[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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[2012] | 18 | #include <iostream> |
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| 19 | #include <fstream> |
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[2] | 20 | // AIPS++ |
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[455] | 21 | #include <casa/aips.h> |
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[1931] | 22 | #include <casa/Containers/Record.h> |
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[322] | 23 | #include <casa/Arrays/MaskedArray.h> |
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[80] | 24 | #include <casa/BasicSL/String.h> |
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[824] | 25 | #include <casa/Utilities/CountedPtr.h> |
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| 26 | |
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[80] | 27 | #include <tables/Tables/Table.h> |
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[322] | 28 | #include <tables/Tables/ArrayColumn.h> |
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| 29 | #include <tables/Tables/ScalarColumn.h> |
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| 30 | |
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[824] | 31 | #include <measures/TableMeasures/ScalarMeasColumn.h> |
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| 32 | |
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[1598] | 33 | #include <coordinates/Coordinates/SpectralCoordinate.h> |
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| 34 | |
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[1819] | 35 | #include <casa/Arrays/Vector.h> |
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| 36 | #include <casa/Quanta/Quantum.h> |
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| 37 | |
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| 38 | #include <casa/Exceptions/Error.h> |
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| 39 | |
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[894] | 40 | #include "Logger.h" |
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[901] | 41 | #include "STHeader.h" |
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[824] | 42 | #include "STFrequencies.h" |
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| 43 | #include "STWeather.h" |
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| 44 | #include "STFocus.h" |
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| 45 | #include "STTcal.h" |
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| 46 | #include "STMolecules.h" |
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| 47 | #include "STSelector.h" |
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[860] | 48 | #include "STHistory.h" |
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[896] | 49 | #include "STPol.h" |
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[960] | 50 | #include "STFit.h" |
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[972] | 51 | #include "STFitEntry.h" |
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[1907] | 52 | #include "STFitter.h" |
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[2] | 53 | |
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[824] | 54 | namespace asap { |
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[2] | 55 | |
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[824] | 56 | /** |
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| 57 | * This class contains and wraps a casa::Table, which is used to store |
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| 58 | * all the information. This can be either a MemoryTable or a |
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| 59 | * disk based Table. |
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| 60 | * It provides access functions to the underlying table |
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| 61 | * It contains n subtables: |
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| 62 | * @li weather |
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| 63 | * @li frequencies |
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| 64 | * @li molecules |
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| 65 | * @li tcal |
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| 66 | * @li focus |
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| 67 | * @li fits |
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| 68 | * |
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| 69 | * @brief The main ASAP data container |
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| 70 | * @author Malte Marquarding |
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| 71 | * @date |
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| 72 | * @version |
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| 73 | */ |
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[890] | 74 | class Scantable : private Logger |
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[824] | 75 | { |
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[902] | 76 | |
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| 77 | friend class STMath; |
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| 78 | |
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[2] | 79 | public: |
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[824] | 80 | /** |
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| 81 | * Default constructor |
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| 82 | */ |
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[1350] | 83 | explicit Scantable(casa::Table::TableType ttype = casa::Table::Memory); |
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[19] | 84 | |
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[824] | 85 | /** |
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| 86 | * Create a Scantable object form an existing table on disk |
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| 87 | * @param[in] name the name of the existing Scantable |
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| 88 | */ |
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[1385] | 89 | explicit Scantable(const std::string& name, casa::Table::TableType ttype = casa::Table::Memory); |
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[2] | 90 | |
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[824] | 91 | /// @fixme this is only sensible for MemoryTables.... |
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| 92 | Scantable(const Scantable& other, bool clear=true); |
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[161] | 93 | |
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[824] | 94 | /** |
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| 95 | * Destructor |
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| 96 | */ |
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| 97 | virtual ~Scantable(); |
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[745] | 98 | |
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[824] | 99 | /** |
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| 100 | * get a const reference to the underlying casa::Table |
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[1104] | 101 | * @return const \ref casa::Table reference |
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[824] | 102 | */ |
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| 103 | const casa::Table& table() const; |
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[19] | 104 | |
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[824] | 105 | /** |
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| 106 | * get a reference to the underlying casa::Table with the Selection |
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| 107 | * object applied if set |
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| 108 | * @return casa::Table reference |
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| 109 | */ |
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| 110 | casa::Table& table(); |
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[21] | 111 | |
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[845] | 112 | |
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| 113 | /** |
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| 114 | * Get a handle to the selection object |
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| 115 | * @return constant STSelector reference |
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| 116 | */ |
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| 117 | const STSelector& getSelection() const { return selector_; } |
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| 118 | |
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| 119 | /** |
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| 120 | * Set the data to be a subset as defined by the STSelector |
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| 121 | * @param selection a STSelector object |
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| 122 | */ |
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[824] | 123 | void setSelection(const STSelector& selection); |
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[845] | 124 | |
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| 125 | /** |
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| 126 | * unset the selection of the data |
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| 127 | */ |
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[824] | 128 | void unsetSelection(); |
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| 129 | /** |
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| 130 | * set the header |
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[1295] | 131 | * @param[in] sth an STHeader object |
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[824] | 132 | */ |
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[901] | 133 | void setHeader( const STHeader& sth ); |
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[386] | 134 | |
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[824] | 135 | /** |
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| 136 | * get the header information |
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[901] | 137 | * @return an STHeader object |
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[824] | 138 | */ |
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[901] | 139 | STHeader getHeader( ) const; |
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[1068] | 140 | |
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[824] | 141 | /** |
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| 142 | * Checks if the "other" Scantable is conformant with this, |
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| 143 | * i.e. if header values are the same. |
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| 144 | * @param[in] other another Scantable |
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| 145 | * @return true or false |
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| 146 | */ |
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| 147 | bool conformant( const Scantable& other); |
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[430] | 148 | |
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[824] | 149 | /** |
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[1068] | 150 | * |
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| 151 | * @param stype The type of the source, 0 = on, 1 = off |
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| 152 | */ |
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| 153 | void setSourceType(int stype); |
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| 154 | |
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| 155 | |
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| 156 | /** |
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[1104] | 157 | * The number of scans in the table |
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[824] | 158 | * @return number of scans in the table |
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| 159 | */ |
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[845] | 160 | int nscan() const; |
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[490] | 161 | |
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[915] | 162 | casa::MEpoch::Types getTimeReference() const; |
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[21] | 163 | |
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[1411] | 164 | |
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| 165 | casa::MEpoch getEpoch(int whichrow) const; |
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| 166 | |
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[824] | 167 | /** |
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| 168 | * Get global antenna position |
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[845] | 169 | * @return casa::MPosition |
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[824] | 170 | */ |
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| 171 | casa::MPosition getAntennaPosition() const; |
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[490] | 172 | |
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[1441] | 173 | /** |
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| 174 | * the @ref casa::MDirection for a specific row |
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| 175 | * @param[in] whichrow the row number |
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| 176 | * return casa::MDirection |
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| 177 | */ |
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[987] | 178 | casa::MDirection getDirection( int whichrow ) const; |
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[1598] | 179 | |
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[1441] | 180 | /** |
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| 181 | * get the direction type as a string, e.g. "J2000" |
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| 182 | * @param[in] whichrow the row number |
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| 183 | * return the direction string |
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| 184 | */ |
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[1068] | 185 | std::string getDirectionString( int whichrow ) const; |
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| 186 | |
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[1441] | 187 | /** |
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| 188 | * set the direction type as a string, e.g. "J2000" |
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| 189 | * @param[in] refstr the direction type |
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| 190 | */ |
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[987] | 191 | void setDirectionRefString(const std::string& refstr=""); |
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[1441] | 192 | |
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[1104] | 193 | /** |
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| 194 | * get the direction reference string |
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| 195 | * @return a string describing the direction reference |
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| 196 | */ |
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[1598] | 197 | std::string getDirectionRefString() const; |
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[987] | 198 | |
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[824] | 199 | /** |
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[845] | 200 | * Return the Flux unit of the data, e.g. "Jy" or "K" |
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| 201 | * @return string |
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[824] | 202 | */ |
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| 203 | std::string getFluxUnit() const; |
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[472] | 204 | |
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[824] | 205 | /** |
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[845] | 206 | * Set the Flux unit of the data |
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| 207 | * @param unit a string representing the unit, e.g "Jy" or "K" |
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[824] | 208 | */ |
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| 209 | void setFluxUnit( const std::string& unit ); |
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[472] | 210 | |
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[824] | 211 | /** |
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[1189] | 212 | * Set the Stokes type of the data |
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[1295] | 213 | * @param feedtype a string representing the type, e.g "circular" or "linear" |
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[1189] | 214 | */ |
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| 215 | void setFeedType( const std::string& feedtype ); |
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| 216 | |
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| 217 | /** |
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[824] | 218 | * |
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[845] | 219 | * @param instrument a string representing an insturment. see xxx |
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[824] | 220 | */ |
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| 221 | void setInstrument( const std::string& instrument ); |
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[2] | 222 | |
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[845] | 223 | /** |
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| 224 | * (Re)calculate the azimuth and elevationnfor all rows |
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| 225 | */ |
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[824] | 226 | void calculateAZEL(); |
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[745] | 227 | |
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[824] | 228 | /** |
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[845] | 229 | * "hard" flag the data, this flags everything selected in setSelection() |
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[1104] | 230 | * param[in] msk a boolean mask of length nchan describing the points to |
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| 231 | * to be flagged |
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[824] | 232 | */ |
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[1430] | 233 | //void flag( const std::vector<bool>& msk = std::vector<bool>()); |
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[1994] | 234 | //void flag( const std::vector<bool>& msk = std::vector<bool>(), bool unflag=false); |
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[455] | 235 | |
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[1994] | 236 | void flag( int whichrow = -1, const std::vector<bool>& msk = std::vector<bool>(), bool unflag=false); |
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| 237 | |
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[852] | 238 | /** |
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[1819] | 239 | * Flag the data in a row-based manner. (CAS-1433 Wataru Kawasaki) |
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| 240 | * param[in] rows list of row numbers to be flagged |
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| 241 | */ |
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| 242 | void flagRow( const std::vector<casa::uInt>& rows = std::vector<casa::uInt>(), bool unflag=false); |
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| 243 | |
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| 244 | /** |
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| 245 | * Get flagRow info at the specified row. If true, the whole data |
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| 246 | * at the row should be flagged. |
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| 247 | */ |
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| 248 | bool getFlagRow(int whichrow) const |
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| 249 | { return (flagrowCol_(whichrow) > 0); } |
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| 250 | |
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| 251 | /** |
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| 252 | * Flag the data outside a specified range (in a channel-based manner). |
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| 253 | * (CAS-1807 Wataru Kawasaki) |
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| 254 | */ |
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| 255 | void clip(const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag); |
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| 256 | |
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| 257 | /** |
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| 258 | * Return a list of booleans with the size of nchan for a specified row, to get info |
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| 259 | * about which channel is clipped. |
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| 260 | */ |
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| 261 | std::vector<bool> getClipMask(int whichrow, const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag); |
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| 262 | void srchChannelsToClip(casa::uInt whichrow, const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag, |
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| 263 | casa::Vector<casa::uChar> flgs); |
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| 264 | |
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| 265 | /** |
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[852] | 266 | * Return a list of row numbers with respect to the original table. |
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[902] | 267 | * @return a list of unsigned ints |
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[852] | 268 | */ |
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| 269 | std::vector<unsigned int> rownumbers() const; |
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[845] | 270 | |
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[852] | 271 | |
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[845] | 272 | /** |
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| 273 | * Get the number of beams in the data or a specific scan |
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| 274 | * @param scanno the scan number to get the number of beams for. |
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| 275 | * If scanno<0 the number is retrieved from the header. |
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| 276 | * @return an integer number |
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| 277 | */ |
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[824] | 278 | int nbeam(int scanno=-1) const; |
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[845] | 279 | /** |
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| 280 | * Get the number of IFs in the data or a specific scan |
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| 281 | * @param scanno the scan number to get the number of IFs for. |
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| 282 | * If scanno<0 the number is retrieved from the header. |
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| 283 | * @return an integer number |
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| 284 | */ |
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[824] | 285 | int nif(int scanno=-1) const; |
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[845] | 286 | /** |
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| 287 | * Get the number of polarizations in the data or a specific scan |
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| 288 | * @param scanno the scan number to get the number of polarizations for. |
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| 289 | * If scanno<0 the number is retrieved from the header. |
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| 290 | * @return an integer number |
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| 291 | */ |
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[824] | 292 | int npol(int scanno=-1) const; |
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[794] | 293 | |
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[896] | 294 | std::string getPolType() const; |
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| 295 | |
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[845] | 296 | |
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| 297 | /** |
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| 298 | * Get the number of integartion cycles |
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| 299 | * @param scanno the scan number to get the number of rows for. |
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| 300 | * If scanno<0 the number is retrieved from the header. |
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[1104] | 301 | * @return the number of rows (for the specified scanno) |
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[845] | 302 | */ |
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[824] | 303 | int nrow(int scanno=-1) const; |
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[794] | 304 | |
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[1111] | 305 | int getBeam(int whichrow) const; |
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[1694] | 306 | std::vector<uint> getBeamNos() const { return getNumbers(beamCol_); } |
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[50] | 307 | |
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[847] | 308 | int getIF(int whichrow) const; |
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[1694] | 309 | std::vector<uint> getIFNos() const { return getNumbers(ifCol_); } |
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[1111] | 310 | |
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[847] | 311 | int getPol(int whichrow) const; |
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[1694] | 312 | std::vector<uint> getPolNos() const { return getNumbers(polCol_); } |
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[1111] | 313 | |
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[1694] | 314 | std::vector<uint> getScanNos() const { return getNumbers(scanCol_); } |
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[865] | 315 | int getScan(int whichrow) const { return scanCol_(whichrow); } |
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[1111] | 316 | |
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[1819] | 317 | //TT addition |
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| 318 | std::vector<uint> getMolNos() {return getNumbers(mmolidCol_); } |
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| 319 | |
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[1111] | 320 | /** |
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| 321 | * Get the number of channels in the data or a specific IF. This currently |
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| 322 | * varies only with IF number |
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| 323 | * @param ifno the IF number to get the number of channels for. |
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| 324 | * If ifno<0 the number is retrieved from the header. |
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| 325 | * @return an integer number |
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| 326 | */ |
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| 327 | int nchan(int ifno=-1) const; |
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[923] | 328 | int getChannels(int whichrow) const; |
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[206] | 329 | |
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[1111] | 330 | int ncycle(int scanno=-1) const; |
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| 331 | int getCycle(int whichrow) const { return cycleCol_(whichrow); } |
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| 332 | |
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[847] | 333 | double getInterval(int whichrow) const |
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| 334 | { return integrCol_(whichrow); } |
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[845] | 335 | |
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[865] | 336 | float getTsys(int whichrow) const |
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| 337 | { return casa::Vector<casa::Float>(tsysCol_(whichrow))(0); } |
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[2161] | 338 | std::vector<float> getTsysSpectrum(int whichrow) const ; |
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[847] | 339 | float getElevation(int whichrow) const |
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| 340 | { return elCol_(whichrow); } |
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| 341 | float getAzimuth(int whichrow) const |
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| 342 | { return azCol_(whichrow); } |
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[865] | 343 | float getParAngle(int whichrow) const |
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[1819] | 344 | { return focus().getParAngle(mfocusidCol_(whichrow)); } |
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| 345 | int getTcalId(int whichrow) const |
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| 346 | { return mtcalidCol_(whichrow); } |
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[386] | 347 | |
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[865] | 348 | std::string getSourceName(int whichrow) const |
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| 349 | { return srcnCol_(whichrow); } |
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| 350 | |
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[847] | 351 | std::vector<bool> getMask(int whichrow) const; |
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[896] | 352 | std::vector<float> getSpectrum(int whichrow, |
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[905] | 353 | const std::string& poltype = "" ) const; |
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[847] | 354 | |
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[884] | 355 | void setSpectrum(const std::vector<float>& spec, int whichrow); |
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| 356 | |
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[902] | 357 | std::string getPolarizationLabel(int index, const std::string& ptype) const |
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| 358 | { return STPol::getPolLabel(index, ptype ); } |
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[401] | 359 | |
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[845] | 360 | /** |
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| 361 | * Write the Scantable to disk |
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| 362 | * @param filename the output file name |
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| 363 | */ |
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[824] | 364 | void makePersistent(const std::string& filename); |
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[745] | 365 | |
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[860] | 366 | std::vector<std::string> getHistory() const |
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| 367 | { return historyTable_.getHistory(); }; |
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[483] | 368 | |
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[860] | 369 | void addHistory(const std::string& hist) { historyTable_.addEntry(hist); } |
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[488] | 370 | |
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[860] | 371 | void appendToHistoryTable(const STHistory& otherhist) |
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| 372 | { historyTable_.append(otherhist); } |
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| 373 | |
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[2163] | 374 | std::string headerSummary(); |
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| 375 | std::string summary(); |
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[1947] | 376 | //std::string getTime(int whichrow=-1, bool showdate=true) const; |
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| 377 | std::string getTime(int whichrow=-1, bool showdate=true, casa::uInt prec=0) const; |
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[1350] | 378 | double getIntTime(int whichrow) const { return integrCol_(whichrow); } |
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[19] | 379 | |
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[847] | 380 | // returns unit, conversion frame, doppler, base-frame |
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[18] | 381 | |
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[847] | 382 | /** |
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| 383 | * Get the frequency set up |
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| 384 | * This is forwarded to the STFrequencies subtable |
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| 385 | * @return unit, frame, doppler |
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| 386 | */ |
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| 387 | std::vector<std::string> getCoordInfo() const |
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| 388 | { return freqTable_.getInfo(); }; |
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| 389 | |
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| 390 | void setCoordInfo(std::vector<string> theinfo) |
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| 391 | { return freqTable_.setInfo(theinfo); }; |
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| 392 | |
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[865] | 393 | |
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| 394 | std::vector<double> getAbcissa(int whichrow) const; |
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| 395 | |
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[1730] | 396 | std::vector<float> getWeather(int whichrow) const; |
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| 397 | |
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[847] | 398 | std::string getAbcissaLabel(int whichrow) const; |
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| 399 | std::vector<double> getRestFrequencies() const |
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| 400 | { return moleculeTable_.getRestFrequencies(); } |
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[1819] | 401 | std::vector<double> getRestFrequency(int id) const |
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| 402 | { return moleculeTable_.getRestFrequency(id); } |
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[847] | 403 | |
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[1819] | 404 | /** |
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[1170] | 405 | void setRestFrequencies(double rf, const std::string& name = "", |
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| 406 | const std::string& = "Hz"); |
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[1819] | 407 | **/ |
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| 408 | // Modified by Takeshi Nakazato 05/09/2008 |
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| 409 | /*** |
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| 410 | void setRestFrequencies(vector<double> rf, const vector<std::string>& name = "", |
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| 411 | const std::string& = "Hz"); |
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| 412 | ***/ |
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| 413 | void setRestFrequencies(vector<double> rf, |
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| 414 | const vector<std::string>& name = vector<std::string>(1,""), |
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| 415 | const std::string& = "Hz"); |
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[847] | 416 | |
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[1819] | 417 | //void setRestFrequencies(const std::string& name); |
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| 418 | void setRestFrequencies(const vector<std::string>& name); |
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| 419 | |
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[1360] | 420 | void shift(int npix); |
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| 421 | |
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[1598] | 422 | casa::SpectralCoordinate getSpectralCoordinate(int whichrow) const; |
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| 423 | |
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[987] | 424 | void convertDirection(const std::string& newframe); |
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| 425 | |
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[824] | 426 | STFrequencies& frequencies() { return freqTable_; } |
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[1375] | 427 | const STFrequencies& frequencies() const { return freqTable_; } |
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[824] | 428 | STWeather& weather() { return weatherTable_; } |
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[1375] | 429 | const STWeather& weather() const { return weatherTable_; } |
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[824] | 430 | STFocus& focus() { return focusTable_; } |
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[1375] | 431 | const STFocus& focus() const { return focusTable_; } |
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[824] | 432 | STTcal& tcal() { return tcalTable_; } |
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[1375] | 433 | const STTcal& tcal() const { return tcalTable_; } |
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[824] | 434 | STMolecules& molecules() { return moleculeTable_; } |
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[1375] | 435 | const STMolecules& molecules() const { return moleculeTable_; } |
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[860] | 436 | STHistory& history() { return historyTable_; } |
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[1375] | 437 | const STHistory& history() const { return historyTable_; } |
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[972] | 438 | STFit& fit() { return fitTable_; } |
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[1375] | 439 | const STFit& fit() const { return fitTable_; } |
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[2] | 440 | |
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[902] | 441 | std::vector<std::string> columnNames() const; |
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[896] | 442 | |
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[972] | 443 | void addFit(const STFitEntry& fit, int row); |
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| 444 | STFitEntry getFit(int row) const |
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| 445 | { STFitEntry fe; fitTable_.getEntry(fe, mfitidCol_(row)); return fe; } |
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| 446 | |
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[1391] | 447 | //Added by TT |
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| 448 | /** |
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| 449 | * Get the antenna name |
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| 450 | * @return antenna name string |
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| 451 | */ |
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[1819] | 452 | casa::String getAntennaName() const; |
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[1391] | 453 | |
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| 454 | /** |
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| 455 | * For GBT MS data only. check a scan list |
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| 456 | * against the information found in GBT_GO table for |
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| 457 | * scan number orders to get correct pairs. |
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| 458 | * @param[in] scan list |
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| 459 | * @return status |
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| 460 | */ |
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| 461 | int checkScanInfo(const std::vector<int>& scanlist) const; |
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| 462 | |
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| 463 | /** |
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| 464 | * Get the direction as a vector, for a specific row |
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| 465 | * @param[in] whichrow the row numbyyer |
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| 466 | * @return the direction in a vector |
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| 467 | */ |
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| 468 | std::vector<double> getDirectionVector(int whichrow) const; |
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| 469 | |
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[1586] | 470 | /** |
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| 471 | * Set a flag indicating whether the data was parallactified |
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| 472 | * @param[in] flag true or false |
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| 473 | */ |
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[1598] | 474 | void parallactify(bool flag) |
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[1727] | 475 | { focus().setParallactify(flag); } |
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| 476 | |
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[1819] | 477 | /** |
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| 478 | * Reshape spectrum |
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| 479 | * @param[in] nmin, nmax minimum and maximum channel |
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| 480 | * @param[in] irow row number |
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| 481 | * |
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| 482 | * 30/07/2008 Takeshi Nakazato |
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| 483 | **/ |
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| 484 | void reshapeSpectrum( int nmin, int nmax ) throw( casa::AipsError ); |
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| 485 | void reshapeSpectrum( int nmin, int nmax, int irow ) ; |
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| 486 | |
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| 487 | /** |
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| 488 | * Change channel number under fixed bandwidth |
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| 489 | * @param[in] nchan, dnu new channel number and spectral resolution |
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| 490 | * @param[in] irow row number |
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| 491 | * |
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| 492 | * 27/08/2008 Takeshi Nakazato |
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| 493 | **/ |
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| 494 | void regridChannel( int nchan, double dnu ) ; |
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| 495 | void regridChannel( int nchan, double dnu, int irow ) ; |
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| 496 | |
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[2047] | 497 | bool getFlagtraFast(casa::uInt whichrow); |
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[1819] | 498 | |
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[2012] | 499 | void polyBaseline(const std::vector<bool>& mask, |
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| 500 | int order, |
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[2094] | 501 | bool getResidual=true, |
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[2012] | 502 | bool outLogger=false, |
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| 503 | const std::string& blfile=""); |
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| 504 | void autoPolyBaseline(const std::vector<bool>& mask, |
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| 505 | int order, |
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| 506 | const std::vector<int>& edge, |
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| 507 | float threshold=3.0, |
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| 508 | int chanAvgLimit=1, |
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[2094] | 509 | bool getResidual=true, |
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[2012] | 510 | bool outLogger=false, |
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| 511 | const std::string& blfile=""); |
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| 512 | void cubicSplineBaseline(const std::vector<bool>& mask, |
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| 513 | int nPiece, |
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| 514 | float thresClip, |
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| 515 | int nIterClip, |
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[2094] | 516 | bool getResidual=true, |
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[2012] | 517 | bool outLogger=false, |
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| 518 | const std::string& blfile=""); |
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| 519 | void autoCubicSplineBaseline(const std::vector<bool>& mask, |
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| 520 | int nPiece, |
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| 521 | float thresClip, |
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| 522 | int nIterClip, |
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| 523 | const std::vector<int>& edge, |
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| 524 | float threshold=3.0, |
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| 525 | int chanAvgLimit=1, |
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[2094] | 526 | bool getResidual=true, |
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[2012] | 527 | bool outLogger=false, |
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| 528 | const std::string& blfile=""); |
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[2047] | 529 | void sinusoidBaseline(const std::vector<bool>& mask, |
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[2081] | 530 | const std::vector<int>& nWaves, |
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| 531 | float maxWaveLength, |
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[2047] | 532 | float thresClip, |
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| 533 | int nIterClip, |
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[2081] | 534 | bool getResidual=true, |
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[2047] | 535 | bool outLogger=false, |
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| 536 | const std::string& blfile=""); |
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| 537 | void autoSinusoidBaseline(const std::vector<bool>& mask, |
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[2081] | 538 | const std::vector<int>& nWaves, |
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| 539 | float maxWaveLength, |
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[2047] | 540 | float thresClip, |
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| 541 | int nIterClip, |
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| 542 | const std::vector<int>& edge, |
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| 543 | float threshold=3.0, |
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| 544 | int chanAvgLimit=1, |
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[2081] | 545 | bool getResidual=true, |
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[2047] | 546 | bool outLogger=false, |
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| 547 | const std::string& blfile=""); |
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[2012] | 548 | float getRms(const std::vector<bool>& mask, int whichrow); |
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| 549 | std::string formatBaselineParams(const std::vector<float>& params, |
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| 550 | const std::vector<bool>& fixed, |
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| 551 | float rms, |
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| 552 | const std::string& masklist, |
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| 553 | int whichrow, |
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[2064] | 554 | bool verbose=false, |
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| 555 | int start=-1, |
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| 556 | int count=-1, |
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| 557 | bool resetparamid=false) const; |
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[2012] | 558 | std::string formatPiecewiseBaselineParams(const std::vector<int>& ranges, |
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| 559 | const std::vector<float>& params, |
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| 560 | const std::vector<bool>& fixed, |
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| 561 | float rms, |
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| 562 | const std::string& masklist, |
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| 563 | int whichrow, |
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| 564 | bool verbose=false) const; |
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[1907] | 565 | |
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[2012] | 566 | |
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[824] | 567 | private: |
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[896] | 568 | |
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| 569 | casa::Matrix<casa::Float> getPolMatrix( casa::uInt whichrow ) const; |
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| 570 | |
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[824] | 571 | /** |
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[2005] | 572 | * Turns a time value into a formatted string |
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[824] | 573 | * @param x |
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| 574 | * @return |
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| 575 | */ |
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| 576 | std::string formatSec(casa::Double x) const; |
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[18] | 577 | |
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[824] | 578 | std::string formatTime(const casa::MEpoch& me, bool showdate)const; |
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[1947] | 579 | std::string formatTime(const casa::MEpoch& me, bool showdate, casa::uInt prec)const; |
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[22] | 580 | |
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[824] | 581 | /** |
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| 582 | * Turns a casa::MDirection into a nicely formatted string |
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| 583 | * @param md an casa::MDirection |
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| 584 | * @return |
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| 585 | */ |
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| 586 | std::string formatDirection(const casa::MDirection& md) const; |
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[19] | 587 | |
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[824] | 588 | /** |
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| 589 | * Create a unique file name for the paged (temporary) table |
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| 590 | * @return just the name |
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| 591 | */ |
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| 592 | static casa::String generateName(); |
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[286] | 593 | |
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[824] | 594 | /** |
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| 595 | * attach to cached columns |
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| 596 | */ |
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| 597 | void attach(); |
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[50] | 598 | |
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[824] | 599 | /** |
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| 600 | * Set up the main casa::Table |
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| 601 | */ |
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| 602 | void setupMainTable(); |
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[88] | 603 | |
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[859] | 604 | void attachSubtables(); |
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[865] | 605 | void copySubtables(const Scantable& other); |
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| 606 | |
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[824] | 607 | /** |
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| 608 | * Convert an "old" asap1 style row index into a new index |
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| 609 | * @param[in] therow |
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| 610 | * @return and index into @table_ |
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| 611 | */ |
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| 612 | int rowToScanIndex(int therow); |
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[212] | 613 | |
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[1694] | 614 | std::vector<uint> getNumbers(const casa::ScalarColumn<casa::uInt>& col) const; |
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[1111] | 615 | |
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[1586] | 616 | static const casa::uInt version_ = 3; |
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[286] | 617 | |
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[824] | 618 | STSelector selector_; |
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[236] | 619 | |
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[824] | 620 | casa::Table::TableType type_; |
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[465] | 621 | |
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[824] | 622 | // the actual data |
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| 623 | casa::Table table_; |
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| 624 | casa::Table originalTable_; |
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[745] | 625 | |
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[824] | 626 | STTcal tcalTable_; |
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| 627 | STFrequencies freqTable_; |
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| 628 | STWeather weatherTable_; |
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| 629 | STFocus focusTable_; |
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| 630 | STMolecules moleculeTable_; |
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[860] | 631 | STHistory historyTable_; |
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[960] | 632 | STFit fitTable_; |
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[860] | 633 | |
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[824] | 634 | // Cached Columns to avoid reconstructing them for each row get/put |
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[847] | 635 | casa::ScalarColumn<casa::Double> integrCol_; |
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[824] | 636 | casa::MDirection::ScalarColumn dirCol_; |
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[847] | 637 | casa::MEpoch::ScalarColumn timeCol_; |
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[923] | 638 | casa::ScalarColumn<casa::Float> azCol_; |
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| 639 | casa::ScalarColumn<casa::Float> elCol_; |
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[824] | 640 | casa::ScalarColumn<casa::String> srcnCol_, fldnCol_; |
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[1819] | 641 | casa::ScalarColumn<casa::uInt> scanCol_, beamCol_, ifCol_, polCol_, cycleCol_, flagrowCol_; |
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[1068] | 642 | casa::ScalarColumn<casa::Int> rbeamCol_, srctCol_; |
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[865] | 643 | casa::ArrayColumn<casa::Float> specCol_, tsysCol_; |
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[824] | 644 | casa::ArrayColumn<casa::uChar> flagsCol_; |
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[430] | 645 | |
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[824] | 646 | // id in frequencies table |
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| 647 | casa::ScalarColumn<casa::uInt> mfreqidCol_; |
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| 648 | // id in tcal table |
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| 649 | casa::ScalarColumn<casa::uInt> mtcalidCol_; |
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[430] | 650 | |
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[824] | 651 | casa::ArrayColumn<casa::String> histitemCol_; |
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[972] | 652 | casa::ScalarColumn<casa::Int> mfitidCol_; |
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[824] | 653 | casa::ScalarColumn<casa::uInt> mweatheridCol_; |
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[322] | 654 | |
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[824] | 655 | casa::ScalarColumn<casa::uInt> mfocusidCol_; |
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| 656 | |
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| 657 | casa::ScalarColumn<casa::uInt> mmolidCol_; |
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| 658 | |
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[896] | 659 | static std::map<std::string, STPol::STPolFactory *> factories_; |
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| 660 | void initFactories(); |
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| 661 | |
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[1819] | 662 | /** |
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| 663 | * Add an auxiliary column to the main table and attach it to a |
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| 664 | * cached column. Use for adding new columns that the original asap2 |
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| 665 | * tables do not have. |
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| 666 | * @param[in] col reference to the cached column to be attached |
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| 667 | * @param[in] colName column name in asap table |
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| 668 | * @param[in] defValue default value to fill in the column |
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| 669 | * |
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| 670 | * 25/10/2009 Wataru Kawasaki |
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| 671 | */ |
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| 672 | template<class T, class T2> void attachAuxColumnDef(casa::ScalarColumn<T>&, |
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| 673 | const casa::String&, |
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| 674 | const T2&); |
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| 675 | template<class T, class T2> void attachAuxColumnDef(casa::ArrayColumn<T>&, |
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| 676 | const casa::String&, |
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| 677 | const casa::Array<T2>&); |
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[1907] | 678 | |
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[2012] | 679 | void fitBaseline(const std::vector<bool>& mask, int whichrow, Fitter& fitter); |
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| 680 | std::vector<float> doCubicSplineFitting(const std::vector<float>& data, |
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| 681 | const std::vector<bool>& mask, |
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[2081] | 682 | int nPiece, |
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[2064] | 683 | std::vector<int>& idxEdge, |
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[2012] | 684 | std::vector<float>& params, |
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| 685 | float thresClip=3.0, |
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[2058] | 686 | int nIterClip=1, |
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[2094] | 687 | bool getResidual=true); |
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[2047] | 688 | std::vector<float> doSinusoidFitting(const std::vector<float>& data, |
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| 689 | const std::vector<bool>& mask, |
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[2081] | 690 | const std::vector<int>& waveNumbers, |
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| 691 | float maxWaveLength, |
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[2047] | 692 | std::vector<float>& params, |
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| 693 | float thresClip=3.0, |
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[2058] | 694 | int nIterClip=1, |
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[2094] | 695 | bool getResidual=true); |
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[2012] | 696 | bool hasSameNchanOverIFs(); |
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| 697 | std::string getMaskRangeList(const std::vector<bool>& mask, |
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| 698 | int whichrow, |
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| 699 | const casa::String& coordInfo, |
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[2047] | 700 | bool hasSameNchan, |
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| 701 | bool verbose=false); |
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| 702 | std::vector<int> getMaskEdgeIndices(const std::vector<bool>& mask); |
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[2012] | 703 | std::string formatBaselineParamsHeader(int whichrow, const std::string& masklist, bool verbose) const; |
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| 704 | std::string formatBaselineParamsFooter(float rms, bool verbose) const; |
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| 705 | std::vector<bool> getCompositeChanMask(int whichrow, const std::vector<bool>& inMask); |
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| 706 | //std::vector<bool> getCompositeChanMask(int whichrow, const std::vector<bool>& inMask, const std::vector<int>& edge, const int minEdgeSize, STLineFinder& lineFinder); |
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[2047] | 707 | void outputFittingResult(bool outLogger, bool outTextFile, const std::vector<bool>& chanMask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, std::ofstream& ofs, const casa::String& funcName, Fitter& fitter); |
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[2081] | 708 | void outputFittingResult(bool outLogger, bool outTextFile, 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); |
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| 709 | void outputFittingResult(bool outLogger, bool outTextFile, 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); |
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[1994] | 710 | |
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| 711 | void applyChanFlag( casa::uInt whichrow, const std::vector<bool>& msk, casa::uChar flagval); |
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| 712 | |
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| 713 | |
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[2] | 714 | }; |
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| 715 | |
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[824] | 716 | } // namespace |
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| 717 | |
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[2] | 718 | #endif |
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