[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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| 16 | #include <string> |
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| 17 | #include <vector> |
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| 18 | // AIPS++ |
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[455] | 19 | #include <casa/aips.h> |
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[322] | 20 | #include <casa/Arrays/MaskedArray.h> |
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[80] | 21 | #include <casa/BasicSL/String.h> |
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[824] | 22 | #include <casa/Utilities/CountedPtr.h> |
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| 23 | |
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[1446] | 24 | #include <casa/Exceptions/Error.h> |
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| 25 | |
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[322] | 26 | #include <coordinates/Coordinates/SpectralCoordinate.h> |
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[824] | 27 | |
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[80] | 28 | #include <tables/Tables/Table.h> |
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[322] | 29 | #include <tables/Tables/ArrayColumn.h> |
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| 30 | #include <tables/Tables/ScalarColumn.h> |
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| 31 | |
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[824] | 32 | #include <measures/TableMeasures/ScalarMeasColumn.h> |
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| 33 | |
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[1446] | 34 | #include <casa/Arrays/Vector.h> |
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| 35 | #include <casa/Quanta/Quantum.h> |
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| 36 | |
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[894] | 37 | #include "Logger.h" |
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[901] | 38 | #include "STHeader.h" |
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[824] | 39 | #include "STFrequencies.h" |
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| 40 | #include "STWeather.h" |
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| 41 | #include "STFocus.h" |
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| 42 | #include "STTcal.h" |
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| 43 | #include "STMolecules.h" |
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| 44 | #include "STSelector.h" |
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[860] | 45 | #include "STHistory.h" |
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[896] | 46 | #include "STPol.h" |
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[960] | 47 | #include "STFit.h" |
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[972] | 48 | #include "STFitEntry.h" |
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[2] | 49 | |
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[824] | 50 | namespace asap { |
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[2] | 51 | |
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[824] | 52 | /** |
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| 53 | * This class contains and wraps a casa::Table, which is used to store |
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| 54 | * all the information. This can be either a MemoryTable or a |
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| 55 | * disk based Table. |
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| 56 | * It provides access functions to the underlying table |
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| 57 | * It contains n subtables: |
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| 58 | * @li weather |
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| 59 | * @li frequencies |
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| 60 | * @li molecules |
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| 61 | * @li tcal |
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| 62 | * @li focus |
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| 63 | * @li fits |
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| 64 | * |
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| 65 | * @brief The main ASAP data container |
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| 66 | * @author Malte Marquarding |
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| 67 | * @date |
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| 68 | * @version |
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| 69 | */ |
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[890] | 70 | class Scantable : private Logger |
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[824] | 71 | { |
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[902] | 72 | |
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| 73 | friend class STMath; |
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| 74 | |
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[2] | 75 | public: |
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[824] | 76 | /** |
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| 77 | * Default constructor |
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| 78 | */ |
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[1350] | 79 | explicit Scantable(casa::Table::TableType ttype = casa::Table::Memory); |
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[19] | 80 | |
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[824] | 81 | /** |
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| 82 | * Create a Scantable object form an existing table on disk |
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| 83 | * @param[in] name the name of the existing Scantable |
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| 84 | */ |
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[1385] | 85 | explicit Scantable(const std::string& name, casa::Table::TableType ttype = casa::Table::Memory); |
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[2] | 86 | |
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[824] | 87 | /// @fixme this is only sensible for MemoryTables.... |
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| 88 | Scantable(const Scantable& other, bool clear=true); |
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[161] | 89 | |
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[824] | 90 | /** |
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| 91 | * Destructor |
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| 92 | */ |
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| 93 | virtual ~Scantable(); |
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[745] | 94 | |
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[824] | 95 | /** |
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| 96 | * get a const reference to the underlying casa::Table |
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[1104] | 97 | * @return const \ref casa::Table reference |
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[824] | 98 | */ |
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| 99 | const casa::Table& table() const; |
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[19] | 100 | |
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[824] | 101 | /** |
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| 102 | * get a reference to the underlying casa::Table with the Selection |
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| 103 | * object applied if set |
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| 104 | * @return casa::Table reference |
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| 105 | */ |
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| 106 | casa::Table& table(); |
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[21] | 107 | |
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[845] | 108 | |
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| 109 | /** |
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| 110 | * Get a handle to the selection object |
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| 111 | * @return constant STSelector reference |
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| 112 | */ |
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| 113 | const STSelector& getSelection() const { return selector_; } |
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| 114 | |
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| 115 | /** |
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| 116 | * Set the data to be a subset as defined by the STSelector |
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| 117 | * @param selection a STSelector object |
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| 118 | */ |
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[824] | 119 | void setSelection(const STSelector& selection); |
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[845] | 120 | |
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| 121 | /** |
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| 122 | * unset the selection of the data |
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| 123 | */ |
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[824] | 124 | void unsetSelection(); |
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| 125 | /** |
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| 126 | * set the header |
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[1295] | 127 | * @param[in] sth an STHeader object |
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[824] | 128 | */ |
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[901] | 129 | void setHeader( const STHeader& sth ); |
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[386] | 130 | |
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[824] | 131 | /** |
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| 132 | * get the header information |
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[901] | 133 | * @return an STHeader object |
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[824] | 134 | */ |
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[901] | 135 | STHeader getHeader( ) const; |
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[1068] | 136 | |
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[824] | 137 | /** |
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| 138 | * Checks if the "other" Scantable is conformant with this, |
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| 139 | * i.e. if header values are the same. |
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| 140 | * @param[in] other another Scantable |
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| 141 | * @return true or false |
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| 142 | */ |
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| 143 | bool conformant( const Scantable& other); |
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[430] | 144 | |
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[824] | 145 | /** |
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[1068] | 146 | * |
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| 147 | * @param stype The type of the source, 0 = on, 1 = off |
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| 148 | */ |
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| 149 | void setSourceType(int stype); |
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| 150 | |
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| 151 | |
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| 152 | /** |
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[1104] | 153 | * The number of scans in the table |
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[824] | 154 | * @return number of scans in the table |
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| 155 | */ |
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[845] | 156 | int nscan() const; |
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[490] | 157 | |
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[915] | 158 | casa::MEpoch::Types getTimeReference() const; |
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[21] | 159 | |
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[824] | 160 | /** |
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| 161 | * Get global antenna position |
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[845] | 162 | * @return casa::MPosition |
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[824] | 163 | */ |
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| 164 | casa::MPosition getAntennaPosition() const; |
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[490] | 165 | |
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[1104] | 166 | /** |
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| 167 | * the @ref casa::MDirection for a specific row |
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[1170] | 168 | * @param[in] whichrow the row number |
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[1104] | 169 | * return casa::MDirection |
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| 170 | */ |
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[987] | 171 | casa::MDirection getDirection( int whichrow ) const; |
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| 172 | |
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[1104] | 173 | /** |
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[1446] | 174 | * get the direction as a string |
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[1104] | 175 | * @param[in] whichrow the row number |
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| 176 | * return the direction string |
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| 177 | */ |
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[1068] | 178 | std::string getDirectionString( int whichrow ) const; |
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| 179 | |
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[1104] | 180 | /** |
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| 181 | * set the direction type as a string, e.g. "J2000" |
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[1295] | 182 | * @param[in] refstr the direction type |
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[1170] | 183 | */ |
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[987] | 184 | void setDirectionRefString(const std::string& refstr=""); |
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[1104] | 185 | /** |
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| 186 | * get the direction reference string |
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| 187 | * @return a string describing the direction reference |
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| 188 | */ |
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| 189 | std::string getDirectionRefString() const; /** |
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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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[987] | 194 | |
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[1170] | 195 | |
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[824] | 196 | /** |
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[845] | 197 | * Return the Flux unit of the data, e.g. "Jy" or "K" |
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| 198 | * @return string |
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[824] | 199 | */ |
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| 200 | std::string getFluxUnit() const; |
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[472] | 201 | |
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[824] | 202 | /** |
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[845] | 203 | * Set the Flux unit of the data |
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| 204 | * @param unit a string representing the unit, e.g "Jy" or "K" |
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[824] | 205 | */ |
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| 206 | void setFluxUnit( const std::string& unit ); |
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[472] | 207 | |
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[824] | 208 | /** |
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[1189] | 209 | * Set the Stokes type of the data |
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[1295] | 210 | * @param feedtype a string representing the type, e.g "circular" or "linear" |
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[1189] | 211 | */ |
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| 212 | void setFeedType( const std::string& feedtype ); |
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| 213 | |
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| 214 | /** |
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[824] | 215 | * |
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[845] | 216 | * @param instrument a string representing an insturment. see xxx |
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[824] | 217 | */ |
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| 218 | void setInstrument( const std::string& instrument ); |
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[2] | 219 | |
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[845] | 220 | /** |
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| 221 | * (Re)calculate the azimuth and elevationnfor all rows |
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| 222 | */ |
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[824] | 223 | void calculateAZEL(); |
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[745] | 224 | |
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[824] | 225 | /** |
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[845] | 226 | * "hard" flag the data, this flags everything selected in setSelection() |
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[1104] | 227 | * param[in] msk a boolean mask of length nchan describing the points to |
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| 228 | * to be flagged |
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[824] | 229 | */ |
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[1400] | 230 | //void flag( const std::vector<bool>& msk = std::vector<bool>()); |
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| 231 | void flag( const std::vector<bool>& msk = std::vector<bool>(), bool unflag=false); |
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[455] | 232 | |
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[852] | 233 | /** |
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| 234 | * Return a list of row numbers with respect to the original table. |
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[902] | 235 | * @return a list of unsigned ints |
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[852] | 236 | */ |
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| 237 | std::vector<unsigned int> rownumbers() const; |
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[845] | 238 | |
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[852] | 239 | |
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[845] | 240 | /** |
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| 241 | * Get the number of beams in the data or a specific scan |
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| 242 | * @param scanno the scan number to get the number of beams for. |
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| 243 | * If scanno<0 the number is retrieved from the header. |
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| 244 | * @return an integer number |
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| 245 | */ |
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[824] | 246 | int nbeam(int scanno=-1) const; |
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[845] | 247 | /** |
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| 248 | * Get the number of IFs in the data or a specific scan |
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| 249 | * @param scanno the scan number to get the number of IFs for. |
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| 250 | * If scanno<0 the number is retrieved from the header. |
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| 251 | * @return an integer number |
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| 252 | */ |
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[824] | 253 | int nif(int scanno=-1) const; |
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[845] | 254 | /** |
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| 255 | * Get the number of polarizations in the data or a specific scan |
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| 256 | * @param scanno the scan number to get the number of polarizations for. |
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| 257 | * If scanno<0 the number is retrieved from the header. |
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| 258 | * @return an integer number |
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| 259 | */ |
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[824] | 260 | int npol(int scanno=-1) const; |
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[794] | 261 | |
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[896] | 262 | std::string getPolType() const; |
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| 263 | |
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[845] | 264 | |
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| 265 | /** |
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| 266 | * Get the number of integartion cycles |
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| 267 | * @param scanno the scan number to get the number of rows for. |
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| 268 | * If scanno<0 the number is retrieved from the header. |
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[1104] | 269 | * @return the number of rows (for the specified scanno) |
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[845] | 270 | */ |
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[824] | 271 | int nrow(int scanno=-1) const; |
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[794] | 272 | |
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[1111] | 273 | int getBeam(int whichrow) const; |
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| 274 | std::vector<uint> getBeamNos() { return getNumbers(beamCol_); } |
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[50] | 275 | |
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[847] | 276 | int getIF(int whichrow) const; |
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[1111] | 277 | std::vector<uint> getIFNos() { return getNumbers(ifCol_); } |
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| 278 | |
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[847] | 279 | int getPol(int whichrow) const; |
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[1111] | 280 | std::vector<uint> getPolNos() { return getNumbers(polCol_); } |
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| 281 | |
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| 282 | std::vector<uint> getScanNos() { return getNumbers(scanCol_); } |
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[865] | 283 | int getScan(int whichrow) const { return scanCol_(whichrow); } |
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[1111] | 284 | |
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[1446] | 285 | //TT addition |
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| 286 | std::vector<uint> getMolNos() {return getNumbers(mmolidCol_); } |
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| 287 | |
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[1111] | 288 | /** |
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| 289 | * Get the number of channels in the data or a specific IF. This currently |
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| 290 | * varies only with IF number |
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| 291 | * @param ifno the IF number to get the number of channels for. |
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| 292 | * If ifno<0 the number is retrieved from the header. |
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| 293 | * @return an integer number |
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| 294 | */ |
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| 295 | int nchan(int ifno=-1) const; |
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[923] | 296 | int getChannels(int whichrow) const; |
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[206] | 297 | |
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[1111] | 298 | int ncycle(int scanno=-1) const; |
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| 299 | int getCycle(int whichrow) const { return cycleCol_(whichrow); } |
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| 300 | |
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[847] | 301 | double getInterval(int whichrow) const |
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| 302 | { return integrCol_(whichrow); } |
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[845] | 303 | |
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[865] | 304 | float getTsys(int whichrow) const |
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| 305 | { return casa::Vector<casa::Float>(tsysCol_(whichrow))(0); } |
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[847] | 306 | float getElevation(int whichrow) const |
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| 307 | { return elCol_(whichrow); } |
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| 308 | float getAzimuth(int whichrow) const |
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| 309 | { return azCol_(whichrow); } |
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[865] | 310 | float getParAngle(int whichrow) const |
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[847] | 311 | { return paraCol_(whichrow); } |
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[386] | 312 | |
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[865] | 313 | std::string getSourceName(int whichrow) const |
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| 314 | { return srcnCol_(whichrow); } |
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| 315 | |
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[847] | 316 | std::vector<bool> getMask(int whichrow) const; |
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[896] | 317 | std::vector<float> getSpectrum(int whichrow, |
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[905] | 318 | const std::string& poltype = "" ) const; |
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[847] | 319 | |
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[884] | 320 | void setSpectrum(const std::vector<float>& spec, int whichrow); |
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| 321 | |
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[902] | 322 | std::string getPolarizationLabel(int index, const std::string& ptype) const |
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| 323 | { return STPol::getPolLabel(index, ptype ); } |
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[401] | 324 | |
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[845] | 325 | /** |
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| 326 | * Write the Scantable to disk |
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| 327 | * @param filename the output file name |
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| 328 | */ |
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[824] | 329 | void makePersistent(const std::string& filename); |
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[745] | 330 | |
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[860] | 331 | std::vector<std::string> getHistory() const |
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| 332 | { return historyTable_.getHistory(); }; |
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[483] | 333 | |
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[860] | 334 | void addHistory(const std::string& hist) { historyTable_.addEntry(hist); } |
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[488] | 335 | |
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[860] | 336 | void appendToHistoryTable(const STHistory& otherhist) |
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| 337 | { historyTable_.append(otherhist); } |
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| 338 | |
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[824] | 339 | std::string summary(bool verbose=false); |
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| 340 | std::string getTime(int whichrow=-1, bool showdate=true) const; |
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[1350] | 341 | double getIntTime(int whichrow) const { return integrCol_(whichrow); } |
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[19] | 342 | |
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[847] | 343 | // returns unit, conversion frame, doppler, base-frame |
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[18] | 344 | |
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[847] | 345 | /** |
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| 346 | * Get the frequency set up |
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| 347 | * This is forwarded to the STFrequencies subtable |
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| 348 | * @return unit, frame, doppler |
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| 349 | */ |
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| 350 | std::vector<std::string> getCoordInfo() const |
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| 351 | { return freqTable_.getInfo(); }; |
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| 352 | |
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| 353 | void setCoordInfo(std::vector<string> theinfo) |
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| 354 | { return freqTable_.setInfo(theinfo); }; |
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| 355 | |
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[865] | 356 | |
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| 357 | std::vector<double> getAbcissa(int whichrow) const; |
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| 358 | |
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[847] | 359 | std::string getAbcissaLabel(int whichrow) const; |
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| 360 | std::vector<double> getRestFrequencies() const |
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| 361 | { return moleculeTable_.getRestFrequencies(); } |
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[1446] | 362 | std::vector<double> getRestFrequency(int id) const |
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| 363 | { return moleculeTable_.getRestFrequency(id); } |
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[847] | 364 | |
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[1446] | 365 | /** |
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[1170] | 366 | void setRestFrequencies(double rf, const std::string& name = "", |
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| 367 | const std::string& = "Hz"); |
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[1446] | 368 | **/ |
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| 369 | // Modified by Takeshi Nakazato 05/09/2008 |
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| 370 | /*** |
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| 371 | void setRestFrequencies(vector<double> rf, const vector<std::string>& name = "", |
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| 372 | const std::string& = "Hz"); |
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| 373 | ***/ |
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| 374 | void setRestFrequencies(vector<double> rf, |
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| 375 | const vector<std::string>& name = vector<std::string>(1,""), |
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| 376 | const std::string& = "Hz"); |
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[847] | 377 | |
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[1446] | 378 | //void setRestFrequencies(const std::string& name); |
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| 379 | void setRestFrequencies(const vector<std::string>& name); |
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| 380 | |
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[1360] | 381 | void shift(int npix); |
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| 382 | |
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[987] | 383 | void convertDirection(const std::string& newframe); |
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| 384 | |
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[824] | 385 | STFrequencies& frequencies() { return freqTable_; } |
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[1375] | 386 | const STFrequencies& frequencies() const { return freqTable_; } |
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[824] | 387 | STWeather& weather() { return weatherTable_; } |
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[1375] | 388 | const STWeather& weather() const { return weatherTable_; } |
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[824] | 389 | STFocus& focus() { return focusTable_; } |
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[1375] | 390 | const STFocus& focus() const { return focusTable_; } |
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[824] | 391 | STTcal& tcal() { return tcalTable_; } |
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[1375] | 392 | const STTcal& tcal() const { return tcalTable_; } |
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[824] | 393 | STMolecules& molecules() { return moleculeTable_; } |
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[1375] | 394 | const STMolecules& molecules() const { return moleculeTable_; } |
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[860] | 395 | STHistory& history() { return historyTable_; } |
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[1375] | 396 | const STHistory& history() const { return historyTable_; } |
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[972] | 397 | STFit& fit() { return fitTable_; } |
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[1375] | 398 | const STFit& fit() const { return fitTable_; } |
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[2] | 399 | |
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[902] | 400 | std::vector<std::string> columnNames() const; |
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[896] | 401 | |
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[972] | 402 | void addFit(const STFitEntry& fit, int row); |
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| 403 | STFitEntry getFit(int row) const |
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| 404 | { STFitEntry fe; fitTable_.getEntry(fe, mfitidCol_(row)); return fe; } |
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| 405 | |
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[1388] | 406 | //Added by TT |
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| 407 | /** |
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| 408 | * Get the antenna name |
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| 409 | * @return antenna name string |
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| 410 | */ |
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| 411 | std::string getAntennaName() const; |
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| 412 | |
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| 413 | /** |
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| 414 | * For GBT MS data only. check a scan list |
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| 415 | * against the information found in GBT_GO table for |
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| 416 | * scan number orders to get correct pairs. |
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[1446] | 417 | * @param[in] scan list |
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| 418 | * @return status |
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[1388] | 419 | */ |
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| 420 | int checkScanInfo(const std::vector<int>& scanlist) const; |
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| 421 | |
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| 422 | /** |
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[1446] | 423 | * Get the direction as a vector, for a specific row |
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[1388] | 424 | * @param[in] whichrow the row numbyyer |
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[1446] | 425 | * @return the direction in a vector |
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[1388] | 426 | */ |
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| 427 | std::vector<double> getDirectionVector(int whichrow) const; |
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| 428 | |
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[1446] | 429 | /** |
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| 430 | * Reshape spectrum |
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| 431 | * @param[in] nmin, nmax minimum and maximum channel |
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| 432 | * @param[in] irow row number |
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| 433 | * |
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| 434 | * 30/07/2008 Takeshi Nakazato |
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| 435 | **/ |
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| 436 | void reshapeSpectrum( int nmin, int nmax ) throw( casa::AipsError ); |
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| 437 | void reshapeSpectrum( int nmin, int nmax, int irow ) ; |
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| 438 | |
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| 439 | /** |
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| 440 | * Change channel number under fixed bandwidth |
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| 441 | * @param[in] nchan, dnu new channel number and spectral resolution |
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| 442 | * @param[in] irow row number |
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| 443 | * |
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| 444 | * 27/08/2008 Takeshi Nakazato |
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| 445 | **/ |
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| 446 | void regridChannel( int nchan, double dnu ) ; |
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| 447 | void regridChannel( int nchan, double dnu, int irow ) ; |
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| 448 | |
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[824] | 449 | private: |
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[896] | 450 | |
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| 451 | casa::Matrix<casa::Float> getPolMatrix( casa::uInt whichrow ) const; |
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| 452 | |
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[824] | 453 | /** |
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| 454 | * Turns a time vale into a formatted string |
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| 455 | * @param x |
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| 456 | * @return |
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| 457 | */ |
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| 458 | std::string formatSec(casa::Double x) const; |
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[18] | 459 | |
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[824] | 460 | std::string formatTime(const casa::MEpoch& me, bool showdate)const; |
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[22] | 461 | |
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[824] | 462 | /** |
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| 463 | * Turns a casa::MDirection into a nicely formatted string |
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| 464 | * @param md an casa::MDirection |
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| 465 | * @return |
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| 466 | */ |
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| 467 | std::string formatDirection(const casa::MDirection& md) const; |
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[19] | 468 | |
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[286] | 469 | |
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[824] | 470 | /** |
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| 471 | * Create a unique file name for the paged (temporary) table |
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| 472 | * @return just the name |
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| 473 | */ |
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| 474 | static casa::String generateName(); |
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[286] | 475 | |
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[824] | 476 | /** |
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| 477 | * attach to cached columns |
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| 478 | */ |
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| 479 | void attach(); |
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[50] | 480 | |
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[824] | 481 | /** |
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| 482 | * Set up the main casa::Table |
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| 483 | */ |
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| 484 | void setupMainTable(); |
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[88] | 485 | |
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[859] | 486 | void attachSubtables(); |
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[865] | 487 | void copySubtables(const Scantable& other); |
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| 488 | |
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[824] | 489 | /** |
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| 490 | * Convert an "old" asap1 style row index into a new index |
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| 491 | * @param[in] therow |
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| 492 | * @return and index into @table_ |
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| 493 | */ |
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| 494 | int rowToScanIndex(int therow); |
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[212] | 495 | |
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[1111] | 496 | std::vector<uint> getNumbers(casa::ScalarColumn<casa::uInt>& col); |
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| 497 | |
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[1030] | 498 | static const casa::uInt version_ = 2; |
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[286] | 499 | |
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[824] | 500 | STSelector selector_; |
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[236] | 501 | |
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[824] | 502 | casa::Table::TableType type_; |
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[465] | 503 | |
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[824] | 504 | // the actual data |
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| 505 | casa::Table table_; |
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| 506 | casa::Table originalTable_; |
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[745] | 507 | |
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[824] | 508 | STTcal tcalTable_; |
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| 509 | STFrequencies freqTable_; |
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| 510 | STWeather weatherTable_; |
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| 511 | STFocus focusTable_; |
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| 512 | STMolecules moleculeTable_; |
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[860] | 513 | STHistory historyTable_; |
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[960] | 514 | STFit fitTable_; |
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[860] | 515 | |
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[824] | 516 | // Cached Columns to avoid reconstructing them for each row get/put |
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[847] | 517 | casa::ScalarColumn<casa::Double> integrCol_; |
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[824] | 518 | casa::MDirection::ScalarColumn dirCol_; |
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[847] | 519 | casa::MEpoch::ScalarColumn timeCol_; |
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[923] | 520 | casa::ScalarColumn<casa::Float> azCol_; |
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| 521 | casa::ScalarColumn<casa::Float> elCol_; |
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[824] | 522 | casa::ScalarColumn<casa::Float> paraCol_; |
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| 523 | casa::ScalarColumn<casa::String> srcnCol_, fldnCol_; |
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[847] | 524 | casa::ScalarColumn<casa::uInt> scanCol_, beamCol_, ifCol_, polCol_, cycleCol_; |
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[1068] | 525 | casa::ScalarColumn<casa::Int> rbeamCol_, srctCol_; |
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[865] | 526 | casa::ArrayColumn<casa::Float> specCol_, tsysCol_; |
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[824] | 527 | casa::ArrayColumn<casa::uChar> flagsCol_; |
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[430] | 528 | |
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[824] | 529 | // id in frequencies table |
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| 530 | casa::ScalarColumn<casa::uInt> mfreqidCol_; |
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| 531 | // id in tcal table |
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| 532 | casa::ScalarColumn<casa::uInt> mtcalidCol_; |
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[430] | 533 | |
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[824] | 534 | casa::ArrayColumn<casa::String> histitemCol_; |
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[972] | 535 | casa::ScalarColumn<casa::Int> mfitidCol_; |
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[824] | 536 | casa::ScalarColumn<casa::uInt> mweatheridCol_; |
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[322] | 537 | |
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[824] | 538 | casa::ScalarColumn<casa::uInt> mfocusidCol_; |
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| 539 | |
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| 540 | casa::ScalarColumn<casa::uInt> mmolidCol_; |
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| 541 | |
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[896] | 542 | static std::map<std::string, STPol::STPolFactory *> factories_; |
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| 543 | void initFactories(); |
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| 544 | |
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[2] | 545 | }; |
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| 546 | |
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[824] | 547 | |
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| 548 | } // namespace |
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| 549 | |
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[2] | 550 | #endif |
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