1 | //
|
---|
2 | // C++ Interface: Scantable
|
---|
3 | //
|
---|
4 | // Description:
|
---|
5 | //
|
---|
6 | //
|
---|
7 | // Author: Malte Marquarding <asap@atnf.csiro.au>, (C) 2005
|
---|
8 | //
|
---|
9 | // Copyright: See COPYING file that comes with this distribution
|
---|
10 | //
|
---|
11 | //
|
---|
12 | #ifndef ASAPSCANTABLE_H
|
---|
13 | #define ASAPSCANTABLE_H
|
---|
14 |
|
---|
15 | // STL
|
---|
16 | #include <string>
|
---|
17 | #include <vector>
|
---|
18 | #include <iostream>
|
---|
19 | #include <fstream>
|
---|
20 | // AIPS++
|
---|
21 | #include <casa/aips.h>
|
---|
22 | #include <casa/Containers/Record.h>
|
---|
23 | #include <casa/Arrays/MaskedArray.h>
|
---|
24 | #include <casa/BasicSL/String.h>
|
---|
25 | #include <casa/Utilities/CountedPtr.h>
|
---|
26 |
|
---|
27 | #include <tables/Tables/Table.h>
|
---|
28 | #include <tables/Tables/ArrayColumn.h>
|
---|
29 | #include <tables/Tables/ScalarColumn.h>
|
---|
30 |
|
---|
31 | #include <measures/TableMeasures/ScalarMeasColumn.h>
|
---|
32 |
|
---|
33 | #include <coordinates/Coordinates/SpectralCoordinate.h>
|
---|
34 |
|
---|
35 | #include <casa/Arrays/Vector.h>
|
---|
36 | #include <casa/Quanta/Quantum.h>
|
---|
37 |
|
---|
38 | #include <casa/Exceptions/Error.h>
|
---|
39 |
|
---|
40 | #include "Logger.h"
|
---|
41 | #include "STHeader.h"
|
---|
42 | #include "STFrequencies.h"
|
---|
43 | #include "STWeather.h"
|
---|
44 | #include "STFocus.h"
|
---|
45 | #include "STTcal.h"
|
---|
46 | #include "STMolecules.h"
|
---|
47 | #include "STSelector.h"
|
---|
48 | #include "STHistory.h"
|
---|
49 | #include "STPol.h"
|
---|
50 | #include "STFit.h"
|
---|
51 | #include "STFitEntry.h"
|
---|
52 | #include "STFitter.h"
|
---|
53 |
|
---|
54 | namespace asap {
|
---|
55 |
|
---|
56 | /**
|
---|
57 | * This class contains and wraps a casa::Table, which is used to store
|
---|
58 | * all the information. This can be either a MemoryTable or a
|
---|
59 | * disk based Table.
|
---|
60 | * It provides access functions to the underlying table
|
---|
61 | * It contains n subtables:
|
---|
62 | * @li weather
|
---|
63 | * @li frequencies
|
---|
64 | * @li molecules
|
---|
65 | * @li tcal
|
---|
66 | * @li focus
|
---|
67 | * @li fits
|
---|
68 | *
|
---|
69 | * @brief The main ASAP data container
|
---|
70 | * @author Malte Marquarding
|
---|
71 | * @date
|
---|
72 | * @version
|
---|
73 | */
|
---|
74 | class Scantable : private Logger
|
---|
75 | {
|
---|
76 |
|
---|
77 | friend class STMath;
|
---|
78 |
|
---|
79 | public:
|
---|
80 | /**
|
---|
81 | * Default constructor
|
---|
82 | */
|
---|
83 | explicit Scantable(casa::Table::TableType ttype = casa::Table::Memory);
|
---|
84 |
|
---|
85 | /**
|
---|
86 | * Create a Scantable object form an existing table on disk
|
---|
87 | * @param[in] name the name of the existing Scantable
|
---|
88 | */
|
---|
89 | explicit Scantable(const std::string& name, casa::Table::TableType ttype = casa::Table::Memory);
|
---|
90 |
|
---|
91 | /// @fixme this is only sensible for MemoryTables....
|
---|
92 | Scantable(const Scantable& other, bool clear=true);
|
---|
93 |
|
---|
94 | /**
|
---|
95 | * Destructor
|
---|
96 | */
|
---|
97 | virtual ~Scantable();
|
---|
98 |
|
---|
99 | /**
|
---|
100 | * get a const reference to the underlying casa::Table
|
---|
101 | * @return const \ref casa::Table reference
|
---|
102 | */
|
---|
103 | const casa::Table& table() const;
|
---|
104 |
|
---|
105 | /**
|
---|
106 | * get a reference to the underlying casa::Table with the Selection
|
---|
107 | * object applied if set
|
---|
108 | * @return casa::Table reference
|
---|
109 | */
|
---|
110 | casa::Table& table();
|
---|
111 |
|
---|
112 |
|
---|
113 | /**
|
---|
114 | * Get a handle to the selection object
|
---|
115 | * @return constant STSelector reference
|
---|
116 | */
|
---|
117 | const STSelector& getSelection() const { return selector_; }
|
---|
118 |
|
---|
119 | /**
|
---|
120 | * Set the data to be a subset as defined by the STSelector
|
---|
121 | * @param selection a STSelector object
|
---|
122 | */
|
---|
123 | void setSelection(const STSelector& selection);
|
---|
124 |
|
---|
125 | /**
|
---|
126 | * unset the selection of the data
|
---|
127 | */
|
---|
128 | void unsetSelection();
|
---|
129 | /**
|
---|
130 | * set the header
|
---|
131 | * @param[in] sth an STHeader object
|
---|
132 | */
|
---|
133 | void setHeader( const STHeader& sth );
|
---|
134 |
|
---|
135 | /**
|
---|
136 | * get the header information
|
---|
137 | * @return an STHeader object
|
---|
138 | */
|
---|
139 | STHeader getHeader( ) const;
|
---|
140 |
|
---|
141 | /**
|
---|
142 | * Checks if the "other" Scantable is conformant with this,
|
---|
143 | * i.e. if header values are the same.
|
---|
144 | * @param[in] other another Scantable
|
---|
145 | * @return true or false
|
---|
146 | */
|
---|
147 | bool conformant( const Scantable& other);
|
---|
148 |
|
---|
149 | /**
|
---|
150 | *
|
---|
151 | * @param stype The type of the source, 0 = on, 1 = off
|
---|
152 | */
|
---|
153 | void setSourceType(int stype);
|
---|
154 |
|
---|
155 |
|
---|
156 | /**
|
---|
157 | * The number of scans in the table
|
---|
158 | * @return number of scans in the table
|
---|
159 | */
|
---|
160 | int nscan() const;
|
---|
161 |
|
---|
162 | casa::MEpoch::Types getTimeReference() const;
|
---|
163 |
|
---|
164 |
|
---|
165 | casa::MEpoch getEpoch(int whichrow) const;
|
---|
166 |
|
---|
167 | /**
|
---|
168 | * Get global antenna position
|
---|
169 | * @return casa::MPosition
|
---|
170 | */
|
---|
171 | casa::MPosition getAntennaPosition() const;
|
---|
172 |
|
---|
173 | /**
|
---|
174 | * the @ref casa::MDirection for a specific row
|
---|
175 | * @param[in] whichrow the row number
|
---|
176 | * return casa::MDirection
|
---|
177 | */
|
---|
178 | casa::MDirection getDirection( int whichrow ) const;
|
---|
179 |
|
---|
180 | /**
|
---|
181 | * get the direction type as a string, e.g. "J2000"
|
---|
182 | * @param[in] whichrow the row number
|
---|
183 | * return the direction string
|
---|
184 | */
|
---|
185 | std::string getDirectionString( int whichrow ) const;
|
---|
186 |
|
---|
187 | /**
|
---|
188 | * set the direction type as a string, e.g. "J2000"
|
---|
189 | * @param[in] refstr the direction type
|
---|
190 | */
|
---|
191 | void setDirectionRefString(const std::string& refstr="");
|
---|
192 |
|
---|
193 | /**
|
---|
194 | * get the direction reference string
|
---|
195 | * @return a string describing the direction reference
|
---|
196 | */
|
---|
197 | std::string getDirectionRefString() const;
|
---|
198 |
|
---|
199 | /**
|
---|
200 | * Return the Flux unit of the data, e.g. "Jy" or "K"
|
---|
201 | * @return string
|
---|
202 | */
|
---|
203 | std::string getFluxUnit() const;
|
---|
204 |
|
---|
205 | /**
|
---|
206 | * Set the Flux unit of the data
|
---|
207 | * @param unit a string representing the unit, e.g "Jy" or "K"
|
---|
208 | */
|
---|
209 | void setFluxUnit( const std::string& unit );
|
---|
210 |
|
---|
211 | /**
|
---|
212 | * Set the Stokes type of the data
|
---|
213 | * @param feedtype a string representing the type, e.g "circular" or "linear"
|
---|
214 | */
|
---|
215 | void setFeedType( const std::string& feedtype );
|
---|
216 |
|
---|
217 | /**
|
---|
218 | *
|
---|
219 | * @param instrument a string representing an insturment. see xxx
|
---|
220 | */
|
---|
221 | void setInstrument( const std::string& instrument );
|
---|
222 |
|
---|
223 | /**
|
---|
224 | * (Re)calculate the azimuth and elevationnfor all rows
|
---|
225 | */
|
---|
226 | void calculateAZEL();
|
---|
227 |
|
---|
228 | /**
|
---|
229 | * "hard" flag the data, this flags everything selected in setSelection()
|
---|
230 | * param[in] msk a boolean mask of length nchan describing the points to
|
---|
231 | * to be flagged
|
---|
232 | */
|
---|
233 | //void flag( const std::vector<bool>& msk = std::vector<bool>());
|
---|
234 | //void flag( const std::vector<bool>& msk = std::vector<bool>(), bool unflag=false);
|
---|
235 |
|
---|
236 | void flag( int whichrow = -1, const std::vector<bool>& msk = std::vector<bool>(), bool unflag=false);
|
---|
237 |
|
---|
238 | /**
|
---|
239 | * Flag the data in a row-based manner. (CAS-1433 Wataru Kawasaki)
|
---|
240 | * param[in] rows list of row numbers to be flagged
|
---|
241 | */
|
---|
242 | void flagRow( const std::vector<casa::uInt>& rows = std::vector<casa::uInt>(), bool unflag=false);
|
---|
243 |
|
---|
244 | /**
|
---|
245 | * Get flagRow info at the specified row. If true, the whole data
|
---|
246 | * at the row should be flagged.
|
---|
247 | */
|
---|
248 | bool getFlagRow(int whichrow) const
|
---|
249 | { return (flagrowCol_(whichrow) > 0); }
|
---|
250 |
|
---|
251 | /**
|
---|
252 | * Flag the data outside a specified range (in a channel-based manner).
|
---|
253 | * (CAS-1807 Wataru Kawasaki)
|
---|
254 | */
|
---|
255 | void clip(const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag);
|
---|
256 |
|
---|
257 | /**
|
---|
258 | * Return a list of booleans with the size of nchan for a specified row, to get info
|
---|
259 | * about which channel is clipped.
|
---|
260 | */
|
---|
261 | std::vector<bool> getClipMask(int whichrow, const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag);
|
---|
262 | void srchChannelsToClip(casa::uInt whichrow, const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag,
|
---|
263 | casa::Vector<casa::uChar> flgs);
|
---|
264 |
|
---|
265 | /**
|
---|
266 | * Return a list of row numbers with respect to the original table.
|
---|
267 | * @return a list of unsigned ints
|
---|
268 | */
|
---|
269 | std::vector<unsigned int> rownumbers() const;
|
---|
270 |
|
---|
271 |
|
---|
272 | /**
|
---|
273 | * Get the number of beams in the data or a specific scan
|
---|
274 | * @param scanno the scan number to get the number of beams for.
|
---|
275 | * If scanno<0 the number is retrieved from the header.
|
---|
276 | * @return an integer number
|
---|
277 | */
|
---|
278 | int nbeam(int scanno=-1) const;
|
---|
279 | /**
|
---|
280 | * Get the number of IFs in the data or a specific scan
|
---|
281 | * @param scanno the scan number to get the number of IFs for.
|
---|
282 | * If scanno<0 the number is retrieved from the header.
|
---|
283 | * @return an integer number
|
---|
284 | */
|
---|
285 | int nif(int scanno=-1) const;
|
---|
286 | /**
|
---|
287 | * Get the number of polarizations in the data or a specific scan
|
---|
288 | * @param scanno the scan number to get the number of polarizations for.
|
---|
289 | * If scanno<0 the number is retrieved from the header.
|
---|
290 | * @return an integer number
|
---|
291 | */
|
---|
292 | int npol(int scanno=-1) const;
|
---|
293 |
|
---|
294 | std::string getPolType() const;
|
---|
295 |
|
---|
296 |
|
---|
297 | /**
|
---|
298 | * Get the number of integartion cycles
|
---|
299 | * @param scanno the scan number to get the number of rows for.
|
---|
300 | * If scanno<0 the number is retrieved from the header.
|
---|
301 | * @return the number of rows (for the specified scanno)
|
---|
302 | */
|
---|
303 | int nrow(int scanno=-1) const;
|
---|
304 |
|
---|
305 | int getBeam(int whichrow) const;
|
---|
306 | std::vector<uint> getBeamNos() const { return getNumbers(beamCol_); }
|
---|
307 |
|
---|
308 | int getIF(int whichrow) const;
|
---|
309 | std::vector<uint> getIFNos() const { return getNumbers(ifCol_); }
|
---|
310 |
|
---|
311 | int getPol(int whichrow) const;
|
---|
312 | std::vector<uint> getPolNos() const { return getNumbers(polCol_); }
|
---|
313 |
|
---|
314 | std::vector<uint> getScanNos() const { return getNumbers(scanCol_); }
|
---|
315 | int getScan(int whichrow) const { return scanCol_(whichrow); }
|
---|
316 |
|
---|
317 | //TT addition
|
---|
318 | std::vector<uint> getMolNos() {return getNumbers(mmolidCol_); }
|
---|
319 |
|
---|
320 | /**
|
---|
321 | * Get the number of channels in the data or a specific IF. This currently
|
---|
322 | * varies only with IF number
|
---|
323 | * @param ifno the IF number to get the number of channels for.
|
---|
324 | * If ifno<0 the number is retrieved from the header.
|
---|
325 | * @return an integer number
|
---|
326 | */
|
---|
327 | int nchan(int ifno=-1) const;
|
---|
328 | int getChannels(int whichrow) const;
|
---|
329 |
|
---|
330 | int ncycle(int scanno=-1) const;
|
---|
331 | int getCycle(int whichrow) const { return cycleCol_(whichrow); }
|
---|
332 |
|
---|
333 | double getInterval(int whichrow) const
|
---|
334 | { return integrCol_(whichrow); }
|
---|
335 |
|
---|
336 | float getTsys(int whichrow) const
|
---|
337 | { return casa::Vector<casa::Float>(tsysCol_(whichrow))(0); }
|
---|
338 | std::vector<float> getTsysSpectrum(int whichrow) const ;
|
---|
339 | float getElevation(int whichrow) const
|
---|
340 | { return elCol_(whichrow); }
|
---|
341 | float getAzimuth(int whichrow) const
|
---|
342 | { return azCol_(whichrow); }
|
---|
343 | float getParAngle(int whichrow) const
|
---|
344 | { return focus().getParAngle(mfocusidCol_(whichrow)); }
|
---|
345 | int getTcalId(int whichrow) const
|
---|
346 | { return mtcalidCol_(whichrow); }
|
---|
347 |
|
---|
348 | std::string getSourceName(int whichrow) const
|
---|
349 | { return srcnCol_(whichrow); }
|
---|
350 |
|
---|
351 | std::vector<bool> getMask(int whichrow) const;
|
---|
352 | std::vector<float> getSpectrum(int whichrow,
|
---|
353 | const std::string& poltype = "" ) const;
|
---|
354 |
|
---|
355 | void setSpectrum(const std::vector<float>& spec, int whichrow);
|
---|
356 |
|
---|
357 | std::string getPolarizationLabel(int index, const std::string& ptype) const
|
---|
358 | { return STPol::getPolLabel(index, ptype ); }
|
---|
359 |
|
---|
360 | /**
|
---|
361 | * Write the Scantable to disk
|
---|
362 | * @param filename the output file name
|
---|
363 | */
|
---|
364 | void makePersistent(const std::string& filename);
|
---|
365 |
|
---|
366 | std::vector<std::string> getHistory() const
|
---|
367 | { return historyTable_.getHistory(); };
|
---|
368 |
|
---|
369 | void addHistory(const std::string& hist) { historyTable_.addEntry(hist); }
|
---|
370 |
|
---|
371 | void appendToHistoryTable(const STHistory& otherhist)
|
---|
372 | { historyTable_.append(otherhist); }
|
---|
373 |
|
---|
374 | std::string headerSummary(bool verbose=false);
|
---|
375 | std::string summary(bool verbose=false);
|
---|
376 | //std::string getTime(int whichrow=-1, bool showdate=true) const;
|
---|
377 | std::string getTime(int whichrow=-1, bool showdate=true, casa::uInt prec=0) const;
|
---|
378 | double getIntTime(int whichrow) const { return integrCol_(whichrow); }
|
---|
379 |
|
---|
380 | // returns unit, conversion frame, doppler, base-frame
|
---|
381 |
|
---|
382 | /**
|
---|
383 | * Get the frequency set up
|
---|
384 | * This is forwarded to the STFrequencies subtable
|
---|
385 | * @return unit, frame, doppler
|
---|
386 | */
|
---|
387 | std::vector<std::string> getCoordInfo() const
|
---|
388 | { return freqTable_.getInfo(); };
|
---|
389 |
|
---|
390 | void setCoordInfo(std::vector<string> theinfo)
|
---|
391 | { return freqTable_.setInfo(theinfo); };
|
---|
392 |
|
---|
393 |
|
---|
394 | std::vector<double> getAbcissa(int whichrow) const;
|
---|
395 |
|
---|
396 | std::vector<float> getWeather(int whichrow) const;
|
---|
397 |
|
---|
398 | std::string getAbcissaLabel(int whichrow) const;
|
---|
399 | std::vector<double> getRestFrequencies() const
|
---|
400 | { return moleculeTable_.getRestFrequencies(); }
|
---|
401 | std::vector<double> getRestFrequency(int id) const
|
---|
402 | { return moleculeTable_.getRestFrequency(id); }
|
---|
403 |
|
---|
404 | /**
|
---|
405 | void setRestFrequencies(double rf, const std::string& name = "",
|
---|
406 | const std::string& = "Hz");
|
---|
407 | **/
|
---|
408 | // Modified by Takeshi Nakazato 05/09/2008
|
---|
409 | /***
|
---|
410 | void setRestFrequencies(vector<double> rf, const vector<std::string>& name = "",
|
---|
411 | const std::string& = "Hz");
|
---|
412 | ***/
|
---|
413 | void setRestFrequencies(vector<double> rf,
|
---|
414 | const vector<std::string>& name = vector<std::string>(1,""),
|
---|
415 | const std::string& = "Hz");
|
---|
416 |
|
---|
417 | //void setRestFrequencies(const std::string& name);
|
---|
418 | void setRestFrequencies(const vector<std::string>& name);
|
---|
419 |
|
---|
420 | void shift(int npix);
|
---|
421 |
|
---|
422 | casa::SpectralCoordinate getSpectralCoordinate(int whichrow) const;
|
---|
423 |
|
---|
424 | void convertDirection(const std::string& newframe);
|
---|
425 |
|
---|
426 | STFrequencies& frequencies() { return freqTable_; }
|
---|
427 | const STFrequencies& frequencies() const { return freqTable_; }
|
---|
428 | STWeather& weather() { return weatherTable_; }
|
---|
429 | const STWeather& weather() const { return weatherTable_; }
|
---|
430 | STFocus& focus() { return focusTable_; }
|
---|
431 | const STFocus& focus() const { return focusTable_; }
|
---|
432 | STTcal& tcal() { return tcalTable_; }
|
---|
433 | const STTcal& tcal() const { return tcalTable_; }
|
---|
434 | STMolecules& molecules() { return moleculeTable_; }
|
---|
435 | const STMolecules& molecules() const { return moleculeTable_; }
|
---|
436 | STHistory& history() { return historyTable_; }
|
---|
437 | const STHistory& history() const { return historyTable_; }
|
---|
438 | STFit& fit() { return fitTable_; }
|
---|
439 | const STFit& fit() const { return fitTable_; }
|
---|
440 |
|
---|
441 | std::vector<std::string> columnNames() const;
|
---|
442 |
|
---|
443 | void addFit(const STFitEntry& fit, int row);
|
---|
444 | STFitEntry getFit(int row) const
|
---|
445 | { STFitEntry fe; fitTable_.getEntry(fe, mfitidCol_(row)); return fe; }
|
---|
446 |
|
---|
447 | //Added by TT
|
---|
448 | /**
|
---|
449 | * Get the antenna name
|
---|
450 | * @return antenna name string
|
---|
451 | */
|
---|
452 | casa::String getAntennaName() const;
|
---|
453 |
|
---|
454 | /**
|
---|
455 | * For GBT MS data only. check a scan list
|
---|
456 | * against the information found in GBT_GO table for
|
---|
457 | * scan number orders to get correct pairs.
|
---|
458 | * @param[in] scan list
|
---|
459 | * @return status
|
---|
460 | */
|
---|
461 | int checkScanInfo(const std::vector<int>& scanlist) const;
|
---|
462 |
|
---|
463 | /**
|
---|
464 | * Get the direction as a vector, for a specific row
|
---|
465 | * @param[in] whichrow the row numbyyer
|
---|
466 | * @return the direction in a vector
|
---|
467 | */
|
---|
468 | std::vector<double> getDirectionVector(int whichrow) const;
|
---|
469 |
|
---|
470 | /**
|
---|
471 | * Set a flag indicating whether the data was parallactified
|
---|
472 | * @param[in] flag true or false
|
---|
473 | */
|
---|
474 | void parallactify(bool flag)
|
---|
475 | { focus().setParallactify(flag); }
|
---|
476 |
|
---|
477 | /**
|
---|
478 | * Reshape spectrum
|
---|
479 | * @param[in] nmin, nmax minimum and maximum channel
|
---|
480 | * @param[in] irow row number
|
---|
481 | *
|
---|
482 | * 30/07/2008 Takeshi Nakazato
|
---|
483 | **/
|
---|
484 | void reshapeSpectrum( int nmin, int nmax ) throw( casa::AipsError );
|
---|
485 | void reshapeSpectrum( int nmin, int nmax, int irow ) ;
|
---|
486 |
|
---|
487 | /**
|
---|
488 | * Change channel number under fixed bandwidth
|
---|
489 | * @param[in] nchan, dnu new channel number and spectral resolution
|
---|
490 | * @param[in] irow row number
|
---|
491 | *
|
---|
492 | * 27/08/2008 Takeshi Nakazato
|
---|
493 | **/
|
---|
494 | void regridChannel( int nchan, double dnu ) ;
|
---|
495 | void regridChannel( int nchan, double dnu, int irow ) ;
|
---|
496 |
|
---|
497 | bool getFlagtraFast(casa::uInt whichrow);
|
---|
498 |
|
---|
499 | void polyBaseline(const std::vector<bool>& mask,
|
---|
500 | int order,
|
---|
501 | bool getResidual=true,
|
---|
502 | bool outLogger=false,
|
---|
503 | const std::string& blfile="");
|
---|
504 | void autoPolyBaseline(const std::vector<bool>& mask,
|
---|
505 | int order,
|
---|
506 | const std::vector<int>& edge,
|
---|
507 | float threshold=3.0,
|
---|
508 | int chanAvgLimit=1,
|
---|
509 | bool getResidual=true,
|
---|
510 | bool outLogger=false,
|
---|
511 | const std::string& blfile="");
|
---|
512 | void cubicSplineBaseline(const std::vector<bool>& mask,
|
---|
513 | int nPiece,
|
---|
514 | float thresClip,
|
---|
515 | int nIterClip,
|
---|
516 | bool getResidual=true,
|
---|
517 | bool outLogger=false,
|
---|
518 | const std::string& blfile="");
|
---|
519 | void autoCubicSplineBaseline(const std::vector<bool>& mask,
|
---|
520 | int nPiece,
|
---|
521 | float thresClip,
|
---|
522 | int nIterClip,
|
---|
523 | const std::vector<int>& edge,
|
---|
524 | float threshold=3.0,
|
---|
525 | int chanAvgLimit=1,
|
---|
526 | bool getResidual=true,
|
---|
527 | bool outLogger=false,
|
---|
528 | const std::string& blfile="");
|
---|
529 | void sinusoidBaseline(const std::vector<bool>& mask,
|
---|
530 | const std::vector<int>& nWaves,
|
---|
531 | float maxWaveLength,
|
---|
532 | float thresClip,
|
---|
533 | int nIterClip,
|
---|
534 | bool getResidual=true,
|
---|
535 | bool outLogger=false,
|
---|
536 | const std::string& blfile="");
|
---|
537 | void autoSinusoidBaseline(const std::vector<bool>& mask,
|
---|
538 | const std::vector<int>& nWaves,
|
---|
539 | float maxWaveLength,
|
---|
540 | float thresClip,
|
---|
541 | int nIterClip,
|
---|
542 | const std::vector<int>& edge,
|
---|
543 | float threshold=3.0,
|
---|
544 | int chanAvgLimit=1,
|
---|
545 | bool getResidual=true,
|
---|
546 | bool outLogger=false,
|
---|
547 | const std::string& blfile="");
|
---|
548 | float getRms(const std::vector<bool>& mask, int whichrow);
|
---|
549 | std::string formatBaselineParams(const std::vector<float>& params,
|
---|
550 | const std::vector<bool>& fixed,
|
---|
551 | float rms,
|
---|
552 | const std::string& masklist,
|
---|
553 | int whichrow,
|
---|
554 | bool verbose=false,
|
---|
555 | int start=-1,
|
---|
556 | int count=-1,
|
---|
557 | bool resetparamid=false) const;
|
---|
558 | std::string formatPiecewiseBaselineParams(const std::vector<int>& ranges,
|
---|
559 | const std::vector<float>& params,
|
---|
560 | const std::vector<bool>& fixed,
|
---|
561 | float rms,
|
---|
562 | const std::string& masklist,
|
---|
563 | int whichrow,
|
---|
564 | bool verbose=false) const;
|
---|
565 |
|
---|
566 |
|
---|
567 | private:
|
---|
568 |
|
---|
569 | casa::Matrix<casa::Float> getPolMatrix( casa::uInt whichrow ) const;
|
---|
570 |
|
---|
571 | /**
|
---|
572 | * Turns a time value into a formatted string
|
---|
573 | * @param x
|
---|
574 | * @return
|
---|
575 | */
|
---|
576 | std::string formatSec(casa::Double x) const;
|
---|
577 |
|
---|
578 | std::string formatTime(const casa::MEpoch& me, bool showdate)const;
|
---|
579 | std::string formatTime(const casa::MEpoch& me, bool showdate, casa::uInt prec)const;
|
---|
580 |
|
---|
581 | /**
|
---|
582 | * Turns a casa::MDirection into a nicely formatted string
|
---|
583 | * @param md an casa::MDirection
|
---|
584 | * @return
|
---|
585 | */
|
---|
586 | std::string formatDirection(const casa::MDirection& md) const;
|
---|
587 |
|
---|
588 | /**
|
---|
589 | * Create a unique file name for the paged (temporary) table
|
---|
590 | * @return just the name
|
---|
591 | */
|
---|
592 | static casa::String generateName();
|
---|
593 |
|
---|
594 | /**
|
---|
595 | * attach to cached columns
|
---|
596 | */
|
---|
597 | void attach();
|
---|
598 |
|
---|
599 | /**
|
---|
600 | * Set up the main casa::Table
|
---|
601 | */
|
---|
602 | void setupMainTable();
|
---|
603 |
|
---|
604 | void attachSubtables();
|
---|
605 | void copySubtables(const Scantable& other);
|
---|
606 |
|
---|
607 | /**
|
---|
608 | * Convert an "old" asap1 style row index into a new index
|
---|
609 | * @param[in] therow
|
---|
610 | * @return and index into @table_
|
---|
611 | */
|
---|
612 | int rowToScanIndex(int therow);
|
---|
613 |
|
---|
614 | std::vector<uint> getNumbers(const casa::ScalarColumn<casa::uInt>& col) const;
|
---|
615 |
|
---|
616 | static const casa::uInt version_ = 3;
|
---|
617 |
|
---|
618 | STSelector selector_;
|
---|
619 |
|
---|
620 | casa::Table::TableType type_;
|
---|
621 |
|
---|
622 | // the actual data
|
---|
623 | casa::Table table_;
|
---|
624 | casa::Table originalTable_;
|
---|
625 |
|
---|
626 | STTcal tcalTable_;
|
---|
627 | STFrequencies freqTable_;
|
---|
628 | STWeather weatherTable_;
|
---|
629 | STFocus focusTable_;
|
---|
630 | STMolecules moleculeTable_;
|
---|
631 | STHistory historyTable_;
|
---|
632 | STFit fitTable_;
|
---|
633 |
|
---|
634 | // Cached Columns to avoid reconstructing them for each row get/put
|
---|
635 | casa::ScalarColumn<casa::Double> integrCol_;
|
---|
636 | casa::MDirection::ScalarColumn dirCol_;
|
---|
637 | casa::MEpoch::ScalarColumn timeCol_;
|
---|
638 | casa::ScalarColumn<casa::Float> azCol_;
|
---|
639 | casa::ScalarColumn<casa::Float> elCol_;
|
---|
640 | casa::ScalarColumn<casa::String> srcnCol_, fldnCol_;
|
---|
641 | casa::ScalarColumn<casa::uInt> scanCol_, beamCol_, ifCol_, polCol_, cycleCol_, flagrowCol_;
|
---|
642 | casa::ScalarColumn<casa::Int> rbeamCol_, srctCol_;
|
---|
643 | casa::ArrayColumn<casa::Float> specCol_, tsysCol_;
|
---|
644 | casa::ArrayColumn<casa::uChar> flagsCol_;
|
---|
645 |
|
---|
646 | // id in frequencies table
|
---|
647 | casa::ScalarColumn<casa::uInt> mfreqidCol_;
|
---|
648 | // id in tcal table
|
---|
649 | casa::ScalarColumn<casa::uInt> mtcalidCol_;
|
---|
650 |
|
---|
651 | casa::ArrayColumn<casa::String> histitemCol_;
|
---|
652 | casa::ScalarColumn<casa::Int> mfitidCol_;
|
---|
653 | casa::ScalarColumn<casa::uInt> mweatheridCol_;
|
---|
654 |
|
---|
655 | casa::ScalarColumn<casa::uInt> mfocusidCol_;
|
---|
656 |
|
---|
657 | casa::ScalarColumn<casa::uInt> mmolidCol_;
|
---|
658 |
|
---|
659 | static std::map<std::string, STPol::STPolFactory *> factories_;
|
---|
660 | void initFactories();
|
---|
661 |
|
---|
662 | /**
|
---|
663 | * Add an auxiliary column to the main table and attach it to a
|
---|
664 | * cached column. Use for adding new columns that the original asap2
|
---|
665 | * tables do not have.
|
---|
666 | * @param[in] col reference to the cached column to be attached
|
---|
667 | * @param[in] colName column name in asap table
|
---|
668 | * @param[in] defValue default value to fill in the column
|
---|
669 | *
|
---|
670 | * 25/10/2009 Wataru Kawasaki
|
---|
671 | */
|
---|
672 | template<class T, class T2> void attachAuxColumnDef(casa::ScalarColumn<T>&,
|
---|
673 | const casa::String&,
|
---|
674 | const T2&);
|
---|
675 | template<class T, class T2> void attachAuxColumnDef(casa::ArrayColumn<T>&,
|
---|
676 | const casa::String&,
|
---|
677 | const casa::Array<T2>&);
|
---|
678 |
|
---|
679 | void fitBaseline(const std::vector<bool>& mask, int whichrow, Fitter& fitter);
|
---|
680 | std::vector<float> doCubicSplineFitting(const std::vector<float>& data,
|
---|
681 | const std::vector<bool>& mask,
|
---|
682 | int nPiece,
|
---|
683 | std::vector<int>& idxEdge,
|
---|
684 | std::vector<float>& params,
|
---|
685 | float thresClip=3.0,
|
---|
686 | int nIterClip=1,
|
---|
687 | bool getResidual=true);
|
---|
688 | std::vector<float> doSinusoidFitting(const std::vector<float>& data,
|
---|
689 | const std::vector<bool>& mask,
|
---|
690 | const std::vector<int>& waveNumbers,
|
---|
691 | float maxWaveLength,
|
---|
692 | std::vector<float>& params,
|
---|
693 | float thresClip=3.0,
|
---|
694 | int nIterClip=1,
|
---|
695 | bool getResidual=true);
|
---|
696 | bool hasSameNchanOverIFs();
|
---|
697 | std::string getMaskRangeList(const std::vector<bool>& mask,
|
---|
698 | int whichrow,
|
---|
699 | const casa::String& coordInfo,
|
---|
700 | bool hasSameNchan,
|
---|
701 | bool verbose=false);
|
---|
702 | std::vector<int> getMaskEdgeIndices(const std::vector<bool>& mask);
|
---|
703 | std::string formatBaselineParamsHeader(int whichrow, const std::string& masklist, bool verbose) const;
|
---|
704 | std::string formatBaselineParamsFooter(float rms, bool verbose) const;
|
---|
705 | std::vector<bool> getCompositeChanMask(int whichrow, const std::vector<bool>& inMask);
|
---|
706 | //std::vector<bool> getCompositeChanMask(int whichrow, const std::vector<bool>& inMask, const std::vector<int>& edge, const int minEdgeSize, STLineFinder& lineFinder);
|
---|
707 | void outputFittingResult(bool outLogger, bool outTextFile, const std::vector<bool>& chanMask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, std::ofstream& ofs, const casa::String& funcName, Fitter& fitter);
|
---|
708 | void outputFittingResult(bool outLogger, bool outTextFile, const std::vector<bool>& chanMask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, std::ofstream& ofs, const casa::String& funcName, const std::vector<int>& edge, const std::vector<float>& params);
|
---|
709 | void outputFittingResult(bool outLogger, bool outTextFile, const std::vector<bool>& chanMask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, std::ofstream& ofs, const casa::String& funcName, const std::vector<float>& params);
|
---|
710 |
|
---|
711 | void applyChanFlag( casa::uInt whichrow, const std::vector<bool>& msk, casa::uChar flagval);
|
---|
712 |
|
---|
713 |
|
---|
714 | };
|
---|
715 |
|
---|
716 | } // namespace
|
---|
717 |
|
---|
718 | #endif
|
---|