1 | //
|
---|
2 | // C++ Interface: STMath
|
---|
3 | //
|
---|
4 | // Description:
|
---|
5 | //
|
---|
6 | //
|
---|
7 | // Author: Malte Marquarding <asap@atnf.csiro.au>, (C) 2006
|
---|
8 | //
|
---|
9 | // Copyright: See COPYING file that comes with this distribution
|
---|
10 | //
|
---|
11 | //
|
---|
12 | #ifndef ASAPSTMATH_H
|
---|
13 | #define ASAPSTMATH_H
|
---|
14 |
|
---|
15 | #include <string>
|
---|
16 | #include <map>
|
---|
17 |
|
---|
18 | #include <casa/aips.h>
|
---|
19 | #include <casa/Utilities/CountedPtr.h>
|
---|
20 | #include <casa/BasicSL/String.h>
|
---|
21 | #include <casa/Arrays/Vector.h>
|
---|
22 | #include <scimath/Mathematics/InterpolateArray1D.h>
|
---|
23 |
|
---|
24 | #include "Scantable.h"
|
---|
25 | #include "STDefs.h"
|
---|
26 | #include "STPol.h"
|
---|
27 | #include "Logger.h"
|
---|
28 |
|
---|
29 | namespace asap {
|
---|
30 |
|
---|
31 | /**
|
---|
32 | * Mathmatical operations on Scantable objects
|
---|
33 | * @author Malte Marquarding
|
---|
34 | */
|
---|
35 | class STMath : private Logger {
|
---|
36 | public:
|
---|
37 | // typedef for long method name
|
---|
38 | typedef casa::InterpolateArray1D<casa::Double,
|
---|
39 | casa::Float>::InterpolationMethod imethod;
|
---|
40 |
|
---|
41 | // typedef for std::map
|
---|
42 | typedef std::map<std::string, imethod> imap;
|
---|
43 |
|
---|
44 | /**
|
---|
45 | * whether to operate on the given Scantable or return a new one
|
---|
46 | * @param insitu the toggle for this behaviour
|
---|
47 | */
|
---|
48 | explicit STMath(bool insitu=true);
|
---|
49 |
|
---|
50 | virtual ~STMath();
|
---|
51 |
|
---|
52 | /**
|
---|
53 | * get the currnt @attr inistu_ state
|
---|
54 | */
|
---|
55 | bool insitu() const { return insitu_;};
|
---|
56 |
|
---|
57 | /**
|
---|
58 | * set the currnt @attr inistu state
|
---|
59 | * @param b the new state
|
---|
60 | */
|
---|
61 | void setInsitu(bool b) { insitu_ = b; };
|
---|
62 |
|
---|
63 |
|
---|
64 | /**
|
---|
65 | * average a vector of Scantables
|
---|
66 | * @param in the vector of Scantables to average
|
---|
67 | * @param mask an optional mask to apply on specific weights
|
---|
68 | * @param weight weighting scheme
|
---|
69 | * @param avmode the mode ov averaging. Per "SCAN" or "ALL".
|
---|
70 | * @return a casa::CountedPtr<Scantable> which either holds a new Scantable
|
---|
71 | * or returns the imput pointer.
|
---|
72 | */
|
---|
73 | casa::CountedPtr<Scantable>
|
---|
74 | average( const std::vector<casa::CountedPtr<Scantable> >& in,
|
---|
75 | const std::vector<bool>& mask = std::vector<bool>(),
|
---|
76 | const std::string& weight = "NONE",
|
---|
77 | const std::string& avmode = "SCAN");
|
---|
78 |
|
---|
79 | /**
|
---|
80 | * median average a vector of Scantables. See also STMath::average
|
---|
81 | * @param in the Scantable to average
|
---|
82 | * @param mode the averaging mode. Currently only "MEDIAN"
|
---|
83 | * @param avmode the mode ov averaging. Per "SCAN" or "ALL".
|
---|
84 | * @return a casa::CountedPtr<Scantable> which either holds a new Scantable
|
---|
85 | * or returns the imput pointer.
|
---|
86 | */
|
---|
87 | casa::CountedPtr<Scantable>
|
---|
88 | averageChannel( const casa::CountedPtr<Scantable> & in,
|
---|
89 | const std::string& mode = "MEDIAN",
|
---|
90 | const std::string& avmode = "SCAN");
|
---|
91 |
|
---|
92 | /**
|
---|
93 | * Average polarisations together. really only useful if only linears are
|
---|
94 | * available.
|
---|
95 | * @param in the input Scantable
|
---|
96 | * @param mask an optional mask if weight allows one
|
---|
97 | * @param weight weighting scheme
|
---|
98 | * @return
|
---|
99 | */
|
---|
100 | casa::CountedPtr< Scantable >
|
---|
101 | averagePolarisations( const casa::CountedPtr< Scantable > & in,
|
---|
102 | const std::vector<bool>& mask,
|
---|
103 | const std::string& weight );
|
---|
104 |
|
---|
105 | /**
|
---|
106 | * Average beams together.
|
---|
107 | * @param in the input Scantable
|
---|
108 | * @param mask an optional mask if weight allows one
|
---|
109 | * @param weight weighting scheme
|
---|
110 | * @return
|
---|
111 | */
|
---|
112 | casa::CountedPtr< Scantable >
|
---|
113 | averageBeams( const casa::CountedPtr< Scantable > & in,
|
---|
114 | const std::vector<bool>& mask,
|
---|
115 | const std::string& weight );
|
---|
116 |
|
---|
117 | casa::CountedPtr<Scantable>
|
---|
118 | unaryOperate( const casa::CountedPtr<Scantable>& in, float val,
|
---|
119 | const std::string& mode, bool tsys=false );
|
---|
120 |
|
---|
121 | casa::CountedPtr<Scantable>
|
---|
122 | binaryOperate( const casa::CountedPtr<Scantable>& left,
|
---|
123 | const casa::CountedPtr<Scantable>& right,
|
---|
124 | const std::string& mode);
|
---|
125 |
|
---|
126 | casa::CountedPtr<Scantable> autoQuotient(const casa::CountedPtr<Scantable>& in,
|
---|
127 | const std::string& mode = "NEAREST",
|
---|
128 | bool preserve = true);
|
---|
129 |
|
---|
130 | casa::CountedPtr<Scantable> quotient( const casa::CountedPtr<Scantable>& on,
|
---|
131 | const casa::CountedPtr<Scantable>& off,
|
---|
132 | bool preserve = true );
|
---|
133 |
|
---|
134 | /**
|
---|
135 | * Calibrate total power scans (translated from GBTIDL)
|
---|
136 | * @param calon uncalibrated Scantable with CAL noise signal
|
---|
137 | * @param caloff uncalibrated Scantable with no CAL signal
|
---|
138 | * @param tcal optional scalar Tcal, CAL temperature (K)
|
---|
139 | * @return casa::CountedPtr<Scantable> which holds a calibrated Scantable
|
---|
140 | * (spectrum - average of the two CAL on and off spectra;
|
---|
141 | * tsys - mean Tsys = <caloff>*Tcal/<calon-caloff> + Tcal/2)
|
---|
142 | */
|
---|
143 | casa::CountedPtr<Scantable> dototalpower( const casa::CountedPtr<Scantable>& calon,
|
---|
144 | const casa::CountedPtr<Scantable>& caloff,
|
---|
145 | casa::Float tcal=1.0 );
|
---|
146 |
|
---|
147 | /**
|
---|
148 | * Combine signal and reference scans (translated from GBTIDL)
|
---|
149 | * @param sig Scantable which contains signal scans
|
---|
150 | * @param ref Scantable which contains reference scans
|
---|
151 | * @param smoothref optional Boxcar smooth width of the reference scans
|
---|
152 | * default: no smoothing (=1)
|
---|
153 | * @param tsysv optional scalar Tsys value at the zenith, required to
|
---|
154 | * set tau, as well
|
---|
155 | * @param tau optional scalar Tau value
|
---|
156 | * @return casa::CountedPtr<Scantable> which holds combined scans
|
---|
157 | * (spectrum = (sig-ref)/ref * Tsys )
|
---|
158 | */
|
---|
159 | casa::CountedPtr<Scantable> dosigref( const casa::CountedPtr<Scantable>& sig,
|
---|
160 | const casa::CountedPtr<Scantable>& ref,
|
---|
161 | int smoothref=1,
|
---|
162 | casa::Float tsysv=0.0,
|
---|
163 | casa::Float tau=0.0 );
|
---|
164 |
|
---|
165 | /**
|
---|
166 | * Calibrate GBT Nod scan pairs (translated from GBTIDL)
|
---|
167 | * @param s Scantable which contains Nod scans
|
---|
168 | * @param scans Vector of scan numbers
|
---|
169 | * @param smoothref optional Boxcar smooth width of the reference scans
|
---|
170 | * @param tsysv optional scalar Tsys value at the zenith, required to
|
---|
171 | * set tau, as well
|
---|
172 | * @param tau optional scalar Tau value
|
---|
173 | * @param tcal optional scalar Tcal, CAL temperature (K)
|
---|
174 | * @return casa::CountedPtr<Scantable> which holds calibrated scans
|
---|
175 | */
|
---|
176 | casa::CountedPtr<Scantable> donod( const casa::CountedPtr<Scantable>& s,
|
---|
177 | const std::vector<int>& scans,
|
---|
178 | int smoothref=1,
|
---|
179 | casa::Float tsysv=0.0,
|
---|
180 | casa::Float tau=0.0,
|
---|
181 | casa::Float tcal=0.0 );
|
---|
182 |
|
---|
183 | /**
|
---|
184 | * Calibrate frequency switched scans (translated from GBTIDL)
|
---|
185 | * @param s Scantable which contains frequency switched scans
|
---|
186 | * @param scans Vector of scan numbers
|
---|
187 | * @param smoothref optional Boxcar smooth width of the reference scans
|
---|
188 | * @param tsysv optional scalar Tsys value at the zenith, required to
|
---|
189 | * set tau, as well
|
---|
190 | * @param tau optional scalar Tau value
|
---|
191 | * @param tcal optional scalar Tcal, CAL temperature (K)
|
---|
192 | * @return casa::CountedPtr<Scantable> which holds calibrated scans
|
---|
193 | */
|
---|
194 | casa::CountedPtr<Scantable> dofs( const casa::CountedPtr<Scantable>& s,
|
---|
195 | const std::vector<int>& scans,
|
---|
196 | int smoothref=1,
|
---|
197 | casa::Float tsysv=0.0,
|
---|
198 | casa::Float tau=0.0,
|
---|
199 | casa::Float tcal=0.0 );
|
---|
200 |
|
---|
201 | /**
|
---|
202 | * Calibrate data with Chopper-Wheel like calibration method
|
---|
203 | * which adopts position switching by antenna motion,
|
---|
204 | * wobbler (nutator) switching and On-The-Fly observation.
|
---|
205 | *
|
---|
206 | * The method is applicable to APEX, and other telescopes other than GBT.
|
---|
207 | *
|
---|
208 | * @param a Scantable which contains ON and OFF scans
|
---|
209 | * @param a string that indicates calibration mode
|
---|
210 | * @param a string that indicates antenna name
|
---|
211 | **/
|
---|
212 | casa::CountedPtr<Scantable> cwcal( const casa::CountedPtr<Scantable>& s,
|
---|
213 | const casa::String calmode,
|
---|
214 | const casa::String antname );
|
---|
215 |
|
---|
216 | /**
|
---|
217 | * Calibrate frequency switched scans with Chopper-Wheel like
|
---|
218 | * calibration method.
|
---|
219 | *
|
---|
220 | * The method is applicable to APEX, and other telescopes other than GBT.
|
---|
221 | *
|
---|
222 | * @param a Scantable which contains ON and OFF scans
|
---|
223 | * @param a string that indicates antenna name
|
---|
224 | **/
|
---|
225 | casa::CountedPtr<Scantable> cwcalfs( const casa::CountedPtr<Scantable>& s,
|
---|
226 | const casa::String antname );
|
---|
227 |
|
---|
228 |
|
---|
229 | /**
|
---|
230 | * Folding frequency-switch data
|
---|
231 | * @param sig
|
---|
232 | * @param ref
|
---|
233 | * @param choffset
|
---|
234 | **/
|
---|
235 | casa::CountedPtr<Scantable> dofold( const casa::CountedPtr<Scantable> &sig,
|
---|
236 | const casa::CountedPtr<Scantable> &ref,
|
---|
237 | casa::Double choffset,
|
---|
238 | casa::Double choffset = 0.0 );
|
---|
239 |
|
---|
240 | /**
|
---|
241 | * ALMA calibration
|
---|
242 | **/
|
---|
243 | casa::CountedPtr<Scantable> almacal( const casa::CountedPtr<Scantable>& s,
|
---|
244 | const casa::String calmode ) ;
|
---|
245 | casa::CountedPtr<Scantable> almacalfs( const casa::CountedPtr<Scantable>& s ) ;
|
---|
246 |
|
---|
247 | casa::CountedPtr<Scantable>
|
---|
248 | freqSwitch( const casa::CountedPtr<Scantable>& in );
|
---|
249 |
|
---|
250 | std::vector<float> statistic(const casa::CountedPtr<Scantable>& in,
|
---|
251 | const std::vector<bool>& mask,
|
---|
252 | const std::string& which);
|
---|
253 |
|
---|
254 | std::vector< int > minMaxChan(const casa::CountedPtr<Scantable>& in,
|
---|
255 | const std::vector<bool>& mask,
|
---|
256 | const std::string& which);
|
---|
257 |
|
---|
258 | casa::CountedPtr<Scantable> bin( const casa::CountedPtr<Scantable>& in,
|
---|
259 | int width=5);
|
---|
260 | casa::CountedPtr<Scantable>
|
---|
261 | resample(const casa::CountedPtr<Scantable>& in,
|
---|
262 | const std::string& method, float width);
|
---|
263 |
|
---|
264 | casa::CountedPtr<Scantable>
|
---|
265 | smooth(const casa::CountedPtr<Scantable>& in, const std::string& kernel,
|
---|
266 | float width);
|
---|
267 |
|
---|
268 | casa::CountedPtr<Scantable>
|
---|
269 | gainElevation(const casa::CountedPtr<Scantable>& in,
|
---|
270 | const std::vector<float>& coeff,
|
---|
271 | const std::string& fileName,
|
---|
272 | const std::string& method);
|
---|
273 | casa::CountedPtr<Scantable>
|
---|
274 | convertFlux(const casa::CountedPtr<Scantable>& in, float d,
|
---|
275 | float etaap, float jyperk);
|
---|
276 |
|
---|
277 | casa::CountedPtr<Scantable> opacity(const casa::CountedPtr<Scantable>& in,
|
---|
278 | float tau);
|
---|
279 |
|
---|
280 | casa::CountedPtr<Scantable>
|
---|
281 | merge(const std::vector<casa::CountedPtr<Scantable> >& in);
|
---|
282 |
|
---|
283 | casa::CountedPtr<Scantable>
|
---|
284 | invertPhase( const casa::CountedPtr<Scantable>& in);
|
---|
285 |
|
---|
286 | casa::CountedPtr<Scantable>
|
---|
287 | rotateXYPhase( const casa::CountedPtr<Scantable>& in, float phase);
|
---|
288 |
|
---|
289 | casa::CountedPtr<Scantable>
|
---|
290 | rotateLinPolPhase( const casa::CountedPtr<Scantable>& in, float phase);
|
---|
291 |
|
---|
292 | casa::CountedPtr<Scantable>
|
---|
293 | swapPolarisations(const casa::CountedPtr<Scantable>& in);
|
---|
294 |
|
---|
295 | casa::CountedPtr<Scantable>
|
---|
296 | frequencyAlign( const casa::CountedPtr<Scantable>& in,
|
---|
297 | const std::string& refTime = "",
|
---|
298 | const std::string& method = "cubic" );
|
---|
299 |
|
---|
300 | casa::CountedPtr<Scantable>
|
---|
301 | convertPolarisation( const casa::CountedPtr<Scantable>& in,
|
---|
302 | const std::string& newtype);
|
---|
303 |
|
---|
304 | casa::CountedPtr<Scantable>
|
---|
305 | mxExtract( const casa::CountedPtr<Scantable>& in,
|
---|
306 | const std::string& srctype = "on");
|
---|
307 |
|
---|
308 | /**
|
---|
309 | * "hard" flag the data, this flags everything selected in setSelection()
|
---|
310 | * @param frequency the frequency to remove
|
---|
311 | * @param width the number of lags to flag left to the side of the frequency
|
---|
312 | */
|
---|
313 | casa::CountedPtr<Scantable>
|
---|
314 | lagFlag( const casa::CountedPtr<Scantable>& in, double frequency,
|
---|
315 | double width);
|
---|
316 |
|
---|
317 | // test for average spectra with different channel/resolution
|
---|
318 | casa::CountedPtr<Scantable>
|
---|
319 | new_average( const std::vector<casa::CountedPtr<Scantable> >& in,
|
---|
320 | const bool& compel,
|
---|
321 | const std::vector<bool>& mask = std::vector<bool>(),
|
---|
322 | const std::string& weight = "NONE",
|
---|
323 | const std::string& avmode = "SCAN" )
|
---|
324 | throw (casa::AipsError) ;
|
---|
325 |
|
---|
326 | private:
|
---|
327 | casa::CountedPtr<Scantable> applyToPol( const casa::CountedPtr<Scantable>& in,
|
---|
328 | STPol::polOperation fptr,
|
---|
329 | casa::Float phase);
|
---|
330 |
|
---|
331 | static imethod stringToIMethod(const std::string& in);
|
---|
332 | static WeightType stringToWeight(const std::string& in);
|
---|
333 |
|
---|
334 | void scaleByVector(casa::Table& in,
|
---|
335 | const casa::Vector<casa::Float>& factor,
|
---|
336 | bool dotsys);
|
---|
337 |
|
---|
338 | void scaleFromAsciiTable(casa::Table& in, const std::string& filename,
|
---|
339 | const std::string& method,
|
---|
340 | const casa::Vector<casa::Float>& xout,
|
---|
341 | bool dotsys);
|
---|
342 |
|
---|
343 | void scaleFromTable(casa::Table& in, const casa::Table& table,
|
---|
344 | const std::string& method,
|
---|
345 | const casa::Vector<casa::Float>& xout, bool dotsys);
|
---|
346 |
|
---|
347 | void convertBrightnessUnits(casa::CountedPtr<Scantable>& in,
|
---|
348 | bool tokelvin, float cfac);
|
---|
349 |
|
---|
350 | casa::CountedPtr< Scantable >
|
---|
351 | smoothOther( const casa::CountedPtr< Scantable >& in,
|
---|
352 | const std::string& kernel,
|
---|
353 | float width );
|
---|
354 |
|
---|
355 | casa::CountedPtr< Scantable >
|
---|
356 | getScantable(const casa::CountedPtr< Scantable >& in, bool droprows);
|
---|
357 |
|
---|
358 | casa::MaskedArray<casa::Float>
|
---|
359 | maskedArray( const casa::Vector<casa::Float>& s,
|
---|
360 | const casa::Vector<casa::uChar>& f );
|
---|
361 | casa::MaskedArray<casa::Double>
|
---|
362 | maskedArray( const casa::Vector<casa::Double>& s,
|
---|
363 | const casa::Vector<casa::uChar>& f );
|
---|
364 | casa::Vector<casa::uChar>
|
---|
365 | flagsFromMA(const casa::MaskedArray<casa::Float>& ma);
|
---|
366 |
|
---|
367 | vector<float> getSpectrumFromTime( string reftime, casa::CountedPtr<Scantable>& s, string mode = "before" ) ;
|
---|
368 | vector<float> getTcalFromTime( string reftime, casa::CountedPtr<Scantable>& s, string mode="before" ) ;
|
---|
369 | vector<float> getTsysFromTime( string reftime, casa::CountedPtr<Scantable>& s, string mode="before" ) ;
|
---|
370 | vector<int> getRowIdFromTime( string reftime, casa::CountedPtr<Scantable>& s ) ;
|
---|
371 |
|
---|
372 | // Chopper-Wheel type calibration
|
---|
373 | vector<float> getCalibratedSpectra( casa::CountedPtr<Scantable>& on,
|
---|
374 | casa::CountedPtr<Scantable>& off,
|
---|
375 | casa::CountedPtr<Scantable>& sky,
|
---|
376 | casa::CountedPtr<Scantable>& hot,
|
---|
377 | casa::CountedPtr<Scantable>& cold,
|
---|
378 | int index,
|
---|
379 | string antname ) ;
|
---|
380 | // Tsys * (ON-OFF)/OFF
|
---|
381 | vector<float> getCalibratedSpectra( casa::CountedPtr<Scantable>& on,
|
---|
382 | casa::CountedPtr<Scantable>& off,
|
---|
383 | int index ) ;
|
---|
384 | vector<float> getFSCalibratedSpectra( casa::CountedPtr<Scantable>& sig,
|
---|
385 | casa::CountedPtr<Scantable>& ref,
|
---|
386 | casa::CountedPtr<Scantable>& sky,
|
---|
387 | casa::CountedPtr<Scantable>& hot,
|
---|
388 | casa::CountedPtr<Scantable>& cold,
|
---|
389 | int index ) ;
|
---|
390 | vector<float> getFSCalibratedSpectra( casa::CountedPtr<Scantable>& sig,
|
---|
391 | casa::CountedPtr<Scantable>& ref,
|
---|
392 | vector< casa::CountedPtr<Scantable> >& sky,
|
---|
393 | vector< casa::CountedPtr<Scantable> >& hot,
|
---|
394 | vector< casa::CountedPtr<Scantable> >& cold,
|
---|
395 | int index ) ;
|
---|
396 | double getMJD( string strtime ) ;
|
---|
397 |
|
---|
398 | bool insitu_;
|
---|
399 | };
|
---|
400 |
|
---|
401 | }
|
---|
402 | #endif
|
---|