[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>
|
---|
[2186] | 30 | #include <coordinates/Coordinates/SpectralCoordinate.h>
|
---|
[824] | 31 | #include <measures/TableMeasures/ScalarMeasColumn.h>
|
---|
[2186] | 32 | #include <scimath/Mathematics/FFTServer.h>
|
---|
| 33 | #include <tables/Tables/ArrayColumn.h>
|
---|
| 34 | #include <tables/Tables/ScalarColumn.h>
|
---|
| 35 | #include <tables/Tables/Table.h>
|
---|
[1819] | 36 |
|
---|
[2186] | 37 | #include "MathUtils.h"
|
---|
[2767] | 38 | #include "STBaselineEnum.h"
|
---|
[2186] | 39 | #include "STFit.h"
|
---|
| 40 | #include "STFitEntry.h"
|
---|
| 41 | #include "STFocus.h"
|
---|
| 42 | #include "STFrequencies.h"
|
---|
[901] | 43 | #include "STHeader.h"
|
---|
[2186] | 44 | #include "STHistory.h"
|
---|
[824] | 45 | #include "STMolecules.h"
|
---|
[2186] | 46 | #include "STPol.h"
|
---|
[824] | 47 | #include "STSelector.h"
|
---|
[2186] | 48 | #include "STTcal.h"
|
---|
| 49 | #include "STWeather.h"
|
---|
[2] | 50 |
|
---|
[824] | 51 | namespace asap {
|
---|
[2] | 52 |
|
---|
[2666] | 53 | class Fitter;
|
---|
[2773] | 54 | class STLineFinder;
|
---|
| 55 | class STBaselineTable;
|
---|
[2666] | 56 |
|
---|
[824] | 57 | /**
|
---|
| 58 | * This class contains and wraps a casa::Table, which is used to store
|
---|
| 59 | * all the information. This can be either a MemoryTable or a
|
---|
| 60 | * disk based Table.
|
---|
| 61 | * It provides access functions to the underlying table
|
---|
| 62 | * It contains n subtables:
|
---|
| 63 | * @li weather
|
---|
| 64 | * @li frequencies
|
---|
| 65 | * @li molecules
|
---|
| 66 | * @li tcal
|
---|
| 67 | * @li focus
|
---|
| 68 | * @li fits
|
---|
| 69 | *
|
---|
| 70 | * @brief The main ASAP data container
|
---|
| 71 | * @author Malte Marquarding
|
---|
| 72 | * @date
|
---|
| 73 | * @version
|
---|
| 74 | */
|
---|
[2658] | 75 | class Scantable
|
---|
[824] | 76 | {
|
---|
[902] | 77 |
|
---|
| 78 | friend class STMath;
|
---|
| 79 |
|
---|
[2] | 80 | public:
|
---|
[824] | 81 | /**
|
---|
| 82 | * Default constructor
|
---|
| 83 | */
|
---|
[1350] | 84 | explicit Scantable(casa::Table::TableType ttype = casa::Table::Memory);
|
---|
[19] | 85 |
|
---|
[824] | 86 | /**
|
---|
[2321] | 87 | * Create a Scantable object from an existing table on disk
|
---|
[824] | 88 | * @param[in] name the name of the existing Scantable
|
---|
| 89 | */
|
---|
[2321] | 90 | explicit Scantable(const std::string& name,
|
---|
| 91 | 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 |
|
---|
[2818] | 157 | /**
|
---|
| 158 | *
|
---|
| 159 | * @param stype The name of the source
|
---|
| 160 | */
|
---|
| 161 | void setSourceName(const std::string& name);
|
---|
[1068] | 162 |
|
---|
[2818] | 163 |
|
---|
[1068] | 164 | /**
|
---|
[1104] | 165 | * The number of scans in the table
|
---|
[824] | 166 | * @return number of scans in the table
|
---|
| 167 | */
|
---|
[845] | 168 | int nscan() const;
|
---|
[490] | 169 |
|
---|
[915] | 170 | casa::MEpoch::Types getTimeReference() const;
|
---|
[21] | 171 |
|
---|
[1411] | 172 |
|
---|
| 173 | casa::MEpoch getEpoch(int whichrow) const;
|
---|
| 174 |
|
---|
[824] | 175 | /**
|
---|
| 176 | * Get global antenna position
|
---|
[845] | 177 | * @return casa::MPosition
|
---|
[824] | 178 | */
|
---|
| 179 | casa::MPosition getAntennaPosition() const;
|
---|
[490] | 180 |
|
---|
[1441] | 181 | /**
|
---|
| 182 | * the @ref casa::MDirection for a specific row
|
---|
| 183 | * @param[in] whichrow the row number
|
---|
| 184 | * return casa::MDirection
|
---|
| 185 | */
|
---|
[987] | 186 | casa::MDirection getDirection( int whichrow ) const;
|
---|
[1598] | 187 |
|
---|
[1441] | 188 | /**
|
---|
| 189 | * get the direction type as a string, e.g. "J2000"
|
---|
| 190 | * @param[in] whichrow the row number
|
---|
| 191 | * return the direction string
|
---|
| 192 | */
|
---|
[1068] | 193 | std::string getDirectionString( int whichrow ) const;
|
---|
| 194 |
|
---|
[1441] | 195 | /**
|
---|
| 196 | * set the direction type as a string, e.g. "J2000"
|
---|
| 197 | * @param[in] refstr the direction type
|
---|
| 198 | */
|
---|
[987] | 199 | void setDirectionRefString(const std::string& refstr="");
|
---|
[1441] | 200 |
|
---|
[1104] | 201 | /**
|
---|
| 202 | * get the direction reference string
|
---|
| 203 | * @return a string describing the direction reference
|
---|
| 204 | */
|
---|
[1598] | 205 | std::string getDirectionRefString() const;
|
---|
[987] | 206 |
|
---|
[824] | 207 | /**
|
---|
[845] | 208 | * Return the Flux unit of the data, e.g. "Jy" or "K"
|
---|
| 209 | * @return string
|
---|
[824] | 210 | */
|
---|
| 211 | std::string getFluxUnit() const;
|
---|
[472] | 212 |
|
---|
[824] | 213 | /**
|
---|
[845] | 214 | * Set the Flux unit of the data
|
---|
| 215 | * @param unit a string representing the unit, e.g "Jy" or "K"
|
---|
[824] | 216 | */
|
---|
| 217 | void setFluxUnit( const std::string& unit );
|
---|
[472] | 218 |
|
---|
[824] | 219 | /**
|
---|
[1189] | 220 | * Set the Stokes type of the data
|
---|
[1295] | 221 | * @param feedtype a string representing the type, e.g "circular" or "linear"
|
---|
[1189] | 222 | */
|
---|
| 223 | void setFeedType( const std::string& feedtype );
|
---|
| 224 |
|
---|
| 225 | /**
|
---|
[824] | 226 | *
|
---|
[845] | 227 | * @param instrument a string representing an insturment. see xxx
|
---|
[824] | 228 | */
|
---|
| 229 | void setInstrument( const std::string& instrument );
|
---|
[2] | 230 |
|
---|
[845] | 231 | /**
|
---|
| 232 | * (Re)calculate the azimuth and elevationnfor all rows
|
---|
| 233 | */
|
---|
[824] | 234 | void calculateAZEL();
|
---|
[745] | 235 |
|
---|
[824] | 236 | /**
|
---|
[845] | 237 | * "hard" flag the data, this flags everything selected in setSelection()
|
---|
[1104] | 238 | * param[in] msk a boolean mask of length nchan describing the points to
|
---|
| 239 | * to be flagged
|
---|
[824] | 240 | */
|
---|
[1430] | 241 | //void flag( const std::vector<bool>& msk = std::vector<bool>());
|
---|
[1994] | 242 | //void flag( const std::vector<bool>& msk = std::vector<bool>(), bool unflag=false);
|
---|
[455] | 243 |
|
---|
[1994] | 244 | void flag( int whichrow = -1, const std::vector<bool>& msk = std::vector<bool>(), bool unflag=false);
|
---|
| 245 |
|
---|
[852] | 246 | /**
|
---|
[1819] | 247 | * Flag the data in a row-based manner. (CAS-1433 Wataru Kawasaki)
|
---|
| 248 | * param[in] rows list of row numbers to be flagged
|
---|
| 249 | */
|
---|
| 250 | void flagRow( const std::vector<casa::uInt>& rows = std::vector<casa::uInt>(), bool unflag=false);
|
---|
| 251 |
|
---|
| 252 | /**
|
---|
| 253 | * Get flagRow info at the specified row. If true, the whole data
|
---|
| 254 | * at the row should be flagged.
|
---|
| 255 | */
|
---|
| 256 | bool getFlagRow(int whichrow) const
|
---|
| 257 | { return (flagrowCol_(whichrow) > 0); }
|
---|
| 258 |
|
---|
| 259 | /**
|
---|
| 260 | * Flag the data outside a specified range (in a channel-based manner).
|
---|
| 261 | * (CAS-1807 Wataru Kawasaki)
|
---|
| 262 | */
|
---|
| 263 | void clip(const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag);
|
---|
| 264 |
|
---|
| 265 | /**
|
---|
| 266 | * Return a list of booleans with the size of nchan for a specified row, to get info
|
---|
| 267 | * about which channel is clipped.
|
---|
| 268 | */
|
---|
| 269 | std::vector<bool> getClipMask(int whichrow, const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag);
|
---|
| 270 | void srchChannelsToClip(casa::uInt whichrow, const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag,
|
---|
| 271 | casa::Vector<casa::uChar> flgs);
|
---|
| 272 |
|
---|
| 273 | /**
|
---|
[852] | 274 | * Return a list of row numbers with respect to the original table.
|
---|
[902] | 275 | * @return a list of unsigned ints
|
---|
[852] | 276 | */
|
---|
| 277 | std::vector<unsigned int> rownumbers() const;
|
---|
[845] | 278 |
|
---|
[852] | 279 |
|
---|
[845] | 280 | /**
|
---|
| 281 | * Get the number of beams in the data or a specific scan
|
---|
| 282 | * @param scanno the scan number to get the number of beams for.
|
---|
| 283 | * If scanno<0 the number is retrieved from the header.
|
---|
| 284 | * @return an integer number
|
---|
| 285 | */
|
---|
[824] | 286 | int nbeam(int scanno=-1) const;
|
---|
[845] | 287 | /**
|
---|
| 288 | * Get the number of IFs in the data or a specific scan
|
---|
| 289 | * @param scanno the scan number to get the number of IFs for.
|
---|
| 290 | * If scanno<0 the number is retrieved from the header.
|
---|
| 291 | * @return an integer number
|
---|
| 292 | */
|
---|
[824] | 293 | int nif(int scanno=-1) const;
|
---|
[845] | 294 | /**
|
---|
| 295 | * Get the number of polarizations in the data or a specific scan
|
---|
| 296 | * @param scanno the scan number to get the number of polarizations for.
|
---|
| 297 | * If scanno<0 the number is retrieved from the header.
|
---|
| 298 | * @return an integer number
|
---|
| 299 | */
|
---|
[824] | 300 | int npol(int scanno=-1) const;
|
---|
[794] | 301 |
|
---|
[896] | 302 | std::string getPolType() const;
|
---|
| 303 |
|
---|
[845] | 304 |
|
---|
| 305 | /**
|
---|
| 306 | * Get the number of integartion cycles
|
---|
| 307 | * @param scanno the scan number to get the number of rows for.
|
---|
| 308 | * If scanno<0 the number is retrieved from the header.
|
---|
[1104] | 309 | * @return the number of rows (for the specified scanno)
|
---|
[845] | 310 | */
|
---|
[824] | 311 | int nrow(int scanno=-1) const;
|
---|
[794] | 312 |
|
---|
[1111] | 313 | int getBeam(int whichrow) const;
|
---|
[1694] | 314 | std::vector<uint> getBeamNos() const { return getNumbers(beamCol_); }
|
---|
[50] | 315 |
|
---|
[847] | 316 | int getIF(int whichrow) const;
|
---|
[1694] | 317 | std::vector<uint> getIFNos() const { return getNumbers(ifCol_); }
|
---|
[1111] | 318 |
|
---|
[847] | 319 | int getPol(int whichrow) const;
|
---|
[1694] | 320 | std::vector<uint> getPolNos() const { return getNumbers(polCol_); }
|
---|
[1111] | 321 |
|
---|
[1694] | 322 | std::vector<uint> getScanNos() const { return getNumbers(scanCol_); }
|
---|
[865] | 323 | int getScan(int whichrow) const { return scanCol_(whichrow); }
|
---|
[1111] | 324 |
|
---|
[2667] | 325 | std::vector<uint> getCycleNos() const { return getNumbers(cycleCol_); }
|
---|
| 326 | int getCycle(int whichrow) const { return cycleCol_(whichrow); }
|
---|
| 327 |
|
---|
[1819] | 328 | //TT addition
|
---|
| 329 | std::vector<uint> getMolNos() {return getNumbers(mmolidCol_); }
|
---|
| 330 |
|
---|
[1111] | 331 | /**
|
---|
| 332 | * Get the number of channels in the data or a specific IF. This currently
|
---|
| 333 | * varies only with IF number
|
---|
| 334 | * @param ifno the IF number to get the number of channels for.
|
---|
| 335 | * If ifno<0 the number is retrieved from the header.
|
---|
| 336 | * @return an integer number
|
---|
| 337 | */
|
---|
| 338 | int nchan(int ifno=-1) const;
|
---|
[923] | 339 | int getChannels(int whichrow) const;
|
---|
[206] | 340 |
|
---|
[1111] | 341 | int ncycle(int scanno=-1) const;
|
---|
| 342 |
|
---|
[2667] | 343 |
|
---|
[847] | 344 | double getInterval(int whichrow) const
|
---|
| 345 | { return integrCol_(whichrow); }
|
---|
[845] | 346 |
|
---|
[865] | 347 | float getTsys(int whichrow) const
|
---|
| 348 | { return casa::Vector<casa::Float>(tsysCol_(whichrow))(0); }
|
---|
[2161] | 349 | std::vector<float> getTsysSpectrum(int whichrow) const ;
|
---|
[2791] | 350 |
|
---|
| 351 | void setTsys(const std::vector<float>& newvals, int whichrow);
|
---|
| 352 |
|
---|
[847] | 353 | float getElevation(int whichrow) const
|
---|
| 354 | { return elCol_(whichrow); }
|
---|
| 355 | float getAzimuth(int whichrow) const
|
---|
| 356 | { return azCol_(whichrow); }
|
---|
[865] | 357 | float getParAngle(int whichrow) const
|
---|
[1819] | 358 | { return focus().getParAngle(mfocusidCol_(whichrow)); }
|
---|
| 359 | int getTcalId(int whichrow) const
|
---|
| 360 | { return mtcalidCol_(whichrow); }
|
---|
[386] | 361 |
|
---|
[865] | 362 | std::string getSourceName(int whichrow) const
|
---|
| 363 | { return srcnCol_(whichrow); }
|
---|
| 364 |
|
---|
[847] | 365 | std::vector<bool> getMask(int whichrow) const;
|
---|
[896] | 366 | std::vector<float> getSpectrum(int whichrow,
|
---|
[905] | 367 | const std::string& poltype = "" ) const;
|
---|
[847] | 368 |
|
---|
[884] | 369 | void setSpectrum(const std::vector<float>& spec, int whichrow);
|
---|
| 370 |
|
---|
[902] | 371 | std::string getPolarizationLabel(int index, const std::string& ptype) const
|
---|
| 372 | { return STPol::getPolLabel(index, ptype ); }
|
---|
[401] | 373 |
|
---|
[845] | 374 | /**
|
---|
| 375 | * Write the Scantable to disk
|
---|
| 376 | * @param filename the output file name
|
---|
| 377 | */
|
---|
[824] | 378 | void makePersistent(const std::string& filename);
|
---|
[745] | 379 |
|
---|
[2820] | 380 | std::vector<std::string> getHistory(int nrow=-1, int start=0) const
|
---|
| 381 | { return historyTable_.getHistory(nrow, start); }
|
---|
[483] | 382 |
|
---|
[2820] | 383 | uint historyLength()
|
---|
| 384 | { return historyTable_.nrow(); }
|
---|
| 385 |
|
---|
| 386 | void dropHistory() { historyTable_.drop(); }
|
---|
| 387 |
|
---|
[860] | 388 | void addHistory(const std::string& hist) { historyTable_.addEntry(hist); }
|
---|
[488] | 389 |
|
---|
[860] | 390 | void appendToHistoryTable(const STHistory& otherhist)
|
---|
| 391 | { historyTable_.append(otherhist); }
|
---|
| 392 |
|
---|
[2163] | 393 | std::string headerSummary();
|
---|
[2290] | 394 | void summary(const std::string& filename="");
|
---|
| 395 | std::string oldheaderSummary();
|
---|
[2286] | 396 | // std::string summary();
|
---|
[2290] | 397 | void oldsummary(const std::string& filename="");
|
---|
| 398 |
|
---|
[1947] | 399 | //std::string getTime(int whichrow=-1, bool showdate=true) const;
|
---|
[2818] | 400 | std::string getTime(int whichrow=-1, bool showdate=true,
|
---|
| 401 | casa::uInt prec=0) const;
|
---|
[1350] | 402 | double getIntTime(int whichrow) const { return integrCol_(whichrow); }
|
---|
[19] | 403 |
|
---|
[847] | 404 | // returns unit, conversion frame, doppler, base-frame
|
---|
[18] | 405 |
|
---|
[847] | 406 | /**
|
---|
| 407 | * Get the frequency set up
|
---|
| 408 | * This is forwarded to the STFrequencies subtable
|
---|
| 409 | * @return unit, frame, doppler
|
---|
| 410 | */
|
---|
| 411 | std::vector<std::string> getCoordInfo() const
|
---|
| 412 | { return freqTable_.getInfo(); };
|
---|
| 413 |
|
---|
| 414 | void setCoordInfo(std::vector<string> theinfo)
|
---|
| 415 | { return freqTable_.setInfo(theinfo); };
|
---|
| 416 |
|
---|
[865] | 417 |
|
---|
| 418 | std::vector<double> getAbcissa(int whichrow) const;
|
---|
| 419 |
|
---|
[1730] | 420 | std::vector<float> getWeather(int whichrow) const;
|
---|
| 421 |
|
---|
[847] | 422 | std::string getAbcissaLabel(int whichrow) const;
|
---|
| 423 | std::vector<double> getRestFrequencies() const
|
---|
| 424 | { return moleculeTable_.getRestFrequencies(); }
|
---|
[1819] | 425 | std::vector<double> getRestFrequency(int id) const
|
---|
| 426 | { return moleculeTable_.getRestFrequency(id); }
|
---|
[847] | 427 |
|
---|
[1819] | 428 | /**
|
---|
[1170] | 429 | void setRestFrequencies(double rf, const std::string& name = "",
|
---|
| 430 | const std::string& = "Hz");
|
---|
[1819] | 431 | **/
|
---|
| 432 | // Modified by Takeshi Nakazato 05/09/2008
|
---|
| 433 | /***
|
---|
| 434 | void setRestFrequencies(vector<double> rf, const vector<std::string>& name = "",
|
---|
| 435 | const std::string& = "Hz");
|
---|
| 436 | ***/
|
---|
| 437 | void setRestFrequencies(vector<double> rf,
|
---|
| 438 | const vector<std::string>& name = vector<std::string>(1,""),
|
---|
| 439 | const std::string& = "Hz");
|
---|
[847] | 440 |
|
---|
[1819] | 441 | //void setRestFrequencies(const std::string& name);
|
---|
| 442 | void setRestFrequencies(const vector<std::string>& name);
|
---|
| 443 |
|
---|
[1360] | 444 | void shift(int npix);
|
---|
| 445 |
|
---|
[1598] | 446 | casa::SpectralCoordinate getSpectralCoordinate(int whichrow) const;
|
---|
| 447 |
|
---|
[987] | 448 | void convertDirection(const std::string& newframe);
|
---|
| 449 |
|
---|
[824] | 450 | STFrequencies& frequencies() { return freqTable_; }
|
---|
[1375] | 451 | const STFrequencies& frequencies() const { return freqTable_; }
|
---|
[824] | 452 | STWeather& weather() { return weatherTable_; }
|
---|
[1375] | 453 | const STWeather& weather() const { return weatherTable_; }
|
---|
[824] | 454 | STFocus& focus() { return focusTable_; }
|
---|
[1375] | 455 | const STFocus& focus() const { return focusTable_; }
|
---|
[824] | 456 | STTcal& tcal() { return tcalTable_; }
|
---|
[1375] | 457 | const STTcal& tcal() const { return tcalTable_; }
|
---|
[824] | 458 | STMolecules& molecules() { return moleculeTable_; }
|
---|
[1375] | 459 | const STMolecules& molecules() const { return moleculeTable_; }
|
---|
[860] | 460 | STHistory& history() { return historyTable_; }
|
---|
[1375] | 461 | const STHistory& history() const { return historyTable_; }
|
---|
[972] | 462 | STFit& fit() { return fitTable_; }
|
---|
[1375] | 463 | const STFit& fit() const { return fitTable_; }
|
---|
[2] | 464 |
|
---|
[902] | 465 | std::vector<std::string> columnNames() const;
|
---|
[896] | 466 |
|
---|
[972] | 467 | void addFit(const STFitEntry& fit, int row);
|
---|
| 468 | STFitEntry getFit(int row) const
|
---|
| 469 | { STFitEntry fe; fitTable_.getEntry(fe, mfitidCol_(row)); return fe; }
|
---|
| 470 |
|
---|
[1391] | 471 | //Added by TT
|
---|
| 472 | /**
|
---|
| 473 | * Get the antenna name
|
---|
| 474 | * @return antenna name string
|
---|
| 475 | */
|
---|
[1819] | 476 | casa::String getAntennaName() const;
|
---|
[1391] | 477 |
|
---|
| 478 | /**
|
---|
| 479 | * For GBT MS data only. check a scan list
|
---|
| 480 | * against the information found in GBT_GO table for
|
---|
| 481 | * scan number orders to get correct pairs.
|
---|
| 482 | * @param[in] scan list
|
---|
| 483 | * @return status
|
---|
| 484 | */
|
---|
| 485 | int checkScanInfo(const std::vector<int>& scanlist) const;
|
---|
| 486 |
|
---|
| 487 | /**
|
---|
| 488 | * Get the direction as a vector, for a specific row
|
---|
| 489 | * @param[in] whichrow the row numbyyer
|
---|
| 490 | * @return the direction in a vector
|
---|
| 491 | */
|
---|
| 492 | std::vector<double> getDirectionVector(int whichrow) const;
|
---|
| 493 |
|
---|
[1586] | 494 | /**
|
---|
| 495 | * Set a flag indicating whether the data was parallactified
|
---|
| 496 | * @param[in] flag true or false
|
---|
| 497 | */
|
---|
[1598] | 498 | void parallactify(bool flag)
|
---|
[2357] | 499 | { focusTable_.setParallactify(flag); }
|
---|
[1727] | 500 |
|
---|
[1819] | 501 | /**
|
---|
| 502 | * Reshape spectrum
|
---|
| 503 | * @param[in] nmin, nmax minimum and maximum channel
|
---|
| 504 | * @param[in] irow row number
|
---|
| 505 | *
|
---|
| 506 | * 30/07/2008 Takeshi Nakazato
|
---|
| 507 | **/
|
---|
| 508 | void reshapeSpectrum( int nmin, int nmax ) throw( casa::AipsError );
|
---|
| 509 | void reshapeSpectrum( int nmin, int nmax, int irow ) ;
|
---|
| 510 |
|
---|
| 511 | /**
|
---|
| 512 | * Change channel number under fixed bandwidth
|
---|
| 513 | * @param[in] nchan, dnu new channel number and spectral resolution
|
---|
| 514 | * @param[in] irow row number
|
---|
| 515 | *
|
---|
| 516 | * 27/08/2008 Takeshi Nakazato
|
---|
| 517 | **/
|
---|
| 518 | void regridChannel( int nchan, double dnu ) ;
|
---|
| 519 | void regridChannel( int nchan, double dnu, int irow ) ;
|
---|
[2595] | 520 | void regridChannel( int nchan, double dnu, double fmin, int irow ) ;
|
---|
[2435] | 521 | void regridSpecChannel( double dnu, int nchan=-1 ) ;
|
---|
| 522 |
|
---|
[2047] | 523 | bool getFlagtraFast(casa::uInt whichrow);
|
---|
[1819] | 524 |
|
---|
[2811] | 525 | std::vector<std::string> applyBaselineTable(const std::string& bltable,
|
---|
| 526 | const bool returnfitresult,
|
---|
| 527 | const std::string& outbltable,
|
---|
| 528 | const bool outbltableexists,
|
---|
| 529 | const bool overwrite);
|
---|
| 530 | std::vector<std::string> subBaseline(const std::vector<std::string>& blInfoList,
|
---|
| 531 | const bool returnfitresult,
|
---|
| 532 | const std::string& outbltable,
|
---|
| 533 | const bool outbltableexists,
|
---|
| 534 | const bool overwrite);
|
---|
[2767] | 535 | void polyBaseline(const std::vector<bool>& mask,
|
---|
| 536 | int order,
|
---|
| 537 | float thresClip,
|
---|
| 538 | int nIterClip,
|
---|
[2094] | 539 | bool getResidual=true,
|
---|
[2189] | 540 | const std::string& progressInfo="true,1000",
|
---|
[2767] | 541 | const bool outLogger=false,
|
---|
| 542 | const std::string& blfile="",
|
---|
| 543 | const std::string& bltable="");
|
---|
[2012] | 544 | void autoPolyBaseline(const std::vector<bool>& mask,
|
---|
[2767] | 545 | int order,
|
---|
| 546 | float thresClip,
|
---|
| 547 | int nIterClip,
|
---|
| 548 | const std::vector<int>& edge,
|
---|
| 549 | float threshold=3.0,
|
---|
| 550 | int chanAvgLimit=1,
|
---|
| 551 | bool getResidual=true,
|
---|
| 552 | const std::string& progressInfo="true,1000",
|
---|
| 553 | const bool outLogger=false,
|
---|
| 554 | const std::string& blfile="",
|
---|
| 555 | const std::string& bltable="");
|
---|
[2645] | 556 | void chebyshevBaseline(const std::vector<bool>& mask,
|
---|
| 557 | int order,
|
---|
| 558 | float thresClip,
|
---|
| 559 | int nIterClip,
|
---|
| 560 | bool getResidual=true,
|
---|
| 561 | const std::string& progressInfo="true,1000",
|
---|
| 562 | const bool outLogger=false,
|
---|
[2767] | 563 | const std::string& blfile="",
|
---|
| 564 | const std::string& bltable="");
|
---|
[2645] | 565 | void autoChebyshevBaseline(const std::vector<bool>& mask,
|
---|
| 566 | int order,
|
---|
| 567 | float thresClip,
|
---|
| 568 | int nIterClip,
|
---|
| 569 | const std::vector<int>& edge,
|
---|
| 570 | float threshold=3.0,
|
---|
| 571 | int chanAvgLimit=1,
|
---|
| 572 | bool getResidual=true,
|
---|
| 573 | const std::string& progressInfo="true,1000",
|
---|
| 574 | const bool outLogger=false,
|
---|
[2767] | 575 | const std::string& blfile="",
|
---|
| 576 | const std::string& bltable="");
|
---|
[2012] | 577 | void cubicSplineBaseline(const std::vector<bool>& mask,
|
---|
| 578 | int nPiece,
|
---|
| 579 | float thresClip,
|
---|
| 580 | int nIterClip,
|
---|
[2094] | 581 | bool getResidual=true,
|
---|
[2189] | 582 | const std::string& progressInfo="true,1000",
|
---|
| 583 | const bool outLogger=false,
|
---|
[2767] | 584 | const std::string& blfile="",
|
---|
| 585 | const std::string& bltable="");
|
---|
[2012] | 586 | void autoCubicSplineBaseline(const std::vector<bool>& mask,
|
---|
| 587 | int nPiece,
|
---|
| 588 | float thresClip,
|
---|
| 589 | int nIterClip,
|
---|
| 590 | const std::vector<int>& edge,
|
---|
| 591 | float threshold=3.0,
|
---|
| 592 | int chanAvgLimit=1,
|
---|
[2094] | 593 | bool getResidual=true,
|
---|
[2189] | 594 | const std::string& progressInfo="true,1000",
|
---|
| 595 | const bool outLogger=false,
|
---|
[2767] | 596 | const std::string& blfile="",
|
---|
| 597 | const std::string& bltable="");
|
---|
[2047] | 598 | void sinusoidBaseline(const std::vector<bool>& mask,
|
---|
[2767] | 599 | const std::string& fftInfo,
|
---|
[2186] | 600 | const std::vector<int>& addNWaves,
|
---|
| 601 | const std::vector<int>& rejectNWaves,
|
---|
[2047] | 602 | float thresClip,
|
---|
| 603 | int nIterClip,
|
---|
[2081] | 604 | bool getResidual=true,
|
---|
[2189] | 605 | const std::string& progressInfo="true,1000",
|
---|
| 606 | const bool outLogger=false,
|
---|
[2767] | 607 | const std::string& blfile="",
|
---|
| 608 | const std::string& bltable="");
|
---|
[2047] | 609 | void autoSinusoidBaseline(const std::vector<bool>& mask,
|
---|
[2767] | 610 | const std::string& fftInfo,
|
---|
[2186] | 611 | const std::vector<int>& addNWaves,
|
---|
| 612 | const std::vector<int>& rejectNWaves,
|
---|
[2047] | 613 | float thresClip,
|
---|
| 614 | int nIterClip,
|
---|
| 615 | const std::vector<int>& edge,
|
---|
| 616 | float threshold=3.0,
|
---|
| 617 | int chanAvgLimit=1,
|
---|
[2081] | 618 | bool getResidual=true,
|
---|
[2189] | 619 | const std::string& progressInfo="true,1000",
|
---|
| 620 | const bool outLogger=false,
|
---|
[2767] | 621 | const std::string& blfile="",
|
---|
| 622 | const std::string& bltable="");
|
---|
[2186] | 623 | std::vector<float> execFFT(const int whichrow,
|
---|
| 624 | const std::vector<bool>& inMask,
|
---|
| 625 | bool getRealImag=false,
|
---|
| 626 | bool getAmplitudeOnly=false);
|
---|
[2012] | 627 | float getRms(const std::vector<bool>& mask, int whichrow);
|
---|
| 628 | std::string formatBaselineParams(const std::vector<float>& params,
|
---|
| 629 | const std::vector<bool>& fixed,
|
---|
| 630 | float rms,
|
---|
[2193] | 631 | int nClipped,
|
---|
[2012] | 632 | const std::string& masklist,
|
---|
| 633 | int whichrow,
|
---|
[2064] | 634 | bool verbose=false,
|
---|
[2641] | 635 | bool csvformat=false,
|
---|
[2064] | 636 | int start=-1,
|
---|
| 637 | int count=-1,
|
---|
| 638 | bool resetparamid=false) const;
|
---|
[2012] | 639 | std::string formatPiecewiseBaselineParams(const std::vector<int>& ranges,
|
---|
| 640 | const std::vector<float>& params,
|
---|
| 641 | const std::vector<bool>& fixed,
|
---|
| 642 | float rms,
|
---|
[2193] | 643 | int nClipped,
|
---|
[2012] | 644 | const std::string& masklist,
|
---|
| 645 | int whichrow,
|
---|
[2641] | 646 | bool verbose=false,
|
---|
| 647 | bool csvformat=false) const;
|
---|
[2591] | 648 | std::vector<uint> getMoleculeIdColumnData() const;
|
---|
| 649 | void setMoleculeIdColumnData(const std::vector<uint>& molids);
|
---|
[2713] | 650 | double calculateModelSelectionCriteria(const std::string& valname,
|
---|
| 651 | const std::string& blfunc,
|
---|
| 652 | int order,
|
---|
| 653 | const std::vector<bool>& inMask,
|
---|
| 654 | int whichrow,
|
---|
| 655 | bool useLineFinder,
|
---|
| 656 | const std::vector<int>& edge,
|
---|
| 657 | float threshold,
|
---|
| 658 | int chanAvgLimit);
|
---|
[2767] | 659 | static std::vector<bool> getMaskFromMaskList(const int nchan,
|
---|
[2789] | 660 | const std::vector<int>& masklist);
|
---|
| 661 | static casa::Vector<casa::uInt> getMaskListFromMask(
|
---|
| 662 | const std::vector<bool>& mask);
|
---|
| 663 | static std::vector<int> splitToIntList(const std::string& str,
|
---|
| 664 | const char delim);
|
---|
| 665 | static std::vector<string> splitToStringList(const std::string& str,
|
---|
| 666 | const char delim);
|
---|
[1907] | 667 |
|
---|
[2789] | 668 | void dropXPol();
|
---|
[2012] | 669 |
|
---|
[824] | 670 | private:
|
---|
[896] | 671 |
|
---|
| 672 | casa::Matrix<casa::Float> getPolMatrix( casa::uInt whichrow ) const;
|
---|
| 673 |
|
---|
[824] | 674 | /**
|
---|
[2005] | 675 | * Turns a time value into a formatted string
|
---|
[824] | 676 | * @param x
|
---|
| 677 | * @return
|
---|
| 678 | */
|
---|
| 679 | std::string formatSec(casa::Double x) const;
|
---|
[18] | 680 |
|
---|
[824] | 681 | std::string formatTime(const casa::MEpoch& me, bool showdate)const;
|
---|
[2818] | 682 | std::string formatTime(const casa::MEpoch& me, bool showdate,
|
---|
| 683 | casa::uInt prec)const;
|
---|
[22] | 684 |
|
---|
[824] | 685 | /**
|
---|
| 686 | * Turns a casa::MDirection into a nicely formatted string
|
---|
| 687 | * @param md an casa::MDirection
|
---|
| 688 | * @return
|
---|
| 689 | */
|
---|
| 690 | std::string formatDirection(const casa::MDirection& md) const;
|
---|
[19] | 691 |
|
---|
[824] | 692 | /**
|
---|
| 693 | * Create a unique file name for the paged (temporary) table
|
---|
| 694 | * @return just the name
|
---|
| 695 | */
|
---|
| 696 | static casa::String generateName();
|
---|
[286] | 697 |
|
---|
[824] | 698 | /**
|
---|
| 699 | * attach to cached columns
|
---|
| 700 | */
|
---|
| 701 | void attach();
|
---|
[50] | 702 |
|
---|
[824] | 703 | /**
|
---|
| 704 | * Set up the main casa::Table
|
---|
| 705 | */
|
---|
| 706 | void setupMainTable();
|
---|
[88] | 707 |
|
---|
[859] | 708 | void attachSubtables();
|
---|
[865] | 709 | void copySubtables(const Scantable& other);
|
---|
| 710 |
|
---|
[824] | 711 | /**
|
---|
| 712 | * Convert an "old" asap1 style row index into a new index
|
---|
| 713 | * @param[in] therow
|
---|
| 714 | * @return and index into @table_
|
---|
| 715 | */
|
---|
| 716 | int rowToScanIndex(int therow);
|
---|
[212] | 717 |
|
---|
[1694] | 718 | std::vector<uint> getNumbers(const casa::ScalarColumn<casa::uInt>& col) const;
|
---|
[1111] | 719 |
|
---|
[2321] | 720 | static const casa::uInt version_ = 4;
|
---|
[286] | 721 |
|
---|
[824] | 722 | STSelector selector_;
|
---|
[236] | 723 |
|
---|
[824] | 724 | casa::Table::TableType type_;
|
---|
[465] | 725 |
|
---|
[824] | 726 | // the actual data
|
---|
| 727 | casa::Table table_;
|
---|
| 728 | casa::Table originalTable_;
|
---|
[745] | 729 |
|
---|
[824] | 730 | STTcal tcalTable_;
|
---|
| 731 | STFrequencies freqTable_;
|
---|
| 732 | STWeather weatherTable_;
|
---|
| 733 | STFocus focusTable_;
|
---|
| 734 | STMolecules moleculeTable_;
|
---|
[860] | 735 | STHistory historyTable_;
|
---|
[960] | 736 | STFit fitTable_;
|
---|
[860] | 737 |
|
---|
[824] | 738 | // Cached Columns to avoid reconstructing them for each row get/put
|
---|
[847] | 739 | casa::ScalarColumn<casa::Double> integrCol_;
|
---|
[824] | 740 | casa::MDirection::ScalarColumn dirCol_;
|
---|
[847] | 741 | casa::MEpoch::ScalarColumn timeCol_;
|
---|
[923] | 742 | casa::ScalarColumn<casa::Float> azCol_;
|
---|
| 743 | casa::ScalarColumn<casa::Float> elCol_;
|
---|
[824] | 744 | casa::ScalarColumn<casa::String> srcnCol_, fldnCol_;
|
---|
[1819] | 745 | casa::ScalarColumn<casa::uInt> scanCol_, beamCol_, ifCol_, polCol_, cycleCol_, flagrowCol_;
|
---|
[1068] | 746 | casa::ScalarColumn<casa::Int> rbeamCol_, srctCol_;
|
---|
[865] | 747 | casa::ArrayColumn<casa::Float> specCol_, tsysCol_;
|
---|
[824] | 748 | casa::ArrayColumn<casa::uChar> flagsCol_;
|
---|
[430] | 749 |
|
---|
[824] | 750 | // id in frequencies table
|
---|
| 751 | casa::ScalarColumn<casa::uInt> mfreqidCol_;
|
---|
| 752 | // id in tcal table
|
---|
| 753 | casa::ScalarColumn<casa::uInt> mtcalidCol_;
|
---|
[430] | 754 |
|
---|
[824] | 755 | casa::ArrayColumn<casa::String> histitemCol_;
|
---|
[972] | 756 | casa::ScalarColumn<casa::Int> mfitidCol_;
|
---|
[824] | 757 | casa::ScalarColumn<casa::uInt> mweatheridCol_;
|
---|
[322] | 758 |
|
---|
[824] | 759 | casa::ScalarColumn<casa::uInt> mfocusidCol_;
|
---|
| 760 |
|
---|
| 761 | casa::ScalarColumn<casa::uInt> mmolidCol_;
|
---|
| 762 |
|
---|
[896] | 763 | static std::map<std::string, STPol::STPolFactory *> factories_;
|
---|
| 764 | void initFactories();
|
---|
| 765 |
|
---|
[1819] | 766 | /**
|
---|
| 767 | * Add an auxiliary column to the main table and attach it to a
|
---|
| 768 | * cached column. Use for adding new columns that the original asap2
|
---|
| 769 | * tables do not have.
|
---|
| 770 | * @param[in] col reference to the cached column to be attached
|
---|
| 771 | * @param[in] colName column name in asap table
|
---|
| 772 | * @param[in] defValue default value to fill in the column
|
---|
| 773 | *
|
---|
| 774 | * 25/10/2009 Wataru Kawasaki
|
---|
| 775 | */
|
---|
| 776 | template<class T, class T2> void attachAuxColumnDef(casa::ScalarColumn<T>&,
|
---|
| 777 | const casa::String&,
|
---|
| 778 | const T2&);
|
---|
| 779 | template<class T, class T2> void attachAuxColumnDef(casa::ArrayColumn<T>&,
|
---|
| 780 | const casa::String&,
|
---|
| 781 | const casa::Array<T2>&);
|
---|
[1907] | 782 |
|
---|
[2767] | 783 | double getNormalPolynomial(int n, double x);
|
---|
[2645] | 784 | double getChebyshevPolynomial(int n, double x);
|
---|
[2773] | 785 | std::vector<std::vector<double> > getPolynomialModel(int order,
|
---|
| 786 | int nchan,
|
---|
| 787 | double (Scantable::*pfunc)(int, double));
|
---|
| 788 | std::vector<std::vector<std::vector<double> > > getPolynomialModelReservoir(int order,
|
---|
| 789 | double (Scantable::*pfunc)(int, double),
|
---|
| 790 | std::vector<int>& nChanNos);
|
---|
[2767] | 791 | std::vector<float> doPolynomialFitting(const std::vector<float>& data,
|
---|
| 792 | const std::vector<bool>& mask,
|
---|
| 793 | int order,
|
---|
| 794 | std::vector<float>& params,
|
---|
| 795 | float& rms,
|
---|
| 796 | std::vector<bool>& finalMask,
|
---|
| 797 | float clipth,
|
---|
| 798 | int clipn);
|
---|
| 799 | std::vector<float> doPolynomialFitting(const std::vector<float>& data,
|
---|
| 800 | const std::vector<bool>& mask,
|
---|
| 801 | int order,
|
---|
| 802 | std::vector<float>& params,
|
---|
| 803 | float& rms,
|
---|
| 804 | std::vector<bool>& finalMask,
|
---|
| 805 | int& nClipped,
|
---|
| 806 | float thresClip=3.0,
|
---|
| 807 | int nIterClip=0,
|
---|
| 808 | bool getResidual=true);
|
---|
[2645] | 809 | std::vector<float> doChebyshevFitting(const std::vector<float>& data,
|
---|
[2767] | 810 | const std::vector<bool>& mask,
|
---|
| 811 | int order,
|
---|
| 812 | std::vector<float>& params,
|
---|
| 813 | float& rms,
|
---|
| 814 | std::vector<bool>& finalMask,
|
---|
| 815 | float clipth,
|
---|
| 816 | int clipn);
|
---|
| 817 | std::vector<float> doChebyshevFitting(const std::vector<float>& data,
|
---|
| 818 | const std::vector<bool>& mask,
|
---|
| 819 | int order,
|
---|
| 820 | std::vector<float>& params,
|
---|
| 821 | float& rms,
|
---|
| 822 | std::vector<bool>& finalMask,
|
---|
| 823 | int& nClipped,
|
---|
| 824 | float thresClip=3.0,
|
---|
| 825 | int nIterClip=0,
|
---|
| 826 | bool getResidual=true);
|
---|
| 827 | std::vector<float> doLeastSquareFitting(const std::vector<float>& data,
|
---|
| 828 | const std::vector<bool>& mask,
|
---|
[2773] | 829 | const std::vector<std::vector<double> >& model,
|
---|
[2767] | 830 | std::vector<float>& params,
|
---|
| 831 | float& rms,
|
---|
| 832 | std::vector<bool>& finalMask,
|
---|
| 833 | int& nClipped,
|
---|
| 834 | float thresClip=3.0,
|
---|
| 835 | int nIterClip=0,
|
---|
| 836 | bool getResidual=true);
|
---|
| 837 | std::vector<float> doCubicSplineFitting(const std::vector<float>& data,
|
---|
[2645] | 838 | const std::vector<bool>& mask,
|
---|
[2767] | 839 | std::vector<int>& idxEdge,
|
---|
[2645] | 840 | std::vector<float>& params,
|
---|
[2767] | 841 | float& rms,
|
---|
[2737] | 842 | std::vector<bool>& finalMask,
|
---|
[2767] | 843 | float clipth,
|
---|
| 844 | int clipn);
|
---|
| 845 | std::vector<float> doCubicSplineFitting(const std::vector<float>& data,
|
---|
| 846 | const std::vector<bool>& mask,
|
---|
| 847 | int nPiece,
|
---|
| 848 | std::vector<int>& idxEdge,
|
---|
| 849 | std::vector<float>& params,
|
---|
[2737] | 850 | float& rms,
|
---|
[2767] | 851 | std::vector<bool>& finalMask,
|
---|
| 852 | float clipth,
|
---|
| 853 | int clipn);
|
---|
[2012] | 854 | std::vector<float> doCubicSplineFitting(const std::vector<float>& data,
|
---|
| 855 | const std::vector<bool>& mask,
|
---|
[2081] | 856 | int nPiece,
|
---|
[2767] | 857 | bool useGivenPieceBoundary,
|
---|
[2064] | 858 | std::vector<int>& idxEdge,
|
---|
[2012] | 859 | std::vector<float>& params,
|
---|
[2767] | 860 | float& rms,
|
---|
| 861 | std::vector<bool>& finalMask,
|
---|
[2193] | 862 | int& nClipped,
|
---|
[2012] | 863 | float thresClip=3.0,
|
---|
[2767] | 864 | int nIterClip=0,
|
---|
[2094] | 865 | bool getResidual=true);
|
---|
[2773] | 866 | std::vector<float> doCubicSplineLeastSquareFitting(const std::vector<float>& data,
|
---|
| 867 | const std::vector<bool>& mask,
|
---|
| 868 | const std::vector<std::vector<double> >& model,
|
---|
| 869 | int nPiece,
|
---|
| 870 | bool useGivenPieceBoundary,
|
---|
| 871 | std::vector<int>& idxEdge,
|
---|
| 872 | std::vector<float>& params,
|
---|
| 873 | float& rms,
|
---|
| 874 | std::vector<bool>& finalMask,
|
---|
| 875 | int& nClipped,
|
---|
| 876 | float thresClip=3.0,
|
---|
| 877 | int nIterClip=0,
|
---|
| 878 | bool getResidual=true);
|
---|
[2047] | 879 | std::vector<float> doSinusoidFitting(const std::vector<float>& data,
|
---|
| 880 | const std::vector<bool>& mask,
|
---|
[2081] | 881 | const std::vector<int>& waveNumbers,
|
---|
[2047] | 882 | std::vector<float>& params,
|
---|
[2767] | 883 | float& rms,
|
---|
| 884 | std::vector<bool>& finalMask,
|
---|
| 885 | float clipth,
|
---|
| 886 | int clipn);
|
---|
| 887 | std::vector<float> doSinusoidFitting(const std::vector<float>& data,
|
---|
| 888 | const std::vector<bool>& mask,
|
---|
| 889 | const std::vector<int>& waveNumbers,
|
---|
| 890 | std::vector<float>& params,
|
---|
| 891 | float& rms,
|
---|
| 892 | std::vector<bool>& finalMask,
|
---|
[2193] | 893 | int& nClipped,
|
---|
[2047] | 894 | float thresClip=3.0,
|
---|
[2767] | 895 | int nIterClip=0,
|
---|
[2094] | 896 | bool getResidual=true);
|
---|
[2773] | 897 | std::vector<std::vector<double> > getSinusoidModel(const std::vector<int>& waveNumbers, int nchan);
|
---|
| 898 | std::vector<std::vector<std::vector<double> > > getSinusoidModelReservoir(const std::vector<int>& waveNumbers,
|
---|
| 899 | std::vector<int>& nChanNos);
|
---|
| 900 | std::vector<int> selectWaveNumbers(const std::vector<int>& addNWaves,
|
---|
| 901 | const std::vector<int>& rejectNWaves);
|
---|
| 902 | std::vector<int> selectWaveNumbers(const int whichrow,
|
---|
| 903 | const std::vector<bool>& chanMask,
|
---|
| 904 | //const std::string& fftInfo,
|
---|
| 905 | const bool applyFFT,
|
---|
| 906 | const std::string& fftMethod,
|
---|
| 907 | const std::string& fftThresh,
|
---|
| 908 | const std::vector<int>& addNWaves,
|
---|
| 909 | const std::vector<int>& rejectNWaves);
|
---|
| 910 | int getIdxOfNchan(const int nChan, const std::vector<int>& nChanNos);
|
---|
[2767] | 911 | void parseFFTInfo(const std::string& fftInfo,
|
---|
| 912 | bool& applyFFT,
|
---|
| 913 | std::string& fftMethod,
|
---|
| 914 | std::string& fftThresh);
|
---|
[2773] | 915 | void parseFFTThresholdInfo(const std::string& fftThresh,
|
---|
| 916 | std::string& fftThAttr,
|
---|
| 917 | float& fftThSigma,
|
---|
| 918 | int& fftThTop);
|
---|
[2186] | 919 | void doSelectWaveNumbers(const int whichrow,
|
---|
| 920 | const std::vector<bool>& chanMask,
|
---|
| 921 | const std::string& fftMethod,
|
---|
| 922 | const float fftThSigma,
|
---|
| 923 | const int fftThTop,
|
---|
| 924 | const std::string& fftThAttr,
|
---|
| 925 | std::vector<int>& nWaves);
|
---|
[2411] | 926 | void addAuxWaveNumbers(const int whichrow,
|
---|
| 927 | const std::vector<int>& addNWaves,
|
---|
[2186] | 928 | const std::vector<int>& rejectNWaves,
|
---|
| 929 | std::vector<int>& nWaves);
|
---|
[2411] | 930 | void setWaveNumberListUptoNyquistFreq(const int whichrow,
|
---|
| 931 | std::vector<int>& nWaves);
|
---|
[2773] | 932 | void initialiseBaselining(const std::string& blfile,
|
---|
| 933 | std::ofstream& ofs,
|
---|
| 934 | const bool outLogger,
|
---|
| 935 | bool& outTextFile,
|
---|
| 936 | bool& csvFormat,
|
---|
| 937 | casa::String& coordInfo,
|
---|
| 938 | bool& hasSameNchan,
|
---|
| 939 | const std::string& progressInfo,
|
---|
| 940 | bool& showProgress,
|
---|
| 941 | int& minNRow,
|
---|
| 942 | casa::Vector<casa::Double>& timeSecCol);
|
---|
| 943 | void finaliseBaselining(const bool outBaselineTable,
|
---|
| 944 | STBaselineTable* pbt,
|
---|
| 945 | const string& bltable,
|
---|
| 946 | const bool outTextFile,
|
---|
| 947 | std::ofstream& ofs);
|
---|
| 948 | void initLineFinder(const std::vector<int>& edge,
|
---|
| 949 | const float threshold,
|
---|
| 950 | const int chanAvgLimit,
|
---|
| 951 | STLineFinder& lineFinder);
|
---|
[2012] | 952 | bool hasSameNchanOverIFs();
|
---|
| 953 | std::string getMaskRangeList(const std::vector<bool>& mask,
|
---|
| 954 | int whichrow,
|
---|
| 955 | const casa::String& coordInfo,
|
---|
[2047] | 956 | bool hasSameNchan,
|
---|
| 957 | bool verbose=false);
|
---|
| 958 | std::vector<int> getMaskEdgeIndices(const std::vector<bool>& mask);
|
---|
[2641] | 959 | std::string formatBaselineParamsHeader(int whichrow, const std::string& masklist, bool verbose, bool csvformat) const;
|
---|
| 960 | std::string formatBaselineParamsFooter(float rms, int nClipped, bool verbose, bool csvformat) const;
|
---|
[2012] | 961 | std::vector<bool> getCompositeChanMask(int whichrow, const std::vector<bool>& inMask);
|
---|
[2773] | 962 | std::vector<bool> getCompositeChanMask(int whichrow, const std::vector<bool>& inMask, const std::vector<int>& edge, std::vector<int>& currEdge, STLineFinder& lineFinder);
|
---|
[2641] | 963 | void outputFittingResult(bool outLogger, bool outTextFile, bool csvFormat, 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);
|
---|
| 964 | void outputFittingResult(bool outLogger, bool outTextFile, bool csvFormat, 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] | 965 | void parseProgressInfo(const std::string& progressInfo, bool& showProgress, int& minNRow);
|
---|
| 966 | void showProgressOnTerminal(const int nProcessed, const int nTotal, const bool showProgress=true, const int nTotalThreshold=1000);
|
---|
[1994] | 967 |
|
---|
| 968 | void applyChanFlag( casa::uInt whichrow, const std::vector<bool>& msk, casa::uChar flagval);
|
---|
| 969 |
|
---|
[2713] | 970 | double doCalculateModelSelectionCriteria(const std::string& valname,
|
---|
| 971 | const std::vector<float>& spec,
|
---|
| 972 | const std::vector<bool>& mask,
|
---|
| 973 | const std::string& blfunc,
|
---|
| 974 | int order);
|
---|
[2737] | 975 | double doGetRms(const std::vector<bool>& mask, const casa::Vector<casa::Float>& spec);
|
---|
[2767] | 976 | std::string packFittingResults(const int irow, const std::vector<float>& params, const float rms);
|
---|
| 977 | void parseBlInfo(const std::string& blInfo, int& whichrow, STBaselineFunc::FuncName& ftype, std::vector<int>& fpar, std::vector<bool>& mask, float& thresClip, int& nIterClip, bool& useLineFinder, float& thresLF, std::vector<int>& edgeLF, int& avgLF);
|
---|
| 978 | std::vector<float> doApplyBaselineTable(std::vector<float>& spec, std::vector<bool>& mask, const STBaselineFunc::FuncName ftype, std::vector<int>& fpar, std::vector<float>& params, float&rms);
|
---|
| 979 | std::vector<float> doSubtractBaseline(std::vector<float>& spec, std::vector<bool>& mask, const STBaselineFunc::FuncName ftype, std::vector<int>& fpar, std::vector<float>& params, float&rms, std::vector<bool>& finalmask, float clipth, int clipn, bool uself, int irow, float lfth, std::vector<int>& lfedge, int lfavg);
|
---|
[2713] | 980 |
|
---|
[2] | 981 | };
|
---|
[824] | 982 | } // namespace
|
---|
| 983 |
|
---|
[2] | 984 | #endif
|
---|