2767] | 872 | bool useGivenPieceBoundary,
|
---|
[2064] | 873 | std::vector<int>& idxEdge,
|
---|
[2012] | 874 | std::vector<float>& params,
|
---|
[2767] | 875 | float& rms,
|
---|
| 876 | std::vector<bool>& finalMask,
|
---|
[2193] | 877 | int& nClipped,
|
---|
[2012] | 878 | float thresClip=3.0,
|
---|
[2767] | 879 | int nIterClip=0,
|
---|
[2094] | 880 | bool getResidual=true);
|
---|
[2773] | 881 | std::vector<float> doCubicSplineLeastSquareFitting(const std::vector<float>& data,
|
---|
| 882 | const std::vector<bool>& mask,
|
---|
| 883 | const std::vector<std::vector<double> >& model,
|
---|
| 884 | int nPiece,
|
---|
| 885 | bool useGivenPieceBoundary,
|
---|
| 886 | std::vector<int>& idxEdge,
|
---|
| 887 | std::vector<float>& params,
|
---|
| 888 | float& rms,
|
---|
| 889 | std::vector<bool>& finalMask,
|
---|
| 890 | int& nClipped,
|
---|
| 891 | float thresClip=3.0,
|
---|
| 892 | int nIterClip=0,
|
---|
| 893 | bool getResidual=true);
|
---|
[2047] | 894 | std::vector<float> doSinusoidFitting(const std::vector<float>& data,
|
---|
| 895 | const std::vector<bool>& mask,
|
---|
[2081] | 896 | const std::vector<int>& waveNumbers,
|
---|
[2047] | 897 | std::vector<float>& params,
|
---|
[2767] | 898 | float& rms,
|
---|
| 899 | std::vector<bool>& finalMask,
|
---|
| 900 | float clipth,
|
---|
| 901 | int clipn);
|
---|
| 902 | std::vector<float> doSinusoidFitting(const std::vector<float>& data,
|
---|
| 903 | const std::vector<bool>& mask,
|
---|
| 904 | const std::vector<int>& waveNumbers,
|
---|
| 905 | std::vector<float>& params,
|
---|
| 906 | float& rms,
|
---|
| 907 | std::vector<bool>& finalMask,
|
---|
[2193] | 908 | int& nClipped,
|
---|
[2047] | 909 | float thresClip=3.0,
|
---|
[2767] | 910 | int nIterClip=0,
|
---|
[2094] | 911 | bool getResidual=true);
|
---|
[2773] | 912 | std::vector<std::vector<double> > getSinusoidModel(const std::vector<int>& waveNumbers, int nchan);
|
---|
| 913 | std::vector<std::vector<std::vector<double> > > getSinusoidModelReservoir(const std::vector<int>& waveNumbers,
|
---|
| 914 | std::vector<int>& nChanNos);
|
---|
| 915 | std::vector<int> selectWaveNumbers(const std::vector<int>& addNWaves,
|
---|
| 916 | const std::vector<int>& rejectNWaves);
|
---|
| 917 | std::vector<int> selectWaveNumbers(const int whichrow,
|
---|
| 918 | const std::vector<bool>& chanMask,
|
---|
| 919 | //const std::string& fftInfo,
|
---|
| 920 | const bool applyFFT,
|
---|
| 921 | const std::string& fftMethod,
|
---|
| 922 | const std::string& fftThresh,
|
---|
| 923 | const std::vector<int>& addNWaves,
|
---|
| 924 | const std::vector<int>& rejectNWaves);
|
---|
| 925 | int getIdxOfNchan(const int nChan, const std::vector<int>& nChanNos);
|
---|
[2767] | 926 | void parseFFTInfo(const std::string& fftInfo,
|
---|
| 927 | bool& applyFFT,
|
---|
| 928 | std::string& fftMethod,
|
---|
| 929 | std::string& fftThresh);
|
---|
[2773] | 930 | void parseFFTThresholdInfo(const std::string& fftThresh,
|
---|
| 931 | std::string& fftThAttr,
|
---|
| 932 | float& fftThSigma,
|
---|
| 933 | int& fftThTop);
|
---|
[2186] | 934 | void doSelectWaveNumbers(const int whichrow,
|
---|
| 935 | const std::vector<bool>& chanMask,
|
---|
| 936 | const std::string& fftMethod,
|
---|
| 937 | const float fftThSigma,
|
---|
| 938 | const int fftThTop,
|
---|
| 939 | const std::string& fftThAttr,
|
---|
| 940 | std::vector<int>& nWaves);
|
---|
[2411] | 941 | void addAuxWaveNumbers(const int whichrow,
|
---|
| 942 | const std::vector<int>& addNWaves,
|
---|
[2186] | 943 | const std::vector<int>& rejectNWaves,
|
---|
| 944 | std::vector<int>& nWaves);
|
---|
[2411] | 945 | void setWaveNumberListUptoNyquistFreq(const int whichrow,
|
---|
| 946 | std::vector<int>& nWaves);
|
---|
[2773] | 947 | void initialiseBaselining(const std::string& blfile,
|
---|
| 948 | std::ofstream& ofs,
|
---|
| 949 | const bool outLogger,
|
---|
| 950 | bool& outTextFile,
|
---|
| 951 | bool& csvFormat,
|
---|
| 952 | casa::String& coordInfo,
|
---|
| 953 | bool& hasSameNchan,
|
---|
| 954 | const std::string& progressInfo,
|
---|
| 955 | bool& showProgress,
|
---|
| 956 | int& minNRow,
|
---|
| 957 | casa::Vector<casa::Double>& timeSecCol);
|
---|
| 958 | void finaliseBaselining(const bool outBaselineTable,
|
---|
| 959 | STBaselineTable* pbt,
|
---|
| 960 | const string& bltable,
|
---|
| 961 | const bool outTextFile,
|
---|
| 962 | std::ofstream& ofs);
|
---|
| 963 | void initLineFinder(const std::vector<int>& edge,
|
---|
| 964 | const float threshold,
|
---|
| 965 | const int chanAvgLimit,
|
---|
| 966 | STLineFinder& lineFinder);
|
---|
[2012] | 967 | bool hasSameNchanOverIFs();
|
---|
| 968 | std::string getMaskRangeList(const std::vector<bool>& mask,
|
---|
| 969 | int whichrow,
|
---|
| 970 | const casa::String& coordInfo,
|
---|
[2047] | 971 | bool hasSameNchan,
|
---|
| 972 | bool verbose=false);
|
---|
| 973 | std::vector<int> getMaskEdgeIndices(const std::vector<bool>& mask);
|
---|
[2641] | 974 | std::string formatBaselineParamsHeader(int whichrow, const std::string& masklist, bool verbose, bool csvformat) const;
|
---|
| 975 | std::string formatBaselineParamsFooter(float rms, int nClipped, bool verbose, bool csvformat) const;
|
---|
[2012] | 976 | std::vector<bool> getCompositeChanMask(int whichrow, const std::vector<bool>& inMask);
|
---|
[2773] | 977 | std::vector<bool> getCompositeChanMask(int whichrow, const std::vector<bool>& inMask, const std::vector<int>& edge, std::vector<int>& currEdge, STLineFinder& lineFinder);
|
---|
[2641] | 978 | 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);
|
---|
| 979 | 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] | 980 | void parseProgressInfo(const std::string& progressInfo, bool& showProgress, int& minNRow);
|
---|
| 981 | void showProgressOnTerminal(const int nProcessed, const int nTotal, const bool showProgress=true, const int nTotalThreshold=1000);
|
---|
[1994] | 982 |
|
---|
| 983 | void applyChanFlag( casa::uInt whichrow, const std::vector<bool>& msk, casa::uChar flagval);
|
---|
| 984 |
|
---|
[2713] | 985 | double doCalculateModelSelectionCriteria(const std::string& valname,
|
---|
| 986 | const std::vector<float>& spec,
|
---|
| 987 | const std::vector<bool>& mask,
|
---|
| 988 | const std::string& blfunc,
|
---|
| 989 | int order);
|
---|
[2737] | 990 | double doGetRms(const std::vector<bool>& mask, const casa::Vector<casa::Float>& spec);
|
---|
[2767] | 991 | std::string packFittingResults(const int irow, const std::vector<float>& params, const float rms);
|
---|
| 992 | 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);
|
---|
[3048] | 993 | 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, int irow);
|
---|
[2767] | 994 | 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] | 995 |
|
---|
[3043] | 996 | // storage of cubic spline model for various number of channels
|
---|
| 997 | map<size_t, vector< vector<double> > > cubicSplineModelPool_;
|
---|
| 998 |
|
---|
[2] | 999 | };
|
---|
[824] | 1000 | } // namespace
|
---|
| 1001 |
|
---|
[2] | 1002 | #endif
|
---|