[847] | 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) 2006 |
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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 ASAPSCANTABLEWRAPPER_H |
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| 13 | #define ASAPSCANTABLEWRAPPER_H |
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[2] | 14 | |
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[3085] | 15 | #include "GILHandler.h" |
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| 16 | #include "MathUtils.h" |
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| 17 | #include "Scantable.h" |
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| 18 | #include "STCoordinate.h" |
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| 19 | #include "STFit.h" |
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| 20 | #include "STFitEntry.h" |
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| 21 | |
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[2587] | 22 | #include <iostream> |
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| 23 | #include <string> |
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[2] | 24 | #include <vector> |
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[2587] | 25 | |
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[380] | 26 | #include <casa/Arrays/Vector.h> |
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[2] | 27 | |
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[83] | 28 | namespace asap { |
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[847] | 29 | /** |
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| 30 | * This class contains and wraps a CountedPtr<Scantable>, as the CountedPtr |
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| 31 | * class does not provide the dor operator which is need for references |
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| 32 | * in boost::python |
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| 33 | * see Scantable for interfce description |
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| 34 | * |
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| 35 | * @brief The main ASAP data container wrapper |
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| 36 | * @author Malte Marquarding |
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| 37 | * @date 2006-02-23 |
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| 38 | * @version 2.0a |
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| 39 | */ |
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| 40 | class ScantableWrapper { |
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[2] | 41 | |
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| 42 | public: |
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[1385] | 43 | explicit ScantableWrapper( const std::string& name, |
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[1077] | 44 | int type=0) |
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[864] | 45 | { |
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[3052] | 46 | GILHandler scopedRelease; |
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[3106] | 47 | casacore::Table::TableType tp = casacore::Table::Memory; |
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| 48 | if ( type == 1 ) tp = casacore::Table::Plain; |
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[864] | 49 | table_ = new Scantable(name, tp); |
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| 50 | } |
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[90] | 51 | |
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[1350] | 52 | explicit ScantableWrapper(int type=0) |
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[864] | 53 | { |
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[3052] | 54 | GILHandler scopedRelease; |
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[3106] | 55 | casacore::Table::TableType tp = casacore::Table::Memory; |
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| 56 | if ( type == 1) tp = casacore::Table::Plain; |
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[864] | 57 | table_= new Scantable(tp); |
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| 58 | } |
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[90] | 59 | |
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[3106] | 60 | explicit ScantableWrapper(casacore::CountedPtr<Scantable> cp) : table_(cp) {;} |
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[90] | 61 | |
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[847] | 62 | ScantableWrapper(const ScantableWrapper& mt) : |
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| 63 | table_(mt.getCP()) {;} |
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[90] | 64 | |
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[2587] | 65 | ~ScantableWrapper() |
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| 66 | { |
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[3052] | 67 | GILHandler scopedRelease; |
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| 68 | table_.reset(); |
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[2587] | 69 | } |
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| 70 | |
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[868] | 71 | void assign(const ScantableWrapper& mt) |
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| 72 | { table_= mt.getCP(); } |
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| 73 | |
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[847] | 74 | ScantableWrapper copy() { |
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[3052] | 75 | GILHandler scopedRelease; |
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[847] | 76 | return ScantableWrapper(new Scantable(*(this->getCP()), false)); |
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[80] | 77 | } |
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[868] | 78 | |
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[896] | 79 | std::vector<float> getSpectrum( int whichrow=0, |
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[905] | 80 | const std::string& poltype="" ) const { |
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[896] | 81 | return table_->getSpectrum(whichrow, poltype); |
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[2] | 82 | } |
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[527] | 83 | // std::string getPolarizationLabel(bool linear, bool stokes, bool linPol, int polIdx) const { |
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| 84 | // Boost fails with 4 arguments. |
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[902] | 85 | std::string getPolarizationLabel(int index, const std::string& ptype) const { |
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| 86 | return table_->getPolarizationLabel(index, ptype); |
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[494] | 87 | } |
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[527] | 88 | |
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[896] | 89 | std::vector<double> getAbcissa(int whichrow=0) const |
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| 90 | { return table_->getAbcissa(whichrow); } |
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[41] | 91 | |
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[896] | 92 | std::string getAbcissaLabel(int whichrow=0) const |
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| 93 | { return table_->getAbcissaLabel(whichrow); } |
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[157] | 94 | |
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[896] | 95 | float getTsys(int whichrow=0) const |
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| 96 | { return table_->getTsys(whichrow); } |
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[2] | 97 | |
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[2161] | 98 | std::vector<float> getTsysSpectrum(int whichrow=0) const |
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| 99 | { return table_->getTsysSpectrum(whichrow); } |
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| 100 | |
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[2791] | 101 | void setTsys(const std::vector<float>& newvals, int whichrow=-1) |
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| 102 | { return table_->setTsys(newvals, whichrow); } |
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| 103 | |
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[1947] | 104 | //std::string getTime(int whichrow=0) const |
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| 105 | // { return table_->getTime(whichrow); } |
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| 106 | std::string getTime(int whichrow=0, int prec = 0) const |
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[3106] | 107 | { return table_->getTime(whichrow, true, casacore::uInt(prec)); } |
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[207] | 108 | |
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[1350] | 109 | double getIntTime(int whichrow=0) const |
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| 110 | { return table_->getIntTime(whichrow); } |
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| 111 | |
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[1068] | 112 | std::string getDirectionString(int whichrow=0) const |
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| 113 | { return table_->getDirectionString(whichrow); } |
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| 114 | |
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[864] | 115 | std::string getFluxUnit() const { return table_->getFluxUnit(); } |
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| 116 | |
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| 117 | void setFluxUnit(const std::string& unit) { table_->setFluxUnit(unit); } |
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| 118 | |
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[238] | 119 | void setInstrument(const std::string& name) {table_->setInstrument(name);} |
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[1189] | 120 | void setFeedType(const std::string& ftype) {table_->setFeedType(ftype);} |
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[238] | 121 | |
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[896] | 122 | std::vector<bool> getMask(int whichrow=0) const |
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| 123 | { return table_->getMask(whichrow); } |
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[2] | 124 | |
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[1430] | 125 | /** |
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[1000] | 126 | void flag(const std::vector<bool>& msk=std::vector<bool>()) |
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| 127 | { table_->flag(msk); } |
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[1430] | 128 | **/ |
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[1994] | 129 | /** |
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[1430] | 130 | void flag(const std::vector<bool>& msk=std::vector<bool>(), bool unflag=false) |
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| 131 | { table_->flag(msk, unflag); } |
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[1994] | 132 | **/ |
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| 133 | void flag(int whichrow=-1, const std::vector<bool>& msk=std::vector<bool>(), bool unflag=false) |
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| 134 | { table_->flag(whichrow, msk, unflag); } |
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[2] | 135 | |
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[3106] | 136 | void flagRow(const std::vector<casacore::uInt>& rows=std::vector<casacore::uInt>(), bool unflag=false) |
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[1819] | 137 | { table_->flagRow(rows, unflag); } |
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| 138 | |
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| 139 | bool getFlagRow(int whichrow=0) const |
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| 140 | { return table_->getFlagRow(whichrow); } |
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| 141 | |
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[3106] | 142 | void clip(const casacore::Float uthres, const casacore::Float dthres, bool clipoutside=true, bool unflag=false) |
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[1819] | 143 | { table_->clip(uthres, dthres, clipoutside, unflag); } |
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| 144 | |
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[3106] | 145 | std::vector<bool> getClipMask(int whichrow, const casacore::Float uthres, const casacore::Float dthres, bool clipoutside, bool unflag) const |
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[1819] | 146 | { return table_->getClipMask(whichrow, uthres, dthres, clipoutside, unflag); } |
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| 147 | |
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[896] | 148 | std::string getSourceName(int whichrow=0) const |
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| 149 | { return table_->getSourceName(whichrow); } |
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[794] | 150 | |
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[896] | 151 | float getElevation(int whichrow=0) const |
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| 152 | { return table_->getElevation(whichrow); } |
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[90] | 153 | |
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[896] | 154 | float getAzimuth(int whichrow=0) const |
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| 155 | { return table_->getAzimuth(whichrow); } |
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[2] | 156 | |
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[896] | 157 | float getParAngle(int whichrow=0) const |
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| 158 | { return table_->getParAngle(whichrow); } |
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[2] | 159 | |
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[864] | 160 | |
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[884] | 161 | void setSpectrum(std::vector<float> spectrum, int whichrow=0) |
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| 162 | { table_->setSpectrum(spectrum, whichrow); } |
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[868] | 163 | |
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[1111] | 164 | std::vector<uint> getIFNos() { return table_->getIFNos(); } |
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[864] | 165 | int getIF(int whichrow) const {return table_->getIF(whichrow);} |
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[1111] | 166 | std::vector<uint> getBeamNos() { return table_->getBeamNos(); } |
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[864] | 167 | int getBeam(int whichrow) const {return table_->getBeam(whichrow);} |
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[1111] | 168 | std::vector<uint> getPolNos() { return table_->getPolNos(); } |
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[864] | 169 | int getPol(int whichrow) const {return table_->getPol(whichrow);} |
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[2667] | 170 | std::vector<uint> getCycleNos() { return table_->getCycleNos(); } |
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[868] | 171 | int getCycle(int whichrow) const {return table_->getCycle(whichrow);} |
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[1111] | 172 | std::vector<uint> getScanNos() { return table_->getScanNos(); } |
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[868] | 173 | int getScan(int whichrow) const {return table_->getScan(whichrow);} |
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[1819] | 174 | std::vector<uint> getMolNos() { return table_->getMolNos();} |
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[864] | 175 | |
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| 176 | STSelector getSelection() const { return table_->getSelection(); } |
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[868] | 177 | void setSelection(const STSelector& sts) |
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| 178 | { return table_->setSelection(sts);} |
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[864] | 179 | |
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[896] | 180 | std::string getPolType() const { return table_->getPolType(); } |
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| 181 | |
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[864] | 182 | int nif(int scanno=-1) const {return table_->nif(scanno);} |
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| 183 | int nbeam(int scanno=-1) const {return table_->nbeam(scanno);} |
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| 184 | int npol(int scanno=-1) const {return table_->npol(scanno);} |
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| 185 | int nchan(int ifno=-1) const {return table_->nchan(ifno);} |
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| 186 | int nscan() const {return table_->nscan();} |
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| 187 | int nrow() const {return table_->nrow();} |
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[902] | 188 | int ncycle(int scanno) const {return table_->ncycle(scanno);} |
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[2] | 189 | |
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[864] | 190 | void makePersistent(const std::string& fname) |
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[3052] | 191 | { |
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| 192 | GILHandler scopedRelease; |
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| 193 | table_->makePersistent(fname); |
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| 194 | } |
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[90] | 195 | |
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[1068] | 196 | void setSourceType(int stype) |
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| 197 | { table_->setSourceType(stype); } |
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| 198 | |
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[2818] | 199 | void setSourceName(const std::string& name) |
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| 200 | { table_->setSourceName(name); } |
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| 201 | |
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[1360] | 202 | void shift(int npix) |
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| 203 | { table_->shift(npix); } |
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| 204 | |
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[1819] | 205 | /** |
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| 206 | commented out by TT |
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[1170] | 207 | void setRestFrequencies(double rf, const std::string& name, |
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| 208 | const std::string& unit) |
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| 209 | { table_->setRestFrequencies(rf, name, unit); } |
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[1819] | 210 | **/ |
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| 211 | void setRestFrequencies(vector<double> rf, const vector<std::string>& name, |
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| 212 | const std::string& unit) |
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| 213 | { table_->setRestFrequencies(rf, name, unit); } |
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| 214 | |
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[925] | 215 | /* |
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[868] | 216 | void setRestFrequencies(const std::string& name) { |
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| 217 | table_->setRestFrequencies(name); |
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[847] | 218 | } |
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[925] | 219 | */ |
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[745] | 220 | |
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[1819] | 221 | /* |
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[864] | 222 | std::vector<double> getRestFrequencies() const |
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| 223 | { return table_->getRestFrequencies(); } |
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[1819] | 224 | */ |
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| 225 | std::vector<double> getRestFrequency(int id) const |
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| 226 | { return table_->getRestFrequency(id); } |
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[251] | 227 | |
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[105] | 228 | void setCoordInfo(std::vector<string> theinfo) { |
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| 229 | table_->setCoordInfo(theinfo); |
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| 230 | } |
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| 231 | std::vector<string> getCoordInfo() const { |
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| 232 | return table_->getCoordInfo(); |
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| 233 | } |
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[90] | 234 | |
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[987] | 235 | void setDirection(const std::string& refstr="") |
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| 236 | { table_->setDirectionRefString(refstr); } |
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| 237 | |
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[3106] | 238 | casacore::CountedPtr<Scantable> getCP() const {return table_;} |
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[847] | 239 | Scantable* getPtr() {return &(*table_);} |
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[380] | 240 | |
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[2286] | 241 | // std::string summary() const { |
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| 242 | // return table_->summary(); |
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| 243 | // } |
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| 244 | void summary(const std::string& filename="") { |
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[2290] | 245 | //std::string summary(const std::string& filename="") const { |
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| 246 | table_->summary(filename); |
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[380] | 247 | } |
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[745] | 248 | |
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[2178] | 249 | std::string listHeader() const { |
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[2163] | 250 | return table_->headerSummary(); |
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[2111] | 251 | } |
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| 252 | |
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[2820] | 253 | std::vector<std::string> getHistory(int nrow=-1, int start=0) const |
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| 254 | { return table_->getHistory(nrow, start); } |
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[207] | 255 | |
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[2820] | 256 | uint historyLength() { |
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| 257 | return table_->historyLength(); |
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| 258 | } |
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| 259 | |
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| 260 | void dropHistory() { table_->dropHistory(); } |
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| 261 | |
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[864] | 262 | void addHistory(const std::string& hist) |
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| 263 | { table_->addHistory(hist); } |
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[745] | 264 | |
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[972] | 265 | void addFit(const STFitEntry& fit, int row) |
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| 266 | { table_->addFit(fit, row); } |
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| 267 | |
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| 268 | STFitEntry getFit(int whichrow) const |
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| 269 | { return table_->getFit(whichrow); } |
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| 270 | |
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[2012] | 271 | void calculateAZEL() { table_->calculateAZEL(); } |
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[465] | 272 | |
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[1003] | 273 | std::vector<std::string> columnNames() const |
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| 274 | { return table_->columnNames(); } |
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| 275 | |
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[1391] | 276 | std::string getAntennaName() const |
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| 277 | { return table_->getAntennaName(); } |
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| 278 | |
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| 279 | int checkScanInfo(const vector<int>& scanlist) const |
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| 280 | { return table_->checkScanInfo(scanlist); } |
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[1819] | 281 | |
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[1730] | 282 | std::vector<double> getDirectionVector(int whichrow) const |
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[1391] | 283 | { return table_->getDirectionVector(whichrow); } |
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| 284 | |
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[1586] | 285 | void parallactify(bool flag) |
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| 286 | { table_->parallactify(flag); } |
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| 287 | |
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[1598] | 288 | STCoordinate getCoordinate(int row) { |
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| 289 | return STCoordinate(table_->getSpectralCoordinate(row)); |
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| 290 | } |
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| 291 | |
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[1730] | 292 | std::vector<float> getWeather(int whichrow) const |
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| 293 | { return table_->getWeather(whichrow); } |
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| 294 | |
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[1819] | 295 | void reshapeSpectrum( int nmin, int nmax ) |
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| 296 | { table_->reshapeSpectrum( nmin, nmax ); } |
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| 297 | |
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[2435] | 298 | void regridSpecChannel( double dnu, int nchan ) |
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| 299 | { table_->regridSpecChannel( dnu, nchan ); } |
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| 300 | |
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[2811] | 301 | std::vector<std::string> applyBaselineTable(const std::string& bltable, const bool returnfitresult, const std::string& outbltable, const bool outbltableexists, const bool overwrite) |
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[3046] | 302 | { |
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| 303 | GILHandler scopedRelease; |
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| 304 | return table_->applyBaselineTable(bltable, returnfitresult, outbltable, outbltableexists, overwrite); |
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| 305 | } |
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[2811] | 306 | std::vector<std::string> subBaseline(const std::vector<std::string>& blinfo, const bool returnfitresult, const std::string& outbltable, const bool outbltableexists, const bool overwrite) |
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[3046] | 307 | { |
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| 308 | GILHandler scopedRelease; |
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| 309 | return table_->subBaseline(blinfo, returnfitresult, outbltable, outbltableexists, overwrite); |
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| 310 | } |
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[2767] | 311 | void polyBaseline(const std::vector<bool>& mask, int order, float clipthresh, int clipniter, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="") |
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| 312 | { table_->polyBaseline(mask, order, clipthresh, clipniter, getresidual, showprogress, outlog, blfile, bltable); } |
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[1907] | 313 | |
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[2767] | 314 | void autoPolyBaseline(const std::vector<bool>& mask, int order, float clipthresh, int clipniter, const std::vector<int>& edge, float threshold=5.0, int chan_avg_limit=1, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="") |
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| 315 | { table_->autoPolyBaseline(mask, order, clipthresh, clipniter, edge, threshold, chan_avg_limit, getresidual, showprogress, outlog, blfile, bltable); } |
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[1907] | 316 | |
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[2767] | 317 | void chebyshevBaseline(const std::vector<bool>& mask, int order, float clipthresh, int clipniter, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="") |
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| 318 | { table_->chebyshevBaseline(mask, order, clipthresh, clipniter, getresidual, showprogress, outlog, blfile, bltable); } |
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[2645] | 319 | |
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[2767] | 320 | void autoChebyshevBaseline(const std::vector<bool>& mask, int order, float clipthresh, int clipniter, const std::vector<int>& edge, float threshold=5.0, int chan_avg_limit=1, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="") |
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| 321 | { table_->autoChebyshevBaseline(mask, order, clipthresh, clipniter, edge, threshold, chan_avg_limit, getresidual, showprogress, outlog, blfile, bltable); } |
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[2645] | 322 | |
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[2767] | 323 | void cubicSplineBaseline(const std::vector<bool>& mask, int npiece, float clipthresh, int clipniter, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="") |
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| 324 | { table_->cubicSplineBaseline(mask, npiece, clipthresh, clipniter, getresidual, showprogress, outlog, blfile, bltable); } |
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[2012] | 325 | |
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[2767] | 326 | void autoCubicSplineBaseline(const std::vector<bool>& mask, int npiece, float clipthresh, int clipniter, const std::vector<int>& edge, float threshold=5.0, int chan_avg_limit=1, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="") |
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| 327 | { table_->autoCubicSplineBaseline(mask, npiece, clipthresh, clipniter, edge, threshold, chan_avg_limit, getresidual, showprogress, outlog, blfile, bltable); } |
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[2012] | 328 | |
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[2767] | 329 | void sinusoidBaseline(const std::vector<bool>& mask, const std::string& fftinfo, const std::vector<int>& addwn, const std::vector<int>& rejwn, float clipthresh, int clipniter, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="") |
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| 330 | { table_->sinusoidBaseline(mask, fftinfo, addwn, rejwn, clipthresh, clipniter, getresidual, showprogress, outlog, blfile, bltable); } |
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[2047] | 331 | |
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[2767] | 332 | void autoSinusoidBaseline(const std::vector<bool>& mask, const std::string& fftinfo, const std::vector<int>& addwn, const std::vector<int>& rejwn, float clipthresh, int clipniter, const std::vector<int>& edge, float threshold=5.0, int chan_avg_limit=1, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="") |
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| 333 | { table_->autoSinusoidBaseline(mask, fftinfo, addwn, rejwn, clipthresh, clipniter, edge, threshold, chan_avg_limit, getresidual, showprogress, outlog, blfile, bltable); } |
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[2047] | 334 | |
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[2012] | 335 | float getRms(const std::vector<bool>& mask, int whichrow) |
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| 336 | { return table_->getRms(mask, whichrow); } |
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| 337 | |
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[2641] | 338 | std::string formatBaselineParams(const std::vector<float>& params, const std::vector<bool>& fixed, float rms, const std::string& masklist, int whichrow, bool verbose=false, bool csvformat=false) |
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| 339 | { return table_->formatBaselineParams(params, fixed, rms, -1, masklist, whichrow, verbose, csvformat); } |
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[2012] | 340 | |
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[2641] | 341 | std::string formatPiecewiseBaselineParams(const std::vector<int>& ranges, const std::vector<float>& params, const std::vector<bool>& fixed, float rms, const std::string& masklist, int whichrow, bool verbose=false, bool csvformat=false) |
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| 342 | { return table_->formatPiecewiseBaselineParams(ranges, params, fixed, rms, -1, masklist, whichrow, verbose, csvformat); } |
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[2012] | 343 | |
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[2831] | 344 | bool isAllChannelsFlagged(int whichrow=0) const |
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[3106] | 345 | { return table_->isAllChannelsFlagged(casacore::uInt(whichrow)); } |
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[1907] | 346 | |
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[2186] | 347 | std::vector<float> execFFT(int whichrow, const std::vector<bool>& mask, bool getRealImag=false, bool getAmplitudeOnly=false) |
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| 348 | { return table_->execFFT(whichrow, mask, getRealImag, getAmplitudeOnly); } |
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[1907] | 349 | |
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[2591] | 350 | std::vector<uint> getMoleculeIdColumnData() const |
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| 351 | { return table_->getMoleculeIdColumnData(); } |
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| 352 | void setMoleculeIdColumnData(const std::vector<uint>& molids) |
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| 353 | { table_->setMoleculeIdColumnData(molids); } |
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[2888] | 354 | |
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| 355 | std::vector<uint> getRootTableRowNumbers() const |
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| 356 | { return table_->getRootTableRowNumbers(); } |
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| 357 | |
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[2713] | 358 | double calculateModelSelectionCriteria(const std::string& valname, const std::string& blfunc, int order, const std::vector<bool>& inMask, int whichrow, bool useLineFinder, const std::vector<int>& edge, float threshold, int chanAvgLimit) |
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| 359 | { return table_->calculateModelSelectionCriteria(valname, blfunc, order, inMask, whichrow, useLineFinder, edge, threshold, chanAvgLimit); } |
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[2012] | 360 | |
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[2789] | 361 | void dropXPol() { table_->dropXPol(); } |
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| 362 | |
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[2] | 363 | private: |
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[3106] | 364 | casacore::CountedPtr<Scantable> table_; |
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[2] | 365 | }; |
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| 366 | |
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| 367 | } // namespace |
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| 368 | #endif |
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