source: trunk/src/Scantable.h@ 2298

Last change on this file since 2298 was 2290, checked in by Kana Sugimoto, 13 years ago

New Development: Yes

JIRA Issue: Yes (CAS-3219/ASAP-247)

Ready for Test: Yes

Interface Changes: No

What Interface Changed:

Test Programs: sdlist unit test (reference data to be updated)

Put in Release Notes: Yes

Module(s): scantable.summary, sdlist

Description:

Output format of scantable summary changed.
Less use of TableIterator for speed up scantable.summary/sdlist now lists a scantable
with 348,000 records (NRO 45m w/ 25beams x 13,920scans) in ~30sec (was ~7 min previously).


  • Property svn:eol-style set to native
  • Property svn:keywords set to Author Date Id Revision
File size: 23.9 KB
RevLine 
[824]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
[2]14
15// STL
[2186]16#include <fstream>
17#include <iostream>
18#include <sstream>
[2]19#include <string>
20#include <vector>
21// AIPS++
[455]22#include <casa/aips.h>
[322]23#include <casa/Arrays/MaskedArray.h>
[2186]24#include <casa/Arrays/Vector.h>
[80]25#include <casa/BasicSL/String.h>
[2186]26#include <casa/Containers/Record.h>
27#include <casa/Exceptions/Error.h>
28#include <casa/Quanta/Quantum.h>
[824]29#include <casa/Utilities/CountedPtr.h>
30
[2186]31#include <coordinates/Coordinates/SpectralCoordinate.h>
[322]32
[824]33#include <measures/TableMeasures/ScalarMeasColumn.h>
34
[2186]35#include <scimath/Mathematics/FFTServer.h>
[1598]36
[2186]37#include <tables/Tables/ArrayColumn.h>
38#include <tables/Tables/ScalarColumn.h>
39#include <tables/Tables/Table.h>
[1819]40
[894]41#include "Logger.h"
[2186]42#include "MathUtils.h"
43#include "STFit.h"
44#include "STFitEntry.h"
45#include "STFitter.h"
46#include "STFocus.h"
47#include "STFrequencies.h"
[901]48#include "STHeader.h"
[2186]49#include "STHistory.h"
[824]50#include "STMolecules.h"
[2186]51#include "STPol.h"
[824]52#include "STSelector.h"
[2186]53#include "STTcal.h"
54#include "STWeather.h"
[2]55
[824]56namespace asap {
[2]57
[824]58/**
59 * This class contains and wraps a casa::Table, which is used to store
60 * all the information. This can be either a MemoryTable or a
61 * disk based Table.
62 * It provides access functions to the underlying table
63 * It contains n subtables:
64 * @li weather
65 * @li frequencies
66 * @li molecules
67 * @li tcal
68 * @li focus
69 * @li fits
70 *
71 * @brief The main ASAP data container
72 * @author Malte Marquarding
73 * @date
74 * @version
75*/
[890]76class Scantable : private Logger
[824]77{
[902]78
79friend class STMath;
80
[2]81public:
[824]82 /**
83 * Default constructor
84 */
[1350]85 explicit Scantable(casa::Table::TableType ttype = casa::Table::Memory);
[19]86
[824]87 /**
88 * Create a Scantable object form an existing table on disk
89 * @param[in] name the name of the existing Scantable
90 */
[1385]91 explicit Scantable(const std::string& name, casa::Table::TableType ttype = casa::Table::Memory);
[2]92
[824]93 /// @fixme this is only sensible for MemoryTables....
94 Scantable(const Scantable& other, bool clear=true);
[161]95
[824]96 /**
97 * Destructor
98 */
99 virtual ~Scantable();
[745]100
[824]101 /**
102 * get a const reference to the underlying casa::Table
[1104]103 * @return const \ref casa::Table reference
[824]104 */
105 const casa::Table& table() const;
[19]106
[824]107 /**
108 * get a reference to the underlying casa::Table with the Selection
109 * object applied if set
110 * @return casa::Table reference
111 */
112 casa::Table& table();
[21]113
[845]114
115 /**
116 * Get a handle to the selection object
117 * @return constant STSelector reference
118 */
119 const STSelector& getSelection() const { return selector_; }
120
121 /**
122 * Set the data to be a subset as defined by the STSelector
123 * @param selection a STSelector object
124 */
[824]125 void setSelection(const STSelector& selection);
[845]126
127 /**
128 * unset the selection of the data
129 */
[824]130 void unsetSelection();
131 /**
132 * set the header
[1295]133 * @param[in] sth an STHeader object
[824]134 */
[901]135 void setHeader( const STHeader& sth );
[386]136
[824]137 /**
138 * get the header information
[901]139 * @return an STHeader object
[824]140 */
[901]141 STHeader getHeader( ) const;
[1068]142
[824]143 /**
144 * Checks if the "other" Scantable is conformant with this,
145 * i.e. if header values are the same.
146 * @param[in] other another Scantable
147 * @return true or false
148 */
149 bool conformant( const Scantable& other);
[430]150
[824]151 /**
[1068]152 *
153 * @param stype The type of the source, 0 = on, 1 = off
154 */
155 void setSourceType(int stype);
156
157
158 /**
[1104]159 * The number of scans in the table
[824]160 * @return number of scans in the table
161 */
[845]162 int nscan() const;
[490]163
[915]164 casa::MEpoch::Types getTimeReference() const;
[21]165
[1411]166
167 casa::MEpoch getEpoch(int whichrow) const;
168
[824]169 /**
170 * Get global antenna position
[845]171 * @return casa::MPosition
[824]172 */
173 casa::MPosition getAntennaPosition() const;
[490]174
[1441]175 /**
176 * the @ref casa::MDirection for a specific row
177 * @param[in] whichrow the row number
178 * return casa::MDirection
179 */
[987]180 casa::MDirection getDirection( int whichrow ) const;
[1598]181
[1441]182 /**
183 * get the direction type as a string, e.g. "J2000"
184 * @param[in] whichrow the row number
185 * return the direction string
186 */
[1068]187 std::string getDirectionString( int whichrow ) const;
188
[1441]189 /**
190 * set the direction type as a string, e.g. "J2000"
191 * @param[in] refstr the direction type
192 */
[987]193 void setDirectionRefString(const std::string& refstr="");
[1441]194
[1104]195 /**
196 * get the direction reference string
197 * @return a string describing the direction reference
198 */
[1598]199 std::string getDirectionRefString() const;
[987]200
[824]201 /**
[845]202 * Return the Flux unit of the data, e.g. "Jy" or "K"
203 * @return string
[824]204 */
205 std::string getFluxUnit() const;
[472]206
[824]207 /**
[845]208 * Set the Flux unit of the data
209 * @param unit a string representing the unit, e.g "Jy" or "K"
[824]210 */
211 void setFluxUnit( const std::string& unit );
[472]212
[824]213 /**
[1189]214 * Set the Stokes type of the data
[1295]215 * @param feedtype a string representing the type, e.g "circular" or "linear"
[1189]216 */
217 void setFeedType( const std::string& feedtype );
218
219 /**
[824]220 *
[845]221 * @param instrument a string representing an insturment. see xxx
[824]222 */
223 void setInstrument( const std::string& instrument );
[2]224
[845]225 /**
226 * (Re)calculate the azimuth and elevationnfor all rows
227 */
[824]228 void calculateAZEL();
[745]229
[824]230 /**
[845]231 * "hard" flag the data, this flags everything selected in setSelection()
[1104]232 * param[in] msk a boolean mask of length nchan describing the points to
233 * to be flagged
[824]234 */
[1430]235 //void flag( const std::vector<bool>& msk = std::vector<bool>());
[1994]236 //void flag( const std::vector<bool>& msk = std::vector<bool>(), bool unflag=false);
[455]237
[1994]238 void flag( int whichrow = -1, const std::vector<bool>& msk = std::vector<bool>(), bool unflag=false);
239
[852]240 /**
[1819]241 * Flag the data in a row-based manner. (CAS-1433 Wataru Kawasaki)
242 * param[in] rows list of row numbers to be flagged
243 */
244 void flagRow( const std::vector<casa::uInt>& rows = std::vector<casa::uInt>(), bool unflag=false);
245
246 /**
247 * Get flagRow info at the specified row. If true, the whole data
248 * at the row should be flagged.
249 */
250 bool getFlagRow(int whichrow) const
251 { return (flagrowCol_(whichrow) > 0); }
252
253 /**
254 * Flag the data outside a specified range (in a channel-based manner).
255 * (CAS-1807 Wataru Kawasaki)
256 */
257 void clip(const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag);
258
259 /**
260 * Return a list of booleans with the size of nchan for a specified row, to get info
261 * about which channel is clipped.
262 */
263 std::vector<bool> getClipMask(int whichrow, const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag);
264 void srchChannelsToClip(casa::uInt whichrow, const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag,
265 casa::Vector<casa::uChar> flgs);
266
267 /**
[852]268 * Return a list of row numbers with respect to the original table.
[902]269 * @return a list of unsigned ints
[852]270 */
271 std::vector<unsigned int> rownumbers() const;
[845]272
[852]273
[845]274 /**
275 * Get the number of beams in the data or a specific scan
276 * @param scanno the scan number to get the number of beams for.
277 * If scanno<0 the number is retrieved from the header.
278 * @return an integer number
279 */
[824]280 int nbeam(int scanno=-1) const;
[845]281 /**
282 * Get the number of IFs in the data or a specific scan
283 * @param scanno the scan number to get the number of IFs for.
284 * If scanno<0 the number is retrieved from the header.
285 * @return an integer number
286 */
[824]287 int nif(int scanno=-1) const;
[845]288 /**
289 * Get the number of polarizations in the data or a specific scan
290 * @param scanno the scan number to get the number of polarizations for.
291 * If scanno<0 the number is retrieved from the header.
292 * @return an integer number
293 */
[824]294 int npol(int scanno=-1) const;
[794]295
[896]296 std::string getPolType() const;
297
[845]298
299 /**
300 * Get the number of integartion cycles
301 * @param scanno the scan number to get the number of rows for.
302 * If scanno<0 the number is retrieved from the header.
[1104]303 * @return the number of rows (for the specified scanno)
[845]304 */
[824]305 int nrow(int scanno=-1) const;
[794]306
[1111]307 int getBeam(int whichrow) const;
[1694]308 std::vector<uint> getBeamNos() const { return getNumbers(beamCol_); }
[50]309
[847]310 int getIF(int whichrow) const;
[1694]311 std::vector<uint> getIFNos() const { return getNumbers(ifCol_); }
[1111]312
[847]313 int getPol(int whichrow) const;
[1694]314 std::vector<uint> getPolNos() const { return getNumbers(polCol_); }
[1111]315
[1694]316 std::vector<uint> getScanNos() const { return getNumbers(scanCol_); }
[865]317 int getScan(int whichrow) const { return scanCol_(whichrow); }
[1111]318
[1819]319 //TT addition
320 std::vector<uint> getMolNos() {return getNumbers(mmolidCol_); }
321
[1111]322 /**
323 * Get the number of channels in the data or a specific IF. This currently
324 * varies only with IF number
325 * @param ifno the IF number to get the number of channels for.
326 * If ifno<0 the number is retrieved from the header.
327 * @return an integer number
328 */
329 int nchan(int ifno=-1) const;
[923]330 int getChannels(int whichrow) const;
[206]331
[1111]332 int ncycle(int scanno=-1) const;
333 int getCycle(int whichrow) const { return cycleCol_(whichrow); }
334
[847]335 double getInterval(int whichrow) const
336 { return integrCol_(whichrow); }
[845]337
[865]338 float getTsys(int whichrow) const
339 { return casa::Vector<casa::Float>(tsysCol_(whichrow))(0); }
[2161]340 std::vector<float> getTsysSpectrum(int whichrow) const ;
[847]341 float getElevation(int whichrow) const
342 { return elCol_(whichrow); }
343 float getAzimuth(int whichrow) const
344 { return azCol_(whichrow); }
[865]345 float getParAngle(int whichrow) const
[1819]346 { return focus().getParAngle(mfocusidCol_(whichrow)); }
347 int getTcalId(int whichrow) const
348 { return mtcalidCol_(whichrow); }
[386]349
[865]350 std::string getSourceName(int whichrow) const
351 { return srcnCol_(whichrow); }
352
[847]353 std::vector<bool> getMask(int whichrow) const;
[896]354 std::vector<float> getSpectrum(int whichrow,
[905]355 const std::string& poltype = "" ) const;
[847]356
[884]357 void setSpectrum(const std::vector<float>& spec, int whichrow);
358
[902]359 std::string getPolarizationLabel(int index, const std::string& ptype) const
360 { return STPol::getPolLabel(index, ptype ); }
[401]361
[845]362 /**
363 * Write the Scantable to disk
364 * @param filename the output file name
365 */
[824]366 void makePersistent(const std::string& filename);
[745]367
[860]368 std::vector<std::string> getHistory() const
369 { return historyTable_.getHistory(); };
[483]370
[860]371 void addHistory(const std::string& hist) { historyTable_.addEntry(hist); }
[488]372
[860]373 void appendToHistoryTable(const STHistory& otherhist)
374 { historyTable_.append(otherhist); }
375
[2163]376 std::string headerSummary();
[2290]377 void summary(const std::string& filename="");
378 std::string oldheaderSummary();
[2286]379 // std::string summary();
[2290]380 void oldsummary(const std::string& filename="");
381
[1947]382 //std::string getTime(int whichrow=-1, bool showdate=true) const;
383 std::string getTime(int whichrow=-1, bool showdate=true, casa::uInt prec=0) const;
[1350]384 double getIntTime(int whichrow) const { return integrCol_(whichrow); }
[19]385
[847]386 // returns unit, conversion frame, doppler, base-frame
[18]387
[847]388 /**
389 * Get the frequency set up
390 * This is forwarded to the STFrequencies subtable
391 * @return unit, frame, doppler
392 */
393 std::vector<std::string> getCoordInfo() const
394 { return freqTable_.getInfo(); };
395
396 void setCoordInfo(std::vector<string> theinfo)
397 { return freqTable_.setInfo(theinfo); };
398
[865]399
400 std::vector<double> getAbcissa(int whichrow) const;
401
[1730]402 std::vector<float> getWeather(int whichrow) const;
403
[847]404 std::string getAbcissaLabel(int whichrow) const;
405 std::vector<double> getRestFrequencies() const
406 { return moleculeTable_.getRestFrequencies(); }
[1819]407 std::vector<double> getRestFrequency(int id) const
408 { return moleculeTable_.getRestFrequency(id); }
[847]409
[1819]410 /**
[1170]411 void setRestFrequencies(double rf, const std::string& name = "",
412 const std::string& = "Hz");
[1819]413 **/
414 // Modified by Takeshi Nakazato 05/09/2008
415 /***
416 void setRestFrequencies(vector<double> rf, const vector<std::string>& name = "",
417 const std::string& = "Hz");
418 ***/
419 void setRestFrequencies(vector<double> rf,
420 const vector<std::string>& name = vector<std::string>(1,""),
421 const std::string& = "Hz");
[847]422
[1819]423 //void setRestFrequencies(const std::string& name);
424 void setRestFrequencies(const vector<std::string>& name);
425
[1360]426 void shift(int npix);
427
[1598]428 casa::SpectralCoordinate getSpectralCoordinate(int whichrow) const;
429
[987]430 void convertDirection(const std::string& newframe);
431
[824]432 STFrequencies& frequencies() { return freqTable_; }
[1375]433 const STFrequencies& frequencies() const { return freqTable_; }
[824]434 STWeather& weather() { return weatherTable_; }
[1375]435 const STWeather& weather() const { return weatherTable_; }
[824]436 STFocus& focus() { return focusTable_; }
[1375]437 const STFocus& focus() const { return focusTable_; }
[824]438 STTcal& tcal() { return tcalTable_; }
[1375]439 const STTcal& tcal() const { return tcalTable_; }
[824]440 STMolecules& molecules() { return moleculeTable_; }
[1375]441 const STMolecules& molecules() const { return moleculeTable_; }
[860]442 STHistory& history() { return historyTable_; }
[1375]443 const STHistory& history() const { return historyTable_; }
[972]444 STFit& fit() { return fitTable_; }
[1375]445 const STFit& fit() const { return fitTable_; }
[2]446
[902]447 std::vector<std::string> columnNames() const;
[896]448
[972]449 void addFit(const STFitEntry& fit, int row);
450 STFitEntry getFit(int row) const
451 { STFitEntry fe; fitTable_.getEntry(fe, mfitidCol_(row)); return fe; }
452
[1391]453 //Added by TT
454 /**
455 * Get the antenna name
456 * @return antenna name string
457 */
[1819]458 casa::String getAntennaName() const;
[1391]459
460 /**
461 * For GBT MS data only. check a scan list
462 * against the information found in GBT_GO table for
463 * scan number orders to get correct pairs.
464 * @param[in] scan list
465 * @return status
466 */
467 int checkScanInfo(const std::vector<int>& scanlist) const;
468
469 /**
470 * Get the direction as a vector, for a specific row
471 * @param[in] whichrow the row numbyyer
472 * @return the direction in a vector
473 */
474 std::vector<double> getDirectionVector(int whichrow) const;
475
[1586]476 /**
477 * Set a flag indicating whether the data was parallactified
478 * @param[in] flag true or false
479 */
[1598]480 void parallactify(bool flag)
[1727]481 { focus().setParallactify(flag); }
482
[1819]483 /**
484 * Reshape spectrum
485 * @param[in] nmin, nmax minimum and maximum channel
486 * @param[in] irow row number
487 *
488 * 30/07/2008 Takeshi Nakazato
489 **/
490 void reshapeSpectrum( int nmin, int nmax ) throw( casa::AipsError );
491 void reshapeSpectrum( int nmin, int nmax, int irow ) ;
492
493 /**
494 * Change channel number under fixed bandwidth
495 * @param[in] nchan, dnu new channel number and spectral resolution
496 * @param[in] irow row number
497 *
498 * 27/08/2008 Takeshi Nakazato
499 **/
500 void regridChannel( int nchan, double dnu ) ;
501 void regridChannel( int nchan, double dnu, int irow ) ;
502
[2047]503 bool getFlagtraFast(casa::uInt whichrow);
[1819]504
[2012]505 void polyBaseline(const std::vector<bool>& mask,
506 int order,
[2094]507 bool getResidual=true,
[2189]508 const std::string& progressInfo="true,1000",
509 const bool outLogger=false,
[2012]510 const std::string& blfile="");
511 void autoPolyBaseline(const std::vector<bool>& mask,
512 int order,
513 const std::vector<int>& edge,
514 float threshold=3.0,
515 int chanAvgLimit=1,
[2094]516 bool getResidual=true,
[2189]517 const std::string& progressInfo="true,1000",
518 const bool outLogger=false,
[2012]519 const std::string& blfile="");
520 void cubicSplineBaseline(const std::vector<bool>& mask,
521 int nPiece,
522 float thresClip,
523 int nIterClip,
[2094]524 bool getResidual=true,
[2189]525 const std::string& progressInfo="true,1000",
526 const bool outLogger=false,
[2012]527 const std::string& blfile="");
528 void autoCubicSplineBaseline(const std::vector<bool>& mask,
529 int nPiece,
530 float thresClip,
531 int nIterClip,
532 const std::vector<int>& edge,
533 float threshold=3.0,
534 int chanAvgLimit=1,
[2094]535 bool getResidual=true,
[2189]536 const std::string& progressInfo="true,1000",
537 const bool outLogger=false,
[2012]538 const std::string& blfile="");
[2047]539 void sinusoidBaseline(const std::vector<bool>& mask,
[2186]540 const bool applyFFT,
541 const std::string& fftMethod,
542 const std::string& fftThresh,
543 const std::vector<int>& addNWaves,
544 const std::vector<int>& rejectNWaves,
[2047]545 float thresClip,
546 int nIterClip,
[2081]547 bool getResidual=true,
[2189]548 const std::string& progressInfo="true,1000",
549 const bool outLogger=false,
[2047]550 const std::string& blfile="");
551 void autoSinusoidBaseline(const std::vector<bool>& mask,
[2186]552 const bool applyFFT,
553 const std::string& fftMethod,
554 const std::string& fftThresh,
555 const std::vector<int>& addNWaves,
556 const std::vector<int>& rejectNWaves,
[2047]557 float thresClip,
558 int nIterClip,
559 const std::vector<int>& edge,
560 float threshold=3.0,
561 int chanAvgLimit=1,
[2081]562 bool getResidual=true,
[2189]563 const std::string& progressInfo="true,1000",
564 const bool outLogger=false,
[2047]565 const std::string& blfile="");
[2186]566 std::vector<float> execFFT(const int whichrow,
567 const std::vector<bool>& inMask,
568 bool getRealImag=false,
569 bool getAmplitudeOnly=false);
[2012]570 float getRms(const std::vector<bool>& mask, int whichrow);
571 std::string formatBaselineParams(const std::vector<float>& params,
572 const std::vector<bool>& fixed,
573 float rms,
[2193]574 int nClipped,
[2012]575 const std::string& masklist,
576 int whichrow,
[2064]577 bool verbose=false,
578 int start=-1,
579 int count=-1,
580 bool resetparamid=false) const;
[2012]581 std::string formatPiecewiseBaselineParams(const std::vector<int>& ranges,
582 const std::vector<float>& params,
583 const std::vector<bool>& fixed,
584 float rms,
[2193]585 int nClipped,
[2012]586 const std::string& masklist,
587 int whichrow,
588 bool verbose=false) const;
[1907]589
[2012]590
[824]591private:
[896]592
593 casa::Matrix<casa::Float> getPolMatrix( casa::uInt whichrow ) const;
594
[824]595 /**
[2005]596 * Turns a time value into a formatted string
[824]597 * @param x
598 * @return
599 */
600 std::string formatSec(casa::Double x) const;
[18]601
[824]602 std::string formatTime(const casa::MEpoch& me, bool showdate)const;
[1947]603 std::string formatTime(const casa::MEpoch& me, bool showdate, casa::uInt prec)const;
[22]604
[824]605 /**
606 * Turns a casa::MDirection into a nicely formatted string
607 * @param md an casa::MDirection
608 * @return
609 */
610 std::string formatDirection(const casa::MDirection& md) const;
[19]611
[824]612 /**
613 * Create a unique file name for the paged (temporary) table
614 * @return just the name
615 */
616 static casa::String generateName();
[286]617
[824]618 /**
619 * attach to cached columns
620 */
621 void attach();
[50]622
[824]623 /**
624 * Set up the main casa::Table
625 */
626 void setupMainTable();
[88]627
[859]628 void attachSubtables();
[865]629 void copySubtables(const Scantable& other);
630
[824]631 /**
632 * Convert an "old" asap1 style row index into a new index
633 * @param[in] therow
634 * @return and index into @table_
635 */
636 int rowToScanIndex(int therow);
[212]637
[1694]638 std::vector<uint> getNumbers(const casa::ScalarColumn<casa::uInt>& col) const;
[1111]639
[1586]640 static const casa::uInt version_ = 3;
[286]641
[824]642 STSelector selector_;
[236]643
[824]644 casa::Table::TableType type_;
[465]645
[824]646 // the actual data
647 casa::Table table_;
648 casa::Table originalTable_;
[745]649
[824]650 STTcal tcalTable_;
651 STFrequencies freqTable_;
652 STWeather weatherTable_;
653 STFocus focusTable_;
654 STMolecules moleculeTable_;
[860]655 STHistory historyTable_;
[960]656 STFit fitTable_;
[860]657
[824]658 // Cached Columns to avoid reconstructing them for each row get/put
[847]659 casa::ScalarColumn<casa::Double> integrCol_;
[824]660 casa::MDirection::ScalarColumn dirCol_;
[847]661 casa::MEpoch::ScalarColumn timeCol_;
[923]662 casa::ScalarColumn<casa::Float> azCol_;
663 casa::ScalarColumn<casa::Float> elCol_;
[824]664 casa::ScalarColumn<casa::String> srcnCol_, fldnCol_;
[1819]665 casa::ScalarColumn<casa::uInt> scanCol_, beamCol_, ifCol_, polCol_, cycleCol_, flagrowCol_;
[1068]666 casa::ScalarColumn<casa::Int> rbeamCol_, srctCol_;
[865]667 casa::ArrayColumn<casa::Float> specCol_, tsysCol_;
[824]668 casa::ArrayColumn<casa::uChar> flagsCol_;
[430]669
[824]670 // id in frequencies table
671 casa::ScalarColumn<casa::uInt> mfreqidCol_;
672 // id in tcal table
673 casa::ScalarColumn<casa::uInt> mtcalidCol_;
[430]674
[824]675 casa::ArrayColumn<casa::String> histitemCol_;
[972]676 casa::ScalarColumn<casa::Int> mfitidCol_;
[824]677 casa::ScalarColumn<casa::uInt> mweatheridCol_;
[322]678
[824]679 casa::ScalarColumn<casa::uInt> mfocusidCol_;
680
681 casa::ScalarColumn<casa::uInt> mmolidCol_;
682
[896]683 static std::map<std::string, STPol::STPolFactory *> factories_;
684 void initFactories();
685
[1819]686 /**
687 * Add an auxiliary column to the main table and attach it to a
688 * cached column. Use for adding new columns that the original asap2
689 * tables do not have.
690 * @param[in] col reference to the cached column to be attached
691 * @param[in] colName column name in asap table
692 * @param[in] defValue default value to fill in the column
693 *
694 * 25/10/2009 Wataru Kawasaki
695 */
696 template<class T, class T2> void attachAuxColumnDef(casa::ScalarColumn<T>&,
697 const casa::String&,
698 const T2&);
699 template<class T, class T2> void attachAuxColumnDef(casa::ArrayColumn<T>&,
700 const casa::String&,
701 const casa::Array<T2>&);
[1907]702
[2012]703 void fitBaseline(const std::vector<bool>& mask, int whichrow, Fitter& fitter);
704 std::vector<float> doCubicSplineFitting(const std::vector<float>& data,
705 const std::vector<bool>& mask,
[2081]706 int nPiece,
[2064]707 std::vector<int>& idxEdge,
[2012]708 std::vector<float>& params,
[2193]709 int& nClipped,
[2012]710 float thresClip=3.0,
[2058]711 int nIterClip=1,
[2094]712 bool getResidual=true);
[2047]713 std::vector<float> doSinusoidFitting(const std::vector<float>& data,
714 const std::vector<bool>& mask,
[2081]715 const std::vector<int>& waveNumbers,
[2047]716 std::vector<float>& params,
[2193]717 int& nClipped,
[2047]718 float thresClip=3.0,
[2058]719 int nIterClip=1,
[2094]720 bool getResidual=true);
[2186]721 void selectWaveNumbers(const int whichrow,
722 const std::vector<bool>& chanMask,
723 const bool applyFFT,
724 const std::string& fftMethod,
725 const std::string& fftThresh,
726 const std::vector<int>& addNWaves,
727 const std::vector<int>& rejectNWaves,
728 std::vector<int>& nWaves);
729 void parseThresholdExpression(const std::string& fftThresh,
730 std::string& fftThAttr,
731 float& fftThSigma,
732 int& fftThTop);
733 void doSelectWaveNumbers(const int whichrow,
734 const std::vector<bool>& chanMask,
735 const std::string& fftMethod,
736 const float fftThSigma,
737 const int fftThTop,
738 const std::string& fftThAttr,
739 std::vector<int>& nWaves);
740 void addAuxWaveNumbers(const std::vector<int>& addNWaves,
741 const std::vector<int>& rejectNWaves,
742 std::vector<int>& nWaves);
[2012]743 bool hasSameNchanOverIFs();
744 std::string getMaskRangeList(const std::vector<bool>& mask,
745 int whichrow,
746 const casa::String& coordInfo,
[2047]747 bool hasSameNchan,
748 bool verbose=false);
749 std::vector<int> getMaskEdgeIndices(const std::vector<bool>& mask);
[2012]750 std::string formatBaselineParamsHeader(int whichrow, const std::string& masklist, bool verbose) const;
[2193]751 std::string formatBaselineParamsFooter(float rms, int nClipped, bool verbose) const;
[2012]752 std::vector<bool> getCompositeChanMask(int whichrow, const std::vector<bool>& inMask);
753 //std::vector<bool> getCompositeChanMask(int whichrow, const std::vector<bool>& inMask, const std::vector<int>& edge, const int minEdgeSize, STLineFinder& lineFinder);
[2047]754 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);
[2193]755 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, const int nClipped);
756 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, const int nClipped);
[2189]757 void parseProgressInfo(const std::string& progressInfo, bool& showProgress, int& minNRow);
758 void showProgressOnTerminal(const int nProcessed, const int nTotal, const bool showProgress=true, const int nTotalThreshold=1000);
[1994]759
760 void applyChanFlag( casa::uInt whichrow, const std::vector<bool>& msk, casa::uChar flagval);
761
762
[2]763};
764
[824]765} // namespace
766
[2]767#endif
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