[805] | 1 | // |
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| 2 | // C++ Interface: STMath |
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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 ASAPSTMATH_H |
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| 13 | #define ASAPSTMATH_H |
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[2] | 14 | |
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[2177] | 15 | #include <map> |
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[38] | 16 | #include <string> |
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[2952] | 17 | #include <iostream> |
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[805] | 18 | |
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[130] | 19 | #include <casa/aips.h> |
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[2177] | 20 | #include <casa/Arrays/Vector.h> |
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| 21 | #include <casa/BasicSL/String.h> |
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[81] | 22 | #include <casa/Utilities/CountedPtr.h> |
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[2177] | 23 | |
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[805] | 24 | #include <scimath/Mathematics/InterpolateArray1D.h> |
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[294] | 25 | |
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[805] | 26 | #include "Scantable.h" |
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[834] | 27 | #include "STDefs.h" |
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[896] | 28 | #include "STPol.h" |
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[2] | 29 | |
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[83] | 30 | namespace asap { |
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[2] | 31 | |
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[805] | 32 | /** |
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[1106] | 33 | * Mathmatical operations on Scantable objects |
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| 34 | * @author Malte Marquarding |
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[805] | 35 | */ |
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[2658] | 36 | class STMath { |
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[716] | 37 | public: |
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[1106] | 38 | // typedef for long method name |
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[805] | 39 | typedef casa::InterpolateArray1D<casa::Double, |
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| 40 | casa::Float>::InterpolationMethod imethod; |
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[299] | 41 | |
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[1106] | 42 | // typedef for std::map |
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[805] | 43 | typedef std::map<std::string, imethod> imap; |
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[177] | 44 | |
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[1106] | 45 | /** |
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| 46 | * whether to operate on the given Scantable or return a new one |
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| 47 | * @param insitu the toggle for this behaviour |
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| 48 | */ |
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[1353] | 49 | explicit STMath(bool insitu=true); |
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[221] | 50 | |
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[995] | 51 | virtual ~STMath(); |
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[227] | 52 | |
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[805] | 53 | /** |
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[1295] | 54 | * get the currnt @attr inistu_ state |
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[805] | 55 | */ |
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| 56 | bool insitu() const { return insitu_;}; |
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[1143] | 57 | |
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[1106] | 58 | /** |
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| 59 | * set the currnt @attr inistu state |
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| 60 | * @param b the new state |
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| 61 | */ |
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[805] | 62 | void setInsitu(bool b) { insitu_ = b; }; |
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[262] | 63 | |
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[1106] | 64 | |
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[1140] | 65 | /** |
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| 66 | * average a vector of Scantables |
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| 67 | * @param in the vector of Scantables to average |
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[1295] | 68 | * @param mask an optional mask to apply on specific weights |
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[1140] | 69 | * @param weight weighting scheme |
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| 70 | * @param avmode the mode ov averaging. Per "SCAN" or "ALL". |
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| 71 | * @return a casa::CountedPtr<Scantable> which either holds a new Scantable |
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| 72 | * or returns the imput pointer. |
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| 73 | */ |
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[805] | 74 | casa::CountedPtr<Scantable> |
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| 75 | average( const std::vector<casa::CountedPtr<Scantable> >& in, |
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[858] | 76 | const std::vector<bool>& mask = std::vector<bool>(), |
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| 77 | const std::string& weight = "NONE", |
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[977] | 78 | const std::string& avmode = "SCAN"); |
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[1066] | 79 | |
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[1140] | 80 | /** |
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| 81 | * median average a vector of Scantables. See also STMath::average |
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| 82 | * @param in the Scantable to average |
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| 83 | * @param mode the averaging mode. Currently only "MEDIAN" |
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| 84 | * @param avmode the mode ov averaging. Per "SCAN" or "ALL". |
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| 85 | * @return a casa::CountedPtr<Scantable> which either holds a new Scantable |
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| 86 | * or returns the imput pointer. |
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| 87 | */ |
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[1069] | 88 | casa::CountedPtr<Scantable> |
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| 89 | averageChannel( const casa::CountedPtr<Scantable> & in, |
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[1078] | 90 | const std::string& mode = "MEDIAN", |
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| 91 | const std::string& avmode = "SCAN"); |
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[1069] | 92 | |
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[1140] | 93 | /** |
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[1145] | 94 | * Average polarisations together. really only useful if only linears are |
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| 95 | * available. |
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[1140] | 96 | * @param in the input Scantable |
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| 97 | * @param mask an optional mask if weight allows one |
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| 98 | * @param weight weighting scheme |
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[1143] | 99 | * @return |
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[1140] | 100 | */ |
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[940] | 101 | casa::CountedPtr< Scantable > |
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| 102 | averagePolarisations( const casa::CountedPtr< Scantable > & in, |
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[1140] | 103 | const std::vector<bool>& mask, |
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| 104 | const std::string& weight ); |
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[234] | 105 | |
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[1145] | 106 | /** |
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| 107 | * Average beams together. |
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| 108 | * @param in the input Scantable |
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| 109 | * @param mask an optional mask if weight allows one |
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| 110 | * @param weight weighting scheme |
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| 111 | * @return |
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| 112 | */ |
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| 113 | casa::CountedPtr< Scantable > |
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| 114 | averageBeams( const casa::CountedPtr< Scantable > & in, |
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| 115 | const std::vector<bool>& mask, |
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| 116 | const std::string& weight ); |
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| 117 | |
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[805] | 118 | casa::CountedPtr<Scantable> |
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| 119 | unaryOperate( const casa::CountedPtr<Scantable>& in, float val, |
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[2952] | 120 | const std::string& mode, bool tsys=false, |
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| 121 | bool skip_flaggedrow=false ); |
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[169] | 122 | |
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[1819] | 123 | // array operation |
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[1308] | 124 | casa::CountedPtr<Scantable> |
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[1819] | 125 | arrayOperate( const casa::CountedPtr<Scantable>& in, |
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| 126 | const std::vector<float> val, |
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| 127 | const std::string& mode, |
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| 128 | const std::string& opmode="channel", |
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[2952] | 129 | bool tsys=false, |
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| 130 | bool skip_flaggedrow=false ); |
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[1819] | 131 | |
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| 132 | // channel operation |
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| 133 | casa::CountedPtr<Scantable> |
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| 134 | arrayOperateChannel( const casa::CountedPtr<Scantable>& in, |
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| 135 | const std::vector<float> val, |
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[2952] | 136 | const std::string& mode, bool tsys=false, |
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| 137 | bool skip_flaggedrow=false ); |
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[1819] | 138 | |
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| 139 | // row operation |
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| 140 | casa::CountedPtr<Scantable> |
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| 141 | arrayOperateRow( const casa::CountedPtr<Scantable>& in, |
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| 142 | const std::vector<float> val, |
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[2952] | 143 | const std::string& mode, bool tsys=false, |
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| 144 | bool skip_flaggedrow=false ); |
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[1819] | 145 | |
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| 146 | // 2d array operation |
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| 147 | casa::CountedPtr<Scantable> |
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| 148 | array2dOperate( const casa::CountedPtr<Scantable>& in, |
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| 149 | const std::vector< std::vector<float> > val, |
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| 150 | const std::string& mode, bool tsys=false ); |
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| 151 | |
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| 152 | casa::CountedPtr<Scantable> |
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[1570] | 153 | binaryOperate( const casa::CountedPtr<Scantable>& left, |
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| 154 | const casa::CountedPtr<Scantable>& right, |
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[1308] | 155 | const std::string& mode); |
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| 156 | |
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[1066] | 157 | casa::CountedPtr<Scantable> autoQuotient(const casa::CountedPtr<Scantable>& in, |
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| 158 | const std::string& mode = "NEAREST", |
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| 159 | bool preserve = true); |
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| 160 | |
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| 161 | casa::CountedPtr<Scantable> quotient( const casa::CountedPtr<Scantable>& on, |
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| 162 | const casa::CountedPtr<Scantable>& off, |
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[805] | 163 | bool preserve = true ); |
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[169] | 164 | |
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[1391] | 165 | /** |
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| 166 | * Calibrate total power scans (translated from GBTIDL) |
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[1819] | 167 | * @param calon uncalibrated Scantable with CAL noise signal |
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[1391] | 168 | * @param caloff uncalibrated Scantable with no CAL signal |
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| 169 | * @param tcal optional scalar Tcal, CAL temperature (K) |
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[1819] | 170 | * @return casa::CountedPtr<Scantable> which holds a calibrated Scantable |
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[1391] | 171 | * (spectrum - average of the two CAL on and off spectra; |
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| 172 | * tsys - mean Tsys = <caloff>*Tcal/<calon-caloff> + Tcal/2) |
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[1819] | 173 | */ |
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[1391] | 174 | casa::CountedPtr<Scantable> dototalpower( const casa::CountedPtr<Scantable>& calon, |
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| 175 | const casa::CountedPtr<Scantable>& caloff, |
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| 176 | casa::Float tcal=1.0 ); |
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| 177 | |
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| 178 | /** |
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| 179 | * Combine signal and reference scans (translated from GBTIDL) |
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| 180 | * @param sig Scantable which contains signal scans |
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| 181 | * @param ref Scantable which contains reference scans |
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| 182 | * @param smoothref optional Boxcar smooth width of the reference scans |
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| 183 | * default: no smoothing (=1) |
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[1819] | 184 | * @param tsysv optional scalar Tsys value at the zenith, required to |
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| 185 | * set tau, as well |
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[1391] | 186 | * @param tau optional scalar Tau value |
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| 187 | * @return casa::CountedPtr<Scantable> which holds combined scans |
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| 188 | * (spectrum = (sig-ref)/ref * Tsys ) |
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| 189 | */ |
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| 190 | casa::CountedPtr<Scantable> dosigref( const casa::CountedPtr<Scantable>& sig, |
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| 191 | const casa::CountedPtr<Scantable>& ref, |
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| 192 | int smoothref=1, |
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| 193 | casa::Float tsysv=0.0, |
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| 194 | casa::Float tau=0.0 ); |
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| 195 | |
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[1819] | 196 | /** |
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[1391] | 197 | * Calibrate GBT Nod scan pairs (translated from GBTIDL) |
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| 198 | * @param s Scantable which contains Nod scans |
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| 199 | * @param scans Vector of scan numbers |
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| 200 | * @param smoothref optional Boxcar smooth width of the reference scans |
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| 201 | * @param tsysv optional scalar Tsys value at the zenith, required to |
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| 202 | * set tau, as well |
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[1819] | 203 | * @param tau optional scalar Tau value |
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[1391] | 204 | * @param tcal optional scalar Tcal, CAL temperature (K) |
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| 205 | * @return casa::CountedPtr<Scantable> which holds calibrated scans |
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| 206 | */ |
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| 207 | casa::CountedPtr<Scantable> donod( const casa::CountedPtr<Scantable>& s, |
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| 208 | const std::vector<int>& scans, |
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| 209 | int smoothref=1, |
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| 210 | casa::Float tsysv=0.0, |
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| 211 | casa::Float tau=0.0, |
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| 212 | casa::Float tcal=0.0 ); |
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| 213 | |
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| 214 | /** |
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| 215 | * Calibrate frequency switched scans (translated from GBTIDL) |
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| 216 | * @param s Scantable which contains frequency switched scans |
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| 217 | * @param scans Vector of scan numbers |
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| 218 | * @param smoothref optional Boxcar smooth width of the reference scans |
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| 219 | * @param tsysv optional scalar Tsys value at the zenith, required to |
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| 220 | * set tau, as well |
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| 221 | * @param tau optional scalar Tau value |
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| 222 | * @param tcal optional scalar Tcal, CAL temperature (K) |
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| 223 | * @return casa::CountedPtr<Scantable> which holds calibrated scans |
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| 224 | */ |
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| 225 | casa::CountedPtr<Scantable> dofs( const casa::CountedPtr<Scantable>& s, |
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| 226 | const std::vector<int>& scans, |
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| 227 | int smoothref=1, |
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| 228 | casa::Float tsysv=0.0, |
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| 229 | casa::Float tau=0.0, |
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| 230 | casa::Float tcal=0.0 ); |
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| 231 | |
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[1819] | 232 | /** |
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| 233 | * Calibrate data with Chopper-Wheel like calibration method |
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| 234 | * which adopts position switching by antenna motion, |
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| 235 | * wobbler (nutator) switching and On-The-Fly observation. |
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| 236 | * |
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| 237 | * The method is applicable to APEX, and other telescopes other than GBT. |
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| 238 | * |
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| 239 | * @param a Scantable which contains ON and OFF scans |
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| 240 | * @param a string that indicates calibration mode |
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| 241 | * @param a string that indicates antenna name |
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| 242 | **/ |
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| 243 | casa::CountedPtr<Scantable> cwcal( const casa::CountedPtr<Scantable>& s, |
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| 244 | const casa::String calmode, |
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| 245 | const casa::String antname ); |
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[1391] | 246 | |
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[1819] | 247 | /** |
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| 248 | * Calibrate frequency switched scans with Chopper-Wheel like |
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| 249 | * calibration method. |
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| 250 | * |
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| 251 | * The method is applicable to APEX, and other telescopes other than GBT. |
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| 252 | * |
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| 253 | * @param a Scantable which contains ON and OFF scans |
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| 254 | * @param a string that indicates antenna name |
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| 255 | **/ |
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| 256 | casa::CountedPtr<Scantable> cwcalfs( const casa::CountedPtr<Scantable>& s, |
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| 257 | const casa::String antname ); |
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| 258 | |
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| 259 | |
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| 260 | /** |
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| 261 | * Folding frequency-switch data |
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| 262 | * @param sig |
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| 263 | * @param ref |
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| 264 | * @param choffset |
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| 265 | **/ |
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| 266 | casa::CountedPtr<Scantable> dofold( const casa::CountedPtr<Scantable> &sig, |
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| 267 | const casa::CountedPtr<Scantable> &ref, |
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| 268 | casa::Double choffset, |
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[1937] | 269 | casa::Double choffset2 = 0.0 ); |
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[1819] | 270 | |
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| 271 | /** |
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| 272 | * ALMA calibration |
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| 273 | **/ |
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| 274 | casa::CountedPtr<Scantable> almacal( const casa::CountedPtr<Scantable>& s, |
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| 275 | const casa::String calmode ) ; |
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| 276 | casa::CountedPtr<Scantable> almacalfs( const casa::CountedPtr<Scantable>& s ) ; |
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| 277 | |
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[805] | 278 | casa::CountedPtr<Scantable> |
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| 279 | freqSwitch( const casa::CountedPtr<Scantable>& in ); |
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[716] | 280 | |
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[805] | 281 | std::vector<float> statistic(const casa::CountedPtr<Scantable>& in, |
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| 282 | const std::vector<bool>& mask, |
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| 283 | const std::string& which); |
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[457] | 284 | |
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[1907] | 285 | std::vector<float> statisticRow(const casa::CountedPtr<Scantable>& in, |
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| 286 | const std::vector<bool>& mask, |
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| 287 | const std::string& which, |
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| 288 | int row); |
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| 289 | |
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[1819] | 290 | std::vector< int > minMaxChan(const casa::CountedPtr<Scantable>& in, |
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| 291 | const std::vector<bool>& mask, |
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| 292 | const std::string& which); |
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| 293 | |
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[805] | 294 | casa::CountedPtr<Scantable> bin( const casa::CountedPtr<Scantable>& in, |
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| 295 | int width=5); |
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| 296 | casa::CountedPtr<Scantable> |
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| 297 | resample(const casa::CountedPtr<Scantable>& in, |
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| 298 | const std::string& method, float width); |
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[457] | 299 | |
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[805] | 300 | casa::CountedPtr<Scantable> |
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| 301 | smooth(const casa::CountedPtr<Scantable>& in, const std::string& kernel, |
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[1570] | 302 | float width, int order=2); |
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[169] | 303 | |
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[805] | 304 | casa::CountedPtr<Scantable> |
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| 305 | gainElevation(const casa::CountedPtr<Scantable>& in, |
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[867] | 306 | const std::vector<float>& coeff, |
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[805] | 307 | const std::string& fileName, |
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[995] | 308 | const std::string& method); |
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[805] | 309 | casa::CountedPtr<Scantable> |
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| 310 | convertFlux(const casa::CountedPtr<Scantable>& in, float d, |
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| 311 | float etaap, float jyperk); |
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[152] | 312 | |
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[805] | 313 | casa::CountedPtr<Scantable> opacity(const casa::CountedPtr<Scantable>& in, |
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[1689] | 314 | const std::vector<float>& tau); |
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[144] | 315 | |
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[841] | 316 | casa::CountedPtr<Scantable> |
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[2900] | 317 | merge(const std::vector<casa::CountedPtr<Scantable> >& in, |
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| 318 | const std::string &freqTol = ""); |
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[841] | 319 | |
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[896] | 320 | casa::CountedPtr<Scantable> |
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| 321 | invertPhase( const casa::CountedPtr<Scantable>& in); |
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[912] | 322 | |
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[896] | 323 | casa::CountedPtr<Scantable> |
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| 324 | rotateXYPhase( const casa::CountedPtr<Scantable>& in, float phase); |
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[912] | 325 | |
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[896] | 326 | casa::CountedPtr<Scantable> |
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| 327 | rotateLinPolPhase( const casa::CountedPtr<Scantable>& in, float phase); |
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| 328 | |
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| 329 | casa::CountedPtr<Scantable> |
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| 330 | swapPolarisations(const casa::CountedPtr<Scantable>& in); |
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| 331 | |
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[917] | 332 | casa::CountedPtr<Scantable> |
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| 333 | frequencyAlign( const casa::CountedPtr<Scantable>& in, |
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[927] | 334 | const std::string& refTime = "", |
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| 335 | const std::string& method = "cubic" ); |
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[917] | 336 | |
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[992] | 337 | casa::CountedPtr<Scantable> |
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| 338 | convertPolarisation( const casa::CountedPtr<Scantable>& in, |
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| 339 | const std::string& newtype); |
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[1143] | 340 | |
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[1140] | 341 | casa::CountedPtr<Scantable> |
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[1143] | 342 | mxExtract( const casa::CountedPtr<Scantable>& in, |
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| 343 | const std::string& srctype = "on"); |
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[992] | 344 | |
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[1192] | 345 | /** |
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| 346 | * "hard" flag the data, this flags everything selected in setSelection() |
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| 347 | * @param frequency the frequency to remove |
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| 348 | * @param width the number of lags to flag left to the side of the frequency |
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| 349 | */ |
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| 350 | casa::CountedPtr<Scantable> |
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[1570] | 351 | lagFlag( const casa::CountedPtr<Scantable>& in, double start, |
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| 352 | double end, const std::string& mode="frequency"); |
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[1192] | 353 | |
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[2177] | 354 | std::vector<float> |
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| 355 | fft( const casa::CountedPtr<Scantable>& in, |
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| 356 | const std::vector<int>& whichrow, |
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| 357 | bool getRealImag=false ); |
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| 358 | |
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[1819] | 359 | // test for average spectra with different channel/resolution |
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| 360 | casa::CountedPtr<Scantable> |
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| 361 | new_average( const std::vector<casa::CountedPtr<Scantable> >& in, |
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| 362 | const bool& compel, |
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| 363 | const std::vector<bool>& mask = std::vector<bool>(), |
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| 364 | const std::string& weight = "NONE", |
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| 365 | const std::string& avmode = "SCAN" ) |
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| 366 | throw (casa::AipsError) ; |
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| 367 | |
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[805] | 368 | private: |
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[896] | 369 | casa::CountedPtr<Scantable> applyToPol( const casa::CountedPtr<Scantable>& in, |
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| 370 | STPol::polOperation fptr, |
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| 371 | casa::Float phase); |
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| 372 | |
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[805] | 373 | static imethod stringToIMethod(const std::string& in); |
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| 374 | static WeightType stringToWeight(const std::string& in); |
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[146] | 375 | |
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[805] | 376 | void scaleByVector(casa::Table& in, |
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| 377 | const casa::Vector<casa::Float>& factor, |
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| 378 | bool dotsys); |
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[152] | 379 | |
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[805] | 380 | void scaleFromAsciiTable(casa::Table& in, const std::string& filename, |
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| 381 | const std::string& method, |
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| 382 | const casa::Vector<casa::Float>& xout, |
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| 383 | bool dotsys); |
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[162] | 384 | |
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[805] | 385 | void scaleFromTable(casa::Table& in, const casa::Table& table, |
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| 386 | const std::string& method, |
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| 387 | const casa::Vector<casa::Float>& xout, bool dotsys); |
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[227] | 388 | |
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[805] | 389 | void convertBrightnessUnits(casa::CountedPtr<Scantable>& in, |
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| 390 | bool tokelvin, float cfac); |
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[227] | 391 | |
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[1570] | 392 | casa::CountedPtr< Scantable > |
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[1374] | 393 | smoothOther( const casa::CountedPtr< Scantable >& in, |
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| 394 | const std::string& kernel, |
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[1570] | 395 | float width, int order=2 ); |
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[1374] | 396 | |
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[805] | 397 | casa::CountedPtr< Scantable > |
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| 398 | getScantable(const casa::CountedPtr< Scantable >& in, bool droprows); |
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[230] | 399 | |
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[805] | 400 | casa::MaskedArray<casa::Float> |
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| 401 | maskedArray( const casa::Vector<casa::Float>& s, |
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| 402 | const casa::Vector<casa::uChar>& f ); |
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[1819] | 403 | casa::MaskedArray<casa::Double> |
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| 404 | maskedArray( const casa::Vector<casa::Double>& s, |
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| 405 | const casa::Vector<casa::uChar>& f ); |
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[805] | 406 | casa::Vector<casa::uChar> |
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| 407 | flagsFromMA(const casa::MaskedArray<casa::Float>& ma); |
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[230] | 408 | |
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[2580] | 409 | // Frequency switching |
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| 410 | void calibrateFS( casa::CountedPtr<Scantable> &sig, |
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| 411 | casa::CountedPtr<Scantable> &ref, |
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| 412 | const casa::CountedPtr<Scantable> &rsig, |
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| 413 | const casa::CountedPtr<Scantable> &rref, |
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| 414 | const casa::CountedPtr<Scantable> &sky, |
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| 415 | const casa::CountedPtr<Scantable> &hot, |
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| 416 | const casa::CountedPtr<Scantable> &cold, |
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| 417 | const casa::Vector<casa::uInt> &rows ) ; |
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| 418 | void calibrateAPEXFS( casa::CountedPtr<Scantable> &sig, |
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| 419 | casa::CountedPtr<Scantable> &ref, |
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| 420 | const vector< casa::CountedPtr<Scantable> > &on, |
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| 421 | const vector< casa::CountedPtr<Scantable> > &sky, |
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| 422 | const vector< casa::CountedPtr<Scantable> > &hot, |
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| 423 | const vector< casa::CountedPtr<Scantable> > &cold, |
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| 424 | const casa::Vector<casa::uInt> &rows ) ; |
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| 425 | void copyRows( casa::Table &out, |
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| 426 | const casa::Table &in, |
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| 427 | casa::uInt startout, |
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| 428 | casa::uInt startin, |
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| 429 | casa::uInt nrow, |
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| 430 | casa::Bool copySpectra=true, |
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| 431 | casa::Bool copyFlagtra=true, |
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| 432 | casa::Bool copyTsys=true ) ; |
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| 433 | casa::CountedPtr<Scantable> averageWithinSession( casa::CountedPtr<Scantable> &s, |
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| 434 | vector<bool> &mask, |
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| 435 | string weight ) ; |
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| 436 | |
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[805] | 437 | bool insitu_; |
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| 438 | }; |
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[234] | 439 | |
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[805] | 440 | } |
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[165] | 441 | #endif |
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