[805] | 1 | // |
---|
| 2 | // C++ Implementation: 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 | // |
---|
[206] | 12 | #include <map> |
---|
[2591] | 13 | #include <sys/time.h> |
---|
[206] | 14 | |
---|
[2186] | 15 | #include <atnf/PKSIO/SrcType.h> |
---|
| 16 | |
---|
[125] | 17 | #include <casa/aips.h> |
---|
[2186] | 18 | #include <casa/iomanip.h> |
---|
[80] | 19 | #include <casa/iostream.h> |
---|
[2186] | 20 | #include <casa/OS/File.h> |
---|
[805] | 21 | #include <casa/OS/Path.h> |
---|
[2658] | 22 | #include <casa/Logging/LogIO.h> |
---|
[80] | 23 | #include <casa/Arrays/Array.h> |
---|
[2186] | 24 | #include <casa/Arrays/ArrayAccessor.h> |
---|
| 25 | #include <casa/Arrays/ArrayLogical.h> |
---|
[80] | 26 | #include <casa/Arrays/ArrayMath.h> |
---|
| 27 | #include <casa/Arrays/MaskArrMath.h> |
---|
[2186] | 28 | #include <casa/Arrays/Slice.h> |
---|
[1325] | 29 | #include <casa/Arrays/Vector.h> |
---|
[455] | 30 | #include <casa/Arrays/VectorSTLIterator.h> |
---|
[418] | 31 | #include <casa/BasicMath/Math.h> |
---|
[504] | 32 | #include <casa/BasicSL/Constants.h> |
---|
[2186] | 33 | #include <casa/Containers/RecordField.h> |
---|
| 34 | #include <casa/Logging/LogIO.h> |
---|
[286] | 35 | #include <casa/Quanta/MVAngle.h> |
---|
[2186] | 36 | #include <casa/Quanta/MVTime.h> |
---|
[902] | 37 | #include <casa/Utilities/GenSort.h> |
---|
[2] | 38 | |
---|
[2186] | 39 | #include <coordinates/Coordinates/CoordinateUtil.h> |
---|
[2] | 40 | |
---|
[1325] | 41 | // needed to avoid error in .tcc |
---|
| 42 | #include <measures/Measures/MCDirection.h> |
---|
| 43 | // |
---|
| 44 | #include <measures/Measures/MDirection.h> |
---|
[2186] | 45 | #include <measures/Measures/MEpoch.h> |
---|
[80] | 46 | #include <measures/Measures/MFrequency.h> |
---|
[2186] | 47 | #include <measures/Measures/MeasRef.h> |
---|
| 48 | #include <measures/Measures/MeasTable.h> |
---|
| 49 | #include <measures/TableMeasures/ScalarMeasColumn.h> |
---|
| 50 | #include <measures/TableMeasures/TableMeasDesc.h> |
---|
[805] | 51 | #include <measures/TableMeasures/TableMeasRefDesc.h> |
---|
| 52 | #include <measures/TableMeasures/TableMeasValueDesc.h> |
---|
[2] | 53 | |
---|
[2186] | 54 | #include <tables/Tables/ArrColDesc.h> |
---|
| 55 | #include <tables/Tables/ExprNode.h> |
---|
| 56 | #include <tables/Tables/ScaColDesc.h> |
---|
| 57 | #include <tables/Tables/SetupNewTab.h> |
---|
| 58 | #include <tables/Tables/TableCopy.h> |
---|
| 59 | #include <tables/Tables/TableDesc.h> |
---|
| 60 | #include <tables/Tables/TableIter.h> |
---|
| 61 | #include <tables/Tables/TableParse.h> |
---|
| 62 | #include <tables/Tables/TableRecord.h> |
---|
| 63 | #include <tables/Tables/TableRow.h> |
---|
| 64 | #include <tables/Tables/TableVector.h> |
---|
| 65 | |
---|
| 66 | #include "MathUtils.h" |
---|
| 67 | #include "STAttr.h" |
---|
| 68 | #include "STLineFinder.h" |
---|
| 69 | #include "STPolCircular.h" |
---|
[896] | 70 | #include "STPolLinear.h" |
---|
[913] | 71 | #include "STPolStokes.h" |
---|
[2321] | 72 | #include "STUpgrade.h" |
---|
[2666] | 73 | #include "STFitter.h" |
---|
[2186] | 74 | #include "Scantable.h" |
---|
[2] | 75 | |
---|
[2462] | 76 | #define debug 1 |
---|
| 77 | |
---|
[125] | 78 | using namespace casa; |
---|
[2] | 79 | |
---|
[805] | 80 | namespace asap { |
---|
| 81 | |
---|
[896] | 82 | std::map<std::string, STPol::STPolFactory *> Scantable::factories_; |
---|
| 83 | |
---|
| 84 | void Scantable::initFactories() { |
---|
| 85 | if ( factories_.empty() ) { |
---|
| 86 | Scantable::factories_["linear"] = &STPolLinear::myFactory; |
---|
[1323] | 87 | Scantable::factories_["circular"] = &STPolCircular::myFactory; |
---|
[913] | 88 | Scantable::factories_["stokes"] = &STPolStokes::myFactory; |
---|
[896] | 89 | } |
---|
| 90 | } |
---|
| 91 | |
---|
[805] | 92 | Scantable::Scantable(Table::TableType ttype) : |
---|
[852] | 93 | type_(ttype) |
---|
[206] | 94 | { |
---|
[896] | 95 | initFactories(); |
---|
[805] | 96 | setupMainTable(); |
---|
[2346] | 97 | freqTable_ = STFrequencies(*this); |
---|
| 98 | table_.rwKeywordSet().defineTable("FREQUENCIES", freqTable_.table()); |
---|
[852] | 99 | weatherTable_ = STWeather(*this); |
---|
[805] | 100 | table_.rwKeywordSet().defineTable("WEATHER", weatherTable_.table()); |
---|
[852] | 101 | focusTable_ = STFocus(*this); |
---|
[805] | 102 | table_.rwKeywordSet().defineTable("FOCUS", focusTable_.table()); |
---|
[852] | 103 | tcalTable_ = STTcal(*this); |
---|
[805] | 104 | table_.rwKeywordSet().defineTable("TCAL", tcalTable_.table()); |
---|
[852] | 105 | moleculeTable_ = STMolecules(*this); |
---|
[805] | 106 | table_.rwKeywordSet().defineTable("MOLECULES", moleculeTable_.table()); |
---|
[860] | 107 | historyTable_ = STHistory(*this); |
---|
| 108 | table_.rwKeywordSet().defineTable("HISTORY", historyTable_.table()); |
---|
[959] | 109 | fitTable_ = STFit(*this); |
---|
| 110 | table_.rwKeywordSet().defineTable("FIT", fitTable_.table()); |
---|
[1881] | 111 | table_.tableInfo().setType( "Scantable" ) ; |
---|
[805] | 112 | originalTable_ = table_; |
---|
[322] | 113 | attach(); |
---|
[18] | 114 | } |
---|
[206] | 115 | |
---|
[805] | 116 | Scantable::Scantable(const std::string& name, Table::TableType ttype) : |
---|
[852] | 117 | type_(ttype) |
---|
[206] | 118 | { |
---|
[896] | 119 | initFactories(); |
---|
[1819] | 120 | |
---|
[865] | 121 | Table tab(name, Table::Update); |
---|
[1009] | 122 | uInt version = tab.keywordSet().asuInt("VERSION"); |
---|
[483] | 123 | if (version != version_) { |
---|
[2321] | 124 | STUpgrade upgrader(version_); |
---|
[2162] | 125 | LogIO os( LogOrigin( "Scantable" ) ) ; |
---|
| 126 | os << LogIO::WARN |
---|
[2321] | 127 | << name << " data format version " << version |
---|
| 128 | << " is deprecated" << endl |
---|
| 129 | << "Running upgrade."<< endl |
---|
[2162] | 130 | << LogIO::POST ; |
---|
[2321] | 131 | std::string outname = upgrader.upgrade(name); |
---|
[2332] | 132 | if ( outname != name ) { |
---|
| 133 | os << LogIO::WARN |
---|
| 134 | << "Data will be loaded from " << outname << " instead of " |
---|
| 135 | << name << LogIO::POST ; |
---|
| 136 | tab = Table(outname, Table::Update ) ; |
---|
| 137 | } |
---|
[483] | 138 | } |
---|
[1009] | 139 | if ( type_ == Table::Memory ) { |
---|
[852] | 140 | table_ = tab.copyToMemoryTable(generateName()); |
---|
[1009] | 141 | } else { |
---|
[805] | 142 | table_ = tab; |
---|
[1009] | 143 | } |
---|
[1881] | 144 | table_.tableInfo().setType( "Scantable" ) ; |
---|
[1009] | 145 | |
---|
[859] | 146 | attachSubtables(); |
---|
[805] | 147 | originalTable_ = table_; |
---|
[329] | 148 | attach(); |
---|
[2] | 149 | } |
---|
[1819] | 150 | /* |
---|
| 151 | Scantable::Scantable(const std::string& name, Table::TableType ttype) : |
---|
| 152 | type_(ttype) |
---|
| 153 | { |
---|
| 154 | initFactories(); |
---|
| 155 | Table tab(name, Table::Update); |
---|
| 156 | uInt version = tab.keywordSet().asuInt("VERSION"); |
---|
| 157 | if (version != version_) { |
---|
| 158 | throw(AipsError("Unsupported version of ASAP file.")); |
---|
| 159 | } |
---|
| 160 | if ( type_ == Table::Memory ) { |
---|
| 161 | table_ = tab.copyToMemoryTable(generateName()); |
---|
| 162 | } else { |
---|
| 163 | table_ = tab; |
---|
| 164 | } |
---|
[2] | 165 | |
---|
[1819] | 166 | attachSubtables(); |
---|
| 167 | originalTable_ = table_; |
---|
| 168 | attach(); |
---|
| 169 | } |
---|
| 170 | */ |
---|
| 171 | |
---|
[2658] | 172 | Scantable::Scantable( const Scantable& other, bool clear ) |
---|
[206] | 173 | { |
---|
[805] | 174 | // with or without data |
---|
[859] | 175 | String newname = String(generateName()); |
---|
[865] | 176 | type_ = other.table_.tableType(); |
---|
[859] | 177 | if ( other.table_.tableType() == Table::Memory ) { |
---|
| 178 | if ( clear ) { |
---|
| 179 | table_ = TableCopy::makeEmptyMemoryTable(newname, |
---|
| 180 | other.table_, True); |
---|
| 181 | } else |
---|
| 182 | table_ = other.table_.copyToMemoryTable(newname); |
---|
[16] | 183 | } else { |
---|
[915] | 184 | other.table_.deepCopy(newname, Table::New, False, |
---|
| 185 | other.table_.endianFormat(), |
---|
[865] | 186 | Bool(clear)); |
---|
| 187 | table_ = Table(newname, Table::Update); |
---|
| 188 | table_.markForDelete(); |
---|
| 189 | } |
---|
[1881] | 190 | table_.tableInfo().setType( "Scantable" ) ; |
---|
[1111] | 191 | /// @todo reindex SCANNO, recompute nbeam, nif, npol |
---|
[915] | 192 | if ( clear ) copySubtables(other); |
---|
[859] | 193 | attachSubtables(); |
---|
[805] | 194 | originalTable_ = table_; |
---|
[322] | 195 | attach(); |
---|
[2] | 196 | } |
---|
| 197 | |
---|
[865] | 198 | void Scantable::copySubtables(const Scantable& other) { |
---|
| 199 | Table t = table_.rwKeywordSet().asTable("FREQUENCIES"); |
---|
[2346] | 200 | TableCopy::copyRows(t, other.freqTable_.table()); |
---|
[865] | 201 | t = table_.rwKeywordSet().asTable("FOCUS"); |
---|
| 202 | TableCopy::copyRows(t, other.focusTable_.table()); |
---|
| 203 | t = table_.rwKeywordSet().asTable("WEATHER"); |
---|
| 204 | TableCopy::copyRows(t, other.weatherTable_.table()); |
---|
| 205 | t = table_.rwKeywordSet().asTable("TCAL"); |
---|
| 206 | TableCopy::copyRows(t, other.tcalTable_.table()); |
---|
| 207 | t = table_.rwKeywordSet().asTable("MOLECULES"); |
---|
| 208 | TableCopy::copyRows(t, other.moleculeTable_.table()); |
---|
| 209 | t = table_.rwKeywordSet().asTable("HISTORY"); |
---|
| 210 | TableCopy::copyRows(t, other.historyTable_.table()); |
---|
[972] | 211 | t = table_.rwKeywordSet().asTable("FIT"); |
---|
| 212 | TableCopy::copyRows(t, other.fitTable_.table()); |
---|
[865] | 213 | } |
---|
| 214 | |
---|
[859] | 215 | void Scantable::attachSubtables() |
---|
| 216 | { |
---|
[2346] | 217 | freqTable_ = STFrequencies(table_); |
---|
[859] | 218 | focusTable_ = STFocus(table_); |
---|
| 219 | weatherTable_ = STWeather(table_); |
---|
| 220 | tcalTable_ = STTcal(table_); |
---|
| 221 | moleculeTable_ = STMolecules(table_); |
---|
[860] | 222 | historyTable_ = STHistory(table_); |
---|
[972] | 223 | fitTable_ = STFit(table_); |
---|
[859] | 224 | } |
---|
| 225 | |
---|
[805] | 226 | Scantable::~Scantable() |
---|
[206] | 227 | { |
---|
[2] | 228 | } |
---|
| 229 | |
---|
[805] | 230 | void Scantable::setupMainTable() |
---|
[206] | 231 | { |
---|
[805] | 232 | TableDesc td("", "1", TableDesc::Scratch); |
---|
| 233 | td.comment() = "An ASAP Scantable"; |
---|
[1009] | 234 | td.rwKeywordSet().define("VERSION", uInt(version_)); |
---|
[2] | 235 | |
---|
[805] | 236 | // n Cycles |
---|
| 237 | td.addColumn(ScalarColumnDesc<uInt>("SCANNO")); |
---|
| 238 | // new index every nBeam x nIF x nPol |
---|
| 239 | td.addColumn(ScalarColumnDesc<uInt>("CYCLENO")); |
---|
[2] | 240 | |
---|
[805] | 241 | td.addColumn(ScalarColumnDesc<uInt>("BEAMNO")); |
---|
| 242 | td.addColumn(ScalarColumnDesc<uInt>("IFNO")); |
---|
[972] | 243 | // linear, circular, stokes |
---|
[805] | 244 | td.rwKeywordSet().define("POLTYPE", String("linear")); |
---|
| 245 | td.addColumn(ScalarColumnDesc<uInt>("POLNO")); |
---|
[138] | 246 | |
---|
[805] | 247 | td.addColumn(ScalarColumnDesc<uInt>("FREQ_ID")); |
---|
| 248 | td.addColumn(ScalarColumnDesc<uInt>("MOLECULE_ID")); |
---|
[80] | 249 | |
---|
[1819] | 250 | ScalarColumnDesc<Int> refbeamnoColumn("REFBEAMNO"); |
---|
| 251 | refbeamnoColumn.setDefault(Int(-1)); |
---|
| 252 | td.addColumn(refbeamnoColumn); |
---|
| 253 | |
---|
| 254 | ScalarColumnDesc<uInt> flagrowColumn("FLAGROW"); |
---|
| 255 | flagrowColumn.setDefault(uInt(0)); |
---|
| 256 | td.addColumn(flagrowColumn); |
---|
| 257 | |
---|
[805] | 258 | td.addColumn(ScalarColumnDesc<Double>("TIME")); |
---|
| 259 | TableMeasRefDesc measRef(MEpoch::UTC); // UTC as default |
---|
| 260 | TableMeasValueDesc measVal(td, "TIME"); |
---|
| 261 | TableMeasDesc<MEpoch> mepochCol(measVal, measRef); |
---|
| 262 | mepochCol.write(td); |
---|
[483] | 263 | |
---|
[805] | 264 | td.addColumn(ScalarColumnDesc<Double>("INTERVAL")); |
---|
| 265 | |
---|
[2] | 266 | td.addColumn(ScalarColumnDesc<String>("SRCNAME")); |
---|
[805] | 267 | // Type of source (on=0, off=1, other=-1) |
---|
[1503] | 268 | ScalarColumnDesc<Int> stypeColumn("SRCTYPE"); |
---|
| 269 | stypeColumn.setDefault(Int(-1)); |
---|
| 270 | td.addColumn(stypeColumn); |
---|
[805] | 271 | td.addColumn(ScalarColumnDesc<String>("FIELDNAME")); |
---|
| 272 | |
---|
| 273 | //The actual Data Vectors |
---|
[2] | 274 | td.addColumn(ArrayColumnDesc<Float>("SPECTRA")); |
---|
| 275 | td.addColumn(ArrayColumnDesc<uChar>("FLAGTRA")); |
---|
[89] | 276 | td.addColumn(ArrayColumnDesc<Float>("TSYS")); |
---|
[805] | 277 | |
---|
| 278 | td.addColumn(ArrayColumnDesc<Double>("DIRECTION", |
---|
| 279 | IPosition(1,2), |
---|
| 280 | ColumnDesc::Direct)); |
---|
| 281 | TableMeasRefDesc mdirRef(MDirection::J2000); // default |
---|
| 282 | TableMeasValueDesc tmvdMDir(td, "DIRECTION"); |
---|
| 283 | // the TableMeasDesc gives the column a type |
---|
| 284 | TableMeasDesc<MDirection> mdirCol(tmvdMDir, mdirRef); |
---|
[987] | 285 | // a uder set table type e.g. GALCTIC, B1950 ... |
---|
| 286 | td.rwKeywordSet().define("DIRECTIONREF", String("J2000")); |
---|
[805] | 287 | // writing create the measure column |
---|
| 288 | mdirCol.write(td); |
---|
[923] | 289 | td.addColumn(ScalarColumnDesc<Float>("AZIMUTH")); |
---|
| 290 | td.addColumn(ScalarColumnDesc<Float>("ELEVATION")); |
---|
[1047] | 291 | td.addColumn(ScalarColumnDesc<Float>("OPACITY")); |
---|
[105] | 292 | |
---|
[805] | 293 | td.addColumn(ScalarColumnDesc<uInt>("TCAL_ID")); |
---|
[972] | 294 | ScalarColumnDesc<Int> fitColumn("FIT_ID"); |
---|
[973] | 295 | fitColumn.setDefault(Int(-1)); |
---|
[972] | 296 | td.addColumn(fitColumn); |
---|
[805] | 297 | |
---|
| 298 | td.addColumn(ScalarColumnDesc<uInt>("FOCUS_ID")); |
---|
| 299 | td.addColumn(ScalarColumnDesc<uInt>("WEATHER_ID")); |
---|
| 300 | |
---|
[999] | 301 | // columns which just get dragged along, as they aren't used in asap |
---|
| 302 | td.addColumn(ScalarColumnDesc<Double>("SRCVELOCITY")); |
---|
| 303 | td.addColumn(ArrayColumnDesc<Double>("SRCPROPERMOTION")); |
---|
| 304 | td.addColumn(ArrayColumnDesc<Double>("SRCDIRECTION")); |
---|
| 305 | td.addColumn(ArrayColumnDesc<Double>("SCANRATE")); |
---|
| 306 | |
---|
[805] | 307 | td.rwKeywordSet().define("OBSMODE", String("")); |
---|
| 308 | |
---|
[418] | 309 | // Now create Table SetUp from the description. |
---|
[859] | 310 | SetupNewTable aNewTab(generateName(), td, Table::Scratch); |
---|
[852] | 311 | table_ = Table(aNewTab, type_, 0); |
---|
[805] | 312 | originalTable_ = table_; |
---|
| 313 | } |
---|
[418] | 314 | |
---|
[805] | 315 | void Scantable::attach() |
---|
[455] | 316 | { |
---|
[805] | 317 | timeCol_.attach(table_, "TIME"); |
---|
| 318 | srcnCol_.attach(table_, "SRCNAME"); |
---|
[1068] | 319 | srctCol_.attach(table_, "SRCTYPE"); |
---|
[805] | 320 | specCol_.attach(table_, "SPECTRA"); |
---|
| 321 | flagsCol_.attach(table_, "FLAGTRA"); |
---|
[865] | 322 | tsysCol_.attach(table_, "TSYS"); |
---|
[805] | 323 | cycleCol_.attach(table_,"CYCLENO"); |
---|
| 324 | scanCol_.attach(table_, "SCANNO"); |
---|
| 325 | beamCol_.attach(table_, "BEAMNO"); |
---|
[847] | 326 | ifCol_.attach(table_, "IFNO"); |
---|
| 327 | polCol_.attach(table_, "POLNO"); |
---|
[805] | 328 | integrCol_.attach(table_, "INTERVAL"); |
---|
| 329 | azCol_.attach(table_, "AZIMUTH"); |
---|
| 330 | elCol_.attach(table_, "ELEVATION"); |
---|
| 331 | dirCol_.attach(table_, "DIRECTION"); |
---|
| 332 | fldnCol_.attach(table_, "FIELDNAME"); |
---|
| 333 | rbeamCol_.attach(table_, "REFBEAMNO"); |
---|
[455] | 334 | |
---|
[1730] | 335 | mweatheridCol_.attach(table_,"WEATHER_ID"); |
---|
[805] | 336 | mfitidCol_.attach(table_,"FIT_ID"); |
---|
| 337 | mfreqidCol_.attach(table_, "FREQ_ID"); |
---|
| 338 | mtcalidCol_.attach(table_, "TCAL_ID"); |
---|
| 339 | mfocusidCol_.attach(table_, "FOCUS_ID"); |
---|
| 340 | mmolidCol_.attach(table_, "MOLECULE_ID"); |
---|
[1819] | 341 | |
---|
| 342 | //Add auxiliary column for row-based flagging (CAS-1433 Wataru Kawasaki) |
---|
| 343 | attachAuxColumnDef(flagrowCol_, "FLAGROW", 0); |
---|
| 344 | |
---|
[455] | 345 | } |
---|
| 346 | |
---|
[1819] | 347 | template<class T, class T2> |
---|
| 348 | void Scantable::attachAuxColumnDef(ScalarColumn<T>& col, |
---|
| 349 | const String& colName, |
---|
| 350 | const T2& defValue) |
---|
| 351 | { |
---|
| 352 | try { |
---|
| 353 | col.attach(table_, colName); |
---|
| 354 | } catch (TableError& err) { |
---|
| 355 | String errMesg = err.getMesg(); |
---|
| 356 | if (errMesg == "Table column " + colName + " is unknown") { |
---|
| 357 | table_.addColumn(ScalarColumnDesc<T>(colName)); |
---|
| 358 | col.attach(table_, colName); |
---|
| 359 | col.fillColumn(static_cast<T>(defValue)); |
---|
| 360 | } else { |
---|
| 361 | throw; |
---|
| 362 | } |
---|
| 363 | } catch (...) { |
---|
| 364 | throw; |
---|
| 365 | } |
---|
| 366 | } |
---|
| 367 | |
---|
| 368 | template<class T, class T2> |
---|
| 369 | void Scantable::attachAuxColumnDef(ArrayColumn<T>& col, |
---|
| 370 | const String& colName, |
---|
| 371 | const Array<T2>& defValue) |
---|
| 372 | { |
---|
| 373 | try { |
---|
| 374 | col.attach(table_, colName); |
---|
| 375 | } catch (TableError& err) { |
---|
| 376 | String errMesg = err.getMesg(); |
---|
| 377 | if (errMesg == "Table column " + colName + " is unknown") { |
---|
| 378 | table_.addColumn(ArrayColumnDesc<T>(colName)); |
---|
| 379 | col.attach(table_, colName); |
---|
| 380 | |
---|
| 381 | int size = 0; |
---|
| 382 | ArrayIterator<T2>& it = defValue.begin(); |
---|
| 383 | while (it != defValue.end()) { |
---|
| 384 | ++size; |
---|
| 385 | ++it; |
---|
| 386 | } |
---|
| 387 | IPosition ip(1, size); |
---|
| 388 | Array<T>& arr(ip); |
---|
| 389 | for (int i = 0; i < size; ++i) |
---|
| 390 | arr[i] = static_cast<T>(defValue[i]); |
---|
| 391 | |
---|
| 392 | col.fillColumn(arr); |
---|
| 393 | } else { |
---|
| 394 | throw; |
---|
| 395 | } |
---|
| 396 | } catch (...) { |
---|
| 397 | throw; |
---|
| 398 | } |
---|
| 399 | } |
---|
| 400 | |
---|
[901] | 401 | void Scantable::setHeader(const STHeader& sdh) |
---|
[206] | 402 | { |
---|
[18] | 403 | table_.rwKeywordSet().define("nIF", sdh.nif); |
---|
| 404 | table_.rwKeywordSet().define("nBeam", sdh.nbeam); |
---|
| 405 | table_.rwKeywordSet().define("nPol", sdh.npol); |
---|
| 406 | table_.rwKeywordSet().define("nChan", sdh.nchan); |
---|
| 407 | table_.rwKeywordSet().define("Observer", sdh.observer); |
---|
| 408 | table_.rwKeywordSet().define("Project", sdh.project); |
---|
| 409 | table_.rwKeywordSet().define("Obstype", sdh.obstype); |
---|
| 410 | table_.rwKeywordSet().define("AntennaName", sdh.antennaname); |
---|
| 411 | table_.rwKeywordSet().define("AntennaPosition", sdh.antennaposition); |
---|
| 412 | table_.rwKeywordSet().define("Equinox", sdh.equinox); |
---|
| 413 | table_.rwKeywordSet().define("FreqRefFrame", sdh.freqref); |
---|
| 414 | table_.rwKeywordSet().define("FreqRefVal", sdh.reffreq); |
---|
| 415 | table_.rwKeywordSet().define("Bandwidth", sdh.bandwidth); |
---|
| 416 | table_.rwKeywordSet().define("UTC", sdh.utc); |
---|
[206] | 417 | table_.rwKeywordSet().define("FluxUnit", sdh.fluxunit); |
---|
| 418 | table_.rwKeywordSet().define("Epoch", sdh.epoch); |
---|
[905] | 419 | table_.rwKeywordSet().define("POLTYPE", sdh.poltype); |
---|
[50] | 420 | } |
---|
[21] | 421 | |
---|
[901] | 422 | STHeader Scantable::getHeader() const |
---|
[206] | 423 | { |
---|
[901] | 424 | STHeader sdh; |
---|
[21] | 425 | table_.keywordSet().get("nBeam",sdh.nbeam); |
---|
| 426 | table_.keywordSet().get("nIF",sdh.nif); |
---|
| 427 | table_.keywordSet().get("nPol",sdh.npol); |
---|
| 428 | table_.keywordSet().get("nChan",sdh.nchan); |
---|
| 429 | table_.keywordSet().get("Observer", sdh.observer); |
---|
| 430 | table_.keywordSet().get("Project", sdh.project); |
---|
| 431 | table_.keywordSet().get("Obstype", sdh.obstype); |
---|
| 432 | table_.keywordSet().get("AntennaName", sdh.antennaname); |
---|
| 433 | table_.keywordSet().get("AntennaPosition", sdh.antennaposition); |
---|
| 434 | table_.keywordSet().get("Equinox", sdh.equinox); |
---|
| 435 | table_.keywordSet().get("FreqRefFrame", sdh.freqref); |
---|
| 436 | table_.keywordSet().get("FreqRefVal", sdh.reffreq); |
---|
| 437 | table_.keywordSet().get("Bandwidth", sdh.bandwidth); |
---|
| 438 | table_.keywordSet().get("UTC", sdh.utc); |
---|
[206] | 439 | table_.keywordSet().get("FluxUnit", sdh.fluxunit); |
---|
| 440 | table_.keywordSet().get("Epoch", sdh.epoch); |
---|
[905] | 441 | table_.keywordSet().get("POLTYPE", sdh.poltype); |
---|
[21] | 442 | return sdh; |
---|
[18] | 443 | } |
---|
[805] | 444 | |
---|
[1360] | 445 | void Scantable::setSourceType( int stype ) |
---|
[1068] | 446 | { |
---|
| 447 | if ( stype < 0 || stype > 1 ) |
---|
| 448 | throw(AipsError("Illegal sourcetype.")); |
---|
| 449 | TableVector<Int> tabvec(table_, "SRCTYPE"); |
---|
| 450 | tabvec = Int(stype); |
---|
| 451 | } |
---|
| 452 | |
---|
[845] | 453 | bool Scantable::conformant( const Scantable& other ) |
---|
| 454 | { |
---|
| 455 | return this->getHeader().conformant(other.getHeader()); |
---|
| 456 | } |
---|
| 457 | |
---|
| 458 | |
---|
[50] | 459 | |
---|
[805] | 460 | std::string Scantable::formatSec(Double x) const |
---|
[206] | 461 | { |
---|
[105] | 462 | Double xcop = x; |
---|
| 463 | MVTime mvt(xcop/24./3600.); // make days |
---|
[365] | 464 | |
---|
[105] | 465 | if (x < 59.95) |
---|
[281] | 466 | return String(" ") + mvt.string(MVTime::TIME_CLEAN_NO_HM, 7)+"s"; |
---|
[745] | 467 | else if (x < 3599.95) |
---|
[281] | 468 | return String(" ") + mvt.string(MVTime::TIME_CLEAN_NO_H,7)+" "; |
---|
| 469 | else { |
---|
| 470 | ostringstream oss; |
---|
| 471 | oss << setw(2) << std::right << setprecision(1) << mvt.hour(); |
---|
| 472 | oss << ":" << mvt.string(MVTime::TIME_CLEAN_NO_H,7) << " "; |
---|
| 473 | return String(oss); |
---|
[745] | 474 | } |
---|
[105] | 475 | }; |
---|
| 476 | |
---|
[805] | 477 | std::string Scantable::formatDirection(const MDirection& md) const |
---|
[281] | 478 | { |
---|
| 479 | Vector<Double> t = md.getAngle(Unit(String("rad"))).getValue(); |
---|
| 480 | Int prec = 7; |
---|
| 481 | |
---|
[2575] | 482 | String ref = md.getRefString(); |
---|
[281] | 483 | MVAngle mvLon(t[0]); |
---|
| 484 | String sLon = mvLon.string(MVAngle::TIME,prec); |
---|
[987] | 485 | uInt tp = md.getRef().getType(); |
---|
| 486 | if (tp == MDirection::GALACTIC || |
---|
| 487 | tp == MDirection::SUPERGAL ) { |
---|
| 488 | sLon = mvLon(0.0).string(MVAngle::ANGLE_CLEAN,prec); |
---|
| 489 | } |
---|
[281] | 490 | MVAngle mvLat(t[1]); |
---|
| 491 | String sLat = mvLat.string(MVAngle::ANGLE+MVAngle::DIG2,prec); |
---|
[2575] | 492 | return ref + String(" ") + sLon + String(" ") + sLat; |
---|
[281] | 493 | } |
---|
| 494 | |
---|
| 495 | |
---|
[805] | 496 | std::string Scantable::getFluxUnit() const |
---|
[206] | 497 | { |
---|
[847] | 498 | return table_.keywordSet().asString("FluxUnit"); |
---|
[206] | 499 | } |
---|
| 500 | |
---|
[805] | 501 | void Scantable::setFluxUnit(const std::string& unit) |
---|
[218] | 502 | { |
---|
| 503 | String tmp(unit); |
---|
| 504 | Unit tU(tmp); |
---|
| 505 | if (tU==Unit("K") || tU==Unit("Jy")) { |
---|
| 506 | table_.rwKeywordSet().define(String("FluxUnit"), tmp); |
---|
| 507 | } else { |
---|
| 508 | throw AipsError("Illegal unit - must be compatible with Jy or K"); |
---|
| 509 | } |
---|
| 510 | } |
---|
| 511 | |
---|
[805] | 512 | void Scantable::setInstrument(const std::string& name) |
---|
[236] | 513 | { |
---|
[805] | 514 | bool throwIt = true; |
---|
[996] | 515 | // create an Instrument to see if this is valid |
---|
| 516 | STAttr::convertInstrument(name, throwIt); |
---|
[236] | 517 | String nameU(name); |
---|
| 518 | nameU.upcase(); |
---|
| 519 | table_.rwKeywordSet().define(String("AntennaName"), nameU); |
---|
| 520 | } |
---|
| 521 | |
---|
[1189] | 522 | void Scantable::setFeedType(const std::string& feedtype) |
---|
| 523 | { |
---|
| 524 | if ( Scantable::factories_.find(feedtype) == Scantable::factories_.end() ) { |
---|
| 525 | std::string msg = "Illegal feed type "+ feedtype; |
---|
| 526 | throw(casa::AipsError(msg)); |
---|
| 527 | } |
---|
| 528 | table_.rwKeywordSet().define(String("POLTYPE"), feedtype); |
---|
| 529 | } |
---|
| 530 | |
---|
[1743] | 531 | MPosition Scantable::getAntennaPosition() const |
---|
[805] | 532 | { |
---|
| 533 | Vector<Double> antpos; |
---|
| 534 | table_.keywordSet().get("AntennaPosition", antpos); |
---|
| 535 | MVPosition mvpos(antpos(0),antpos(1),antpos(2)); |
---|
| 536 | return MPosition(mvpos); |
---|
| 537 | } |
---|
[281] | 538 | |
---|
[805] | 539 | void Scantable::makePersistent(const std::string& filename) |
---|
| 540 | { |
---|
| 541 | String inname(filename); |
---|
| 542 | Path path(inname); |
---|
[1111] | 543 | /// @todo reindex SCANNO, recompute nbeam, nif, npol |
---|
[805] | 544 | inname = path.expandedName(); |
---|
[2030] | 545 | // 2011/03/04 TN |
---|
| 546 | // We can comment out this workaround since the essential bug is |
---|
| 547 | // fixed in casacore (r20889 in google code). |
---|
| 548 | table_.deepCopy(inname, Table::New); |
---|
| 549 | // // WORKAROUND !!! for Table bug |
---|
| 550 | // // Remove when fixed in casacore |
---|
| 551 | // if ( table_.tableType() == Table::Memory && !selector_.empty() ) { |
---|
| 552 | // Table tab = table_.copyToMemoryTable(generateName()); |
---|
| 553 | // tab.deepCopy(inname, Table::New); |
---|
| 554 | // tab.markForDelete(); |
---|
| 555 | // |
---|
| 556 | // } else { |
---|
| 557 | // table_.deepCopy(inname, Table::New); |
---|
| 558 | // } |
---|
[805] | 559 | } |
---|
| 560 | |
---|
[837] | 561 | int Scantable::nbeam( int scanno ) const |
---|
[805] | 562 | { |
---|
| 563 | if ( scanno < 0 ) { |
---|
| 564 | Int n; |
---|
| 565 | table_.keywordSet().get("nBeam",n); |
---|
| 566 | return int(n); |
---|
[105] | 567 | } else { |
---|
[805] | 568 | // take the first POLNO,IFNO,CYCLENO as nbeam shouldn't vary with these |
---|
[888] | 569 | Table t = table_(table_.col("SCANNO") == scanno); |
---|
| 570 | ROTableRow row(t); |
---|
| 571 | const TableRecord& rec = row.get(0); |
---|
| 572 | Table subt = t( t.col("IFNO") == Int(rec.asuInt("IFNO")) |
---|
| 573 | && t.col("POLNO") == Int(rec.asuInt("POLNO")) |
---|
| 574 | && t.col("CYCLENO") == Int(rec.asuInt("CYCLENO")) ); |
---|
| 575 | ROTableVector<uInt> v(subt, "BEAMNO"); |
---|
[805] | 576 | return int(v.nelements()); |
---|
[105] | 577 | } |
---|
[805] | 578 | return 0; |
---|
| 579 | } |
---|
[455] | 580 | |
---|
[837] | 581 | int Scantable::nif( int scanno ) const |
---|
[805] | 582 | { |
---|
| 583 | if ( scanno < 0 ) { |
---|
| 584 | Int n; |
---|
| 585 | table_.keywordSet().get("nIF",n); |
---|
| 586 | return int(n); |
---|
| 587 | } else { |
---|
| 588 | // take the first POLNO,BEAMNO,CYCLENO as nbeam shouldn't vary with these |
---|
[888] | 589 | Table t = table_(table_.col("SCANNO") == scanno); |
---|
| 590 | ROTableRow row(t); |
---|
| 591 | const TableRecord& rec = row.get(0); |
---|
| 592 | Table subt = t( t.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
| 593 | && t.col("POLNO") == Int(rec.asuInt("POLNO")) |
---|
| 594 | && t.col("CYCLENO") == Int(rec.asuInt("CYCLENO")) ); |
---|
| 595 | if ( subt.nrow() == 0 ) return 0; |
---|
| 596 | ROTableVector<uInt> v(subt, "IFNO"); |
---|
[805] | 597 | return int(v.nelements()); |
---|
[2] | 598 | } |
---|
[805] | 599 | return 0; |
---|
| 600 | } |
---|
[321] | 601 | |
---|
[837] | 602 | int Scantable::npol( int scanno ) const |
---|
[805] | 603 | { |
---|
| 604 | if ( scanno < 0 ) { |
---|
| 605 | Int n; |
---|
| 606 | table_.keywordSet().get("nPol",n); |
---|
| 607 | return n; |
---|
| 608 | } else { |
---|
| 609 | // take the first POLNO,IFNO,CYCLENO as nbeam shouldn't vary with these |
---|
[888] | 610 | Table t = table_(table_.col("SCANNO") == scanno); |
---|
| 611 | ROTableRow row(t); |
---|
| 612 | const TableRecord& rec = row.get(0); |
---|
| 613 | Table subt = t( t.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
| 614 | && t.col("IFNO") == Int(rec.asuInt("IFNO")) |
---|
| 615 | && t.col("CYCLENO") == Int(rec.asuInt("CYCLENO")) ); |
---|
| 616 | if ( subt.nrow() == 0 ) return 0; |
---|
| 617 | ROTableVector<uInt> v(subt, "POLNO"); |
---|
[805] | 618 | return int(v.nelements()); |
---|
[321] | 619 | } |
---|
[805] | 620 | return 0; |
---|
[2] | 621 | } |
---|
[805] | 622 | |
---|
[845] | 623 | int Scantable::ncycle( int scanno ) const |
---|
[206] | 624 | { |
---|
[805] | 625 | if ( scanno < 0 ) { |
---|
[837] | 626 | Block<String> cols(2); |
---|
| 627 | cols[0] = "SCANNO"; |
---|
| 628 | cols[1] = "CYCLENO"; |
---|
| 629 | TableIterator it(table_, cols); |
---|
| 630 | int n = 0; |
---|
| 631 | while ( !it.pastEnd() ) { |
---|
| 632 | ++n; |
---|
[902] | 633 | ++it; |
---|
[837] | 634 | } |
---|
| 635 | return n; |
---|
[805] | 636 | } else { |
---|
[888] | 637 | Table t = table_(table_.col("SCANNO") == scanno); |
---|
| 638 | ROTableRow row(t); |
---|
| 639 | const TableRecord& rec = row.get(0); |
---|
| 640 | Table subt = t( t.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
| 641 | && t.col("POLNO") == Int(rec.asuInt("POLNO")) |
---|
| 642 | && t.col("IFNO") == Int(rec.asuInt("IFNO")) ); |
---|
| 643 | if ( subt.nrow() == 0 ) return 0; |
---|
| 644 | return int(subt.nrow()); |
---|
[805] | 645 | } |
---|
| 646 | return 0; |
---|
[18] | 647 | } |
---|
[455] | 648 | |
---|
| 649 | |
---|
[845] | 650 | int Scantable::nrow( int scanno ) const |
---|
[805] | 651 | { |
---|
[845] | 652 | return int(table_.nrow()); |
---|
| 653 | } |
---|
| 654 | |
---|
| 655 | int Scantable::nchan( int ifno ) const |
---|
| 656 | { |
---|
| 657 | if ( ifno < 0 ) { |
---|
[805] | 658 | Int n; |
---|
| 659 | table_.keywordSet().get("nChan",n); |
---|
| 660 | return int(n); |
---|
| 661 | } else { |
---|
[1360] | 662 | // take the first SCANNO,POLNO,BEAMNO,CYCLENO as nbeam shouldn't |
---|
| 663 | // vary with these |
---|
[2244] | 664 | Table t = table_(table_.col("IFNO") == ifno, 1); |
---|
[888] | 665 | if ( t.nrow() == 0 ) return 0; |
---|
| 666 | ROArrayColumn<Float> v(t, "SPECTRA"); |
---|
[923] | 667 | return v.shape(0)(0); |
---|
[805] | 668 | } |
---|
| 669 | return 0; |
---|
[18] | 670 | } |
---|
[455] | 671 | |
---|
[1111] | 672 | int Scantable::nscan() const { |
---|
| 673 | Vector<uInt> scannos(scanCol_.getColumn()); |
---|
[1148] | 674 | uInt nout = genSort( scannos, Sort::Ascending, |
---|
[1111] | 675 | Sort::QuickSort|Sort::NoDuplicates ); |
---|
| 676 | return int(nout); |
---|
| 677 | } |
---|
| 678 | |
---|
[923] | 679 | int Scantable::getChannels(int whichrow) const |
---|
| 680 | { |
---|
| 681 | return specCol_.shape(whichrow)(0); |
---|
| 682 | } |
---|
[847] | 683 | |
---|
| 684 | int Scantable::getBeam(int whichrow) const |
---|
| 685 | { |
---|
| 686 | return beamCol_(whichrow); |
---|
| 687 | } |
---|
| 688 | |
---|
[1694] | 689 | std::vector<uint> Scantable::getNumbers(const ScalarColumn<uInt>& col) const |
---|
[1111] | 690 | { |
---|
| 691 | Vector<uInt> nos(col.getColumn()); |
---|
[1148] | 692 | uInt n = genSort( nos, Sort::Ascending, Sort::QuickSort|Sort::NoDuplicates ); |
---|
| 693 | nos.resize(n, True); |
---|
[1111] | 694 | std::vector<uint> stlout; |
---|
| 695 | nos.tovector(stlout); |
---|
| 696 | return stlout; |
---|
| 697 | } |
---|
| 698 | |
---|
[847] | 699 | int Scantable::getIF(int whichrow) const |
---|
| 700 | { |
---|
| 701 | return ifCol_(whichrow); |
---|
| 702 | } |
---|
| 703 | |
---|
| 704 | int Scantable::getPol(int whichrow) const |
---|
| 705 | { |
---|
| 706 | return polCol_(whichrow); |
---|
| 707 | } |
---|
| 708 | |
---|
[805] | 709 | std::string Scantable::formatTime(const MEpoch& me, bool showdate) const |
---|
| 710 | { |
---|
[1947] | 711 | return formatTime(me, showdate, 0); |
---|
| 712 | } |
---|
| 713 | |
---|
| 714 | std::string Scantable::formatTime(const MEpoch& me, bool showdate, uInt prec) const |
---|
| 715 | { |
---|
[805] | 716 | MVTime mvt(me.getValue()); |
---|
| 717 | if (showdate) |
---|
[1947] | 718 | //mvt.setFormat(MVTime::YMD); |
---|
| 719 | mvt.setFormat(MVTime::YMD, prec); |
---|
[805] | 720 | else |
---|
[1947] | 721 | //mvt.setFormat(MVTime::TIME); |
---|
| 722 | mvt.setFormat(MVTime::TIME, prec); |
---|
[805] | 723 | ostringstream oss; |
---|
| 724 | oss << mvt; |
---|
| 725 | return String(oss); |
---|
| 726 | } |
---|
[488] | 727 | |
---|
[805] | 728 | void Scantable::calculateAZEL() |
---|
[2658] | 729 | { |
---|
| 730 | LogIO os( LogOrigin( "Scantable", "calculateAZEL()", WHERE ) ) ; |
---|
[805] | 731 | MPosition mp = getAntennaPosition(); |
---|
| 732 | MEpoch::ROScalarColumn timeCol(table_, "TIME"); |
---|
| 733 | ostringstream oss; |
---|
[2658] | 734 | oss << mp; |
---|
| 735 | os << "Computed azimuth/elevation using " << endl |
---|
| 736 | << String(oss) << endl; |
---|
[996] | 737 | for (Int i=0; i<nrow(); ++i) { |
---|
[805] | 738 | MEpoch me = timeCol(i); |
---|
[987] | 739 | MDirection md = getDirection(i); |
---|
[2658] | 740 | os << " Time: " << formatTime(me,False) |
---|
| 741 | << " Direction: " << formatDirection(md) |
---|
[805] | 742 | << endl << " => "; |
---|
| 743 | MeasFrame frame(mp, me); |
---|
| 744 | Vector<Double> azel = |
---|
| 745 | MDirection::Convert(md, MDirection::Ref(MDirection::AZEL, |
---|
| 746 | frame) |
---|
| 747 | )().getAngle("rad").getValue(); |
---|
[923] | 748 | azCol_.put(i,Float(azel[0])); |
---|
| 749 | elCol_.put(i,Float(azel[1])); |
---|
[2658] | 750 | os << "azel: " << azel[0]/C::pi*180.0 << " " |
---|
| 751 | << azel[1]/C::pi*180.0 << " (deg)" << LogIO::POST; |
---|
[16] | 752 | } |
---|
[805] | 753 | } |
---|
[89] | 754 | |
---|
[1819] | 755 | void Scantable::clip(const Float uthres, const Float dthres, bool clipoutside, bool unflag) |
---|
| 756 | { |
---|
| 757 | for (uInt i=0; i<table_.nrow(); ++i) { |
---|
| 758 | Vector<uChar> flgs = flagsCol_(i); |
---|
| 759 | srchChannelsToClip(i, uthres, dthres, clipoutside, unflag, flgs); |
---|
| 760 | flagsCol_.put(i, flgs); |
---|
| 761 | } |
---|
| 762 | } |
---|
| 763 | |
---|
| 764 | std::vector<bool> Scantable::getClipMask(int whichrow, const Float uthres, const Float dthres, bool clipoutside, bool unflag) |
---|
| 765 | { |
---|
| 766 | Vector<uChar> flags; |
---|
| 767 | flagsCol_.get(uInt(whichrow), flags); |
---|
| 768 | srchChannelsToClip(uInt(whichrow), uthres, dthres, clipoutside, unflag, flags); |
---|
| 769 | Vector<Bool> bflag(flags.shape()); |
---|
| 770 | convertArray(bflag, flags); |
---|
| 771 | //bflag = !bflag; |
---|
| 772 | |
---|
| 773 | std::vector<bool> mask; |
---|
| 774 | bflag.tovector(mask); |
---|
| 775 | return mask; |
---|
| 776 | } |
---|
| 777 | |
---|
| 778 | void Scantable::srchChannelsToClip(uInt whichrow, const Float uthres, const Float dthres, bool clipoutside, bool unflag, |
---|
| 779 | Vector<uChar> flgs) |
---|
| 780 | { |
---|
| 781 | Vector<Float> spcs = specCol_(whichrow); |
---|
[2348] | 782 | uInt nchannel = spcs.nelements(); |
---|
[1819] | 783 | if (spcs.nelements() != nchannel) { |
---|
| 784 | throw(AipsError("Data has incorrect number of channels")); |
---|
| 785 | } |
---|
| 786 | uChar userflag = 1 << 7; |
---|
| 787 | if (unflag) { |
---|
| 788 | userflag = 0 << 7; |
---|
| 789 | } |
---|
| 790 | if (clipoutside) { |
---|
| 791 | for (uInt j = 0; j < nchannel; ++j) { |
---|
| 792 | Float spc = spcs(j); |
---|
| 793 | if ((spc >= uthres) || (spc <= dthres)) { |
---|
| 794 | flgs(j) = userflag; |
---|
| 795 | } |
---|
| 796 | } |
---|
| 797 | } else { |
---|
| 798 | for (uInt j = 0; j < nchannel; ++j) { |
---|
| 799 | Float spc = spcs(j); |
---|
| 800 | if ((spc < uthres) && (spc > dthres)) { |
---|
| 801 | flgs(j) = userflag; |
---|
| 802 | } |
---|
| 803 | } |
---|
| 804 | } |
---|
| 805 | } |
---|
| 806 | |
---|
[1994] | 807 | |
---|
| 808 | void Scantable::flag( int whichrow, const std::vector<bool>& msk, bool unflag ) { |
---|
[1333] | 809 | std::vector<bool>::const_iterator it; |
---|
| 810 | uInt ntrue = 0; |
---|
[1994] | 811 | if (whichrow >= int(table_.nrow()) ) { |
---|
| 812 | throw(AipsError("Invalid row number")); |
---|
| 813 | } |
---|
[1333] | 814 | for (it = msk.begin(); it != msk.end(); ++it) { |
---|
| 815 | if ( *it ) { |
---|
| 816 | ntrue++; |
---|
| 817 | } |
---|
| 818 | } |
---|
[1994] | 819 | //if ( selector_.empty() && (msk.size() == 0 || msk.size() == ntrue) ) |
---|
| 820 | if ( whichrow == -1 && !unflag && selector_.empty() && (msk.size() == 0 || msk.size() == ntrue) ) |
---|
[1000] | 821 | throw(AipsError("Trying to flag whole scantable.")); |
---|
[1994] | 822 | uChar userflag = 1 << 7; |
---|
| 823 | if ( unflag ) { |
---|
| 824 | userflag = 0 << 7; |
---|
| 825 | } |
---|
| 826 | if (whichrow > -1 ) { |
---|
| 827 | applyChanFlag(uInt(whichrow), msk, userflag); |
---|
| 828 | } else { |
---|
[1000] | 829 | for ( uInt i=0; i<table_.nrow(); ++i) { |
---|
[1994] | 830 | applyChanFlag(i, msk, userflag); |
---|
[1000] | 831 | } |
---|
[1994] | 832 | } |
---|
| 833 | } |
---|
| 834 | |
---|
| 835 | void Scantable::applyChanFlag( uInt whichrow, const std::vector<bool>& msk, uChar flagval ) |
---|
| 836 | { |
---|
| 837 | if (whichrow >= table_.nrow() ) { |
---|
| 838 | throw( casa::indexError<int>( whichrow, "asap::Scantable::applyChanFlag: Invalid row number" ) ); |
---|
| 839 | } |
---|
| 840 | Vector<uChar> flgs = flagsCol_(whichrow); |
---|
| 841 | if ( msk.size() == 0 ) { |
---|
| 842 | flgs = flagval; |
---|
| 843 | flagsCol_.put(whichrow, flgs); |
---|
[1000] | 844 | return; |
---|
| 845 | } |
---|
[2348] | 846 | if ( int(msk.size()) != nchan( getIF(whichrow) ) ) { |
---|
[1000] | 847 | throw(AipsError("Mask has incorrect number of channels.")); |
---|
| 848 | } |
---|
[1994] | 849 | if ( flgs.nelements() != msk.size() ) { |
---|
| 850 | throw(AipsError("Mask has incorrect number of channels." |
---|
| 851 | " Probably varying with IF. Please flag per IF")); |
---|
| 852 | } |
---|
| 853 | std::vector<bool>::const_iterator it; |
---|
| 854 | uInt j = 0; |
---|
| 855 | for (it = msk.begin(); it != msk.end(); ++it) { |
---|
| 856 | if ( *it ) { |
---|
| 857 | flgs(j) = flagval; |
---|
[1000] | 858 | } |
---|
[1994] | 859 | ++j; |
---|
[1000] | 860 | } |
---|
[1994] | 861 | flagsCol_.put(whichrow, flgs); |
---|
[865] | 862 | } |
---|
| 863 | |
---|
[1819] | 864 | void Scantable::flagRow(const std::vector<uInt>& rows, bool unflag) |
---|
| 865 | { |
---|
| 866 | if ( selector_.empty() && (rows.size() == table_.nrow()) ) |
---|
| 867 | throw(AipsError("Trying to flag whole scantable.")); |
---|
| 868 | |
---|
| 869 | uInt rowflag = (unflag ? 0 : 1); |
---|
| 870 | std::vector<uInt>::const_iterator it; |
---|
| 871 | for (it = rows.begin(); it != rows.end(); ++it) |
---|
| 872 | flagrowCol_.put(*it, rowflag); |
---|
| 873 | } |
---|
| 874 | |
---|
[805] | 875 | std::vector<bool> Scantable::getMask(int whichrow) const |
---|
| 876 | { |
---|
| 877 | Vector<uChar> flags; |
---|
| 878 | flagsCol_.get(uInt(whichrow), flags); |
---|
| 879 | Vector<Bool> bflag(flags.shape()); |
---|
| 880 | convertArray(bflag, flags); |
---|
| 881 | bflag = !bflag; |
---|
| 882 | std::vector<bool> mask; |
---|
| 883 | bflag.tovector(mask); |
---|
| 884 | return mask; |
---|
| 885 | } |
---|
[89] | 886 | |
---|
[896] | 887 | std::vector<float> Scantable::getSpectrum( int whichrow, |
---|
[902] | 888 | const std::string& poltype ) const |
---|
[805] | 889 | { |
---|
[2658] | 890 | LogIO os( LogOrigin( "Scantable", "getSpectrum()", WHERE ) ) ; |
---|
| 891 | |
---|
[905] | 892 | String ptype = poltype; |
---|
| 893 | if (poltype == "" ) ptype = getPolType(); |
---|
[902] | 894 | if ( whichrow < 0 || whichrow >= nrow() ) |
---|
| 895 | throw(AipsError("Illegal row number.")); |
---|
[896] | 896 | std::vector<float> out; |
---|
[805] | 897 | Vector<Float> arr; |
---|
[896] | 898 | uInt requestedpol = polCol_(whichrow); |
---|
| 899 | String basetype = getPolType(); |
---|
[905] | 900 | if ( ptype == basetype ) { |
---|
[896] | 901 | specCol_.get(whichrow, arr); |
---|
| 902 | } else { |
---|
[1598] | 903 | CountedPtr<STPol> stpol(STPol::getPolClass(Scantable::factories_, |
---|
[1586] | 904 | basetype)); |
---|
[1334] | 905 | uInt row = uInt(whichrow); |
---|
| 906 | stpol->setSpectra(getPolMatrix(row)); |
---|
[2047] | 907 | Float fang,fhand; |
---|
[1586] | 908 | fang = focusTable_.getTotalAngle(mfocusidCol_(row)); |
---|
[1334] | 909 | fhand = focusTable_.getFeedHand(mfocusidCol_(row)); |
---|
[1586] | 910 | stpol->setPhaseCorrections(fang, fhand); |
---|
[1334] | 911 | arr = stpol->getSpectrum(requestedpol, ptype); |
---|
[896] | 912 | } |
---|
[902] | 913 | if ( arr.nelements() == 0 ) |
---|
[2658] | 914 | |
---|
| 915 | os << "Not enough polarisations present to do the conversion." |
---|
| 916 | << LogIO::POST; |
---|
[805] | 917 | arr.tovector(out); |
---|
| 918 | return out; |
---|
[89] | 919 | } |
---|
[212] | 920 | |
---|
[1360] | 921 | void Scantable::setSpectrum( const std::vector<float>& spec, |
---|
[884] | 922 | int whichrow ) |
---|
| 923 | { |
---|
| 924 | Vector<Float> spectrum(spec); |
---|
| 925 | Vector<Float> arr; |
---|
| 926 | specCol_.get(whichrow, arr); |
---|
| 927 | if ( spectrum.nelements() != arr.nelements() ) |
---|
[896] | 928 | throw AipsError("The spectrum has incorrect number of channels."); |
---|
[884] | 929 | specCol_.put(whichrow, spectrum); |
---|
| 930 | } |
---|
| 931 | |
---|
| 932 | |
---|
[805] | 933 | String Scantable::generateName() |
---|
[745] | 934 | { |
---|
[805] | 935 | return (File::newUniqueName("./","temp")).baseName(); |
---|
[212] | 936 | } |
---|
| 937 | |
---|
[805] | 938 | const casa::Table& Scantable::table( ) const |
---|
[212] | 939 | { |
---|
[805] | 940 | return table_; |
---|
[212] | 941 | } |
---|
| 942 | |
---|
[805] | 943 | casa::Table& Scantable::table( ) |
---|
[386] | 944 | { |
---|
[805] | 945 | return table_; |
---|
[386] | 946 | } |
---|
| 947 | |
---|
[896] | 948 | std::string Scantable::getPolType() const |
---|
| 949 | { |
---|
| 950 | return table_.keywordSet().asString("POLTYPE"); |
---|
| 951 | } |
---|
| 952 | |
---|
[805] | 953 | void Scantable::unsetSelection() |
---|
[380] | 954 | { |
---|
[805] | 955 | table_ = originalTable_; |
---|
[847] | 956 | attach(); |
---|
[805] | 957 | selector_.reset(); |
---|
[380] | 958 | } |
---|
[386] | 959 | |
---|
[805] | 960 | void Scantable::setSelection( const STSelector& selection ) |
---|
[430] | 961 | { |
---|
[805] | 962 | Table tab = const_cast<STSelector&>(selection).apply(originalTable_); |
---|
| 963 | if ( tab.nrow() == 0 ) { |
---|
| 964 | throw(AipsError("Selection contains no data. Not applying it.")); |
---|
| 965 | } |
---|
| 966 | table_ = tab; |
---|
[847] | 967 | attach(); |
---|
[2084] | 968 | // tab.rwKeywordSet().define("nBeam",(Int)(getBeamNos().size())) ; |
---|
| 969 | // vector<uint> selectedIFs = getIFNos() ; |
---|
| 970 | // Int newnIF = selectedIFs.size() ; |
---|
| 971 | // tab.rwKeywordSet().define("nIF",newnIF) ; |
---|
| 972 | // if ( newnIF != 0 ) { |
---|
| 973 | // Int newnChan = 0 ; |
---|
| 974 | // for ( Int i = 0 ; i < newnIF ; i++ ) { |
---|
| 975 | // Int nChan = nchan( selectedIFs[i] ) ; |
---|
| 976 | // if ( newnChan > nChan ) |
---|
| 977 | // newnChan = nChan ; |
---|
| 978 | // } |
---|
| 979 | // tab.rwKeywordSet().define("nChan",newnChan) ; |
---|
| 980 | // } |
---|
| 981 | // tab.rwKeywordSet().define("nPol",(Int)(getPolNos().size())) ; |
---|
[805] | 982 | selector_ = selection; |
---|
[430] | 983 | } |
---|
| 984 | |
---|
[2111] | 985 | |
---|
[2163] | 986 | std::string Scantable::headerSummary() |
---|
[447] | 987 | { |
---|
[805] | 988 | // Format header info |
---|
[2111] | 989 | // STHeader sdh; |
---|
| 990 | // sdh = getHeader(); |
---|
| 991 | // sdh.print(); |
---|
[805] | 992 | ostringstream oss; |
---|
| 993 | oss.flags(std::ios_base::left); |
---|
[2290] | 994 | String tmp; |
---|
| 995 | // Project |
---|
| 996 | table_.keywordSet().get("Project", tmp); |
---|
| 997 | oss << setw(15) << "Project:" << tmp << endl; |
---|
| 998 | // Observation date |
---|
| 999 | oss << setw(15) << "Obs Date:" << getTime(-1,true) << endl; |
---|
| 1000 | // Observer |
---|
| 1001 | oss << setw(15) << "Observer:" |
---|
| 1002 | << table_.keywordSet().asString("Observer") << endl; |
---|
| 1003 | // Antenna Name |
---|
| 1004 | table_.keywordSet().get("AntennaName", tmp); |
---|
| 1005 | oss << setw(15) << "Antenna Name:" << tmp << endl; |
---|
| 1006 | // Obs type |
---|
| 1007 | table_.keywordSet().get("Obstype", tmp); |
---|
| 1008 | // Records (nrow) |
---|
| 1009 | oss << setw(15) << "Data Records:" << table_.nrow() << " rows" << endl; |
---|
| 1010 | oss << setw(15) << "Obs. Type:" << tmp << endl; |
---|
| 1011 | // Beams, IFs, Polarizations, and Channels |
---|
[805] | 1012 | oss << setw(15) << "Beams:" << setw(4) << nbeam() << endl |
---|
| 1013 | << setw(15) << "IFs:" << setw(4) << nif() << endl |
---|
[896] | 1014 | << setw(15) << "Polarisations:" << setw(4) << npol() |
---|
| 1015 | << "(" << getPolType() << ")" << endl |
---|
[1694] | 1016 | << setw(15) << "Channels:" << nchan() << endl; |
---|
[2290] | 1017 | // Flux unit |
---|
| 1018 | table_.keywordSet().get("FluxUnit", tmp); |
---|
| 1019 | oss << setw(15) << "Flux Unit:" << tmp << endl; |
---|
| 1020 | // Abscissa Unit |
---|
| 1021 | oss << setw(15) << "Abscissa:" << getAbcissaLabel(0) << endl; |
---|
| 1022 | // Selection |
---|
| 1023 | oss << selector_.print() << endl; |
---|
| 1024 | |
---|
| 1025 | return String(oss); |
---|
| 1026 | } |
---|
| 1027 | |
---|
| 1028 | void Scantable::summary( const std::string& filename ) |
---|
| 1029 | { |
---|
| 1030 | ostringstream oss; |
---|
| 1031 | ofstream ofs; |
---|
| 1032 | LogIO ols(LogOrigin("Scantable", "summary", WHERE)); |
---|
| 1033 | |
---|
| 1034 | if (filename != "") |
---|
| 1035 | ofs.open( filename.c_str(), ios::out ); |
---|
| 1036 | |
---|
| 1037 | oss << endl; |
---|
| 1038 | oss << asap::SEPERATOR << endl; |
---|
| 1039 | oss << " Scan Table Summary" << endl; |
---|
| 1040 | oss << asap::SEPERATOR << endl; |
---|
| 1041 | |
---|
| 1042 | // Format header info |
---|
| 1043 | oss << headerSummary(); |
---|
| 1044 | oss << endl; |
---|
| 1045 | |
---|
| 1046 | if (table_.nrow() <= 0){ |
---|
| 1047 | oss << asap::SEPERATOR << endl; |
---|
| 1048 | oss << "The MAIN table is empty: there are no data!!!" << endl; |
---|
| 1049 | oss << asap::SEPERATOR << endl; |
---|
| 1050 | |
---|
| 1051 | ols << String(oss) << LogIO::POST; |
---|
| 1052 | if (ofs) { |
---|
| 1053 | ofs << String(oss) << flush; |
---|
| 1054 | ofs.close(); |
---|
| 1055 | } |
---|
| 1056 | return; |
---|
| 1057 | } |
---|
| 1058 | |
---|
| 1059 | |
---|
| 1060 | |
---|
| 1061 | // main table |
---|
| 1062 | String dirtype = "Position (" |
---|
| 1063 | + getDirectionRefString() |
---|
| 1064 | + ")"; |
---|
| 1065 | oss.flags(std::ios_base::left); |
---|
| 1066 | oss << setw(5) << "Scan" |
---|
| 1067 | << setw(15) << "Source" |
---|
| 1068 | << setw(35) << "Time range" |
---|
| 1069 | << setw(2) << "" << setw(7) << "Int[s]" |
---|
| 1070 | << setw(7) << "Record" |
---|
| 1071 | << setw(8) << "SrcType" |
---|
| 1072 | << setw(8) << "FreqIDs" |
---|
| 1073 | << setw(7) << "MolIDs" << endl; |
---|
| 1074 | oss << setw(7)<< "" << setw(6) << "Beam" |
---|
| 1075 | << setw(23) << dirtype << endl; |
---|
| 1076 | |
---|
| 1077 | oss << asap::SEPERATOR << endl; |
---|
| 1078 | |
---|
| 1079 | // Flush summary and clear up the string |
---|
| 1080 | ols << String(oss) << LogIO::POST; |
---|
| 1081 | if (ofs) ofs << String(oss) << flush; |
---|
| 1082 | oss.str(""); |
---|
| 1083 | oss.clear(); |
---|
| 1084 | |
---|
| 1085 | |
---|
| 1086 | // Get Freq_ID map |
---|
| 1087 | ROScalarColumn<uInt> ftabIds(frequencies().table(), "ID"); |
---|
| 1088 | Int nfid = ftabIds.nrow(); |
---|
| 1089 | if (nfid <= 0){ |
---|
| 1090 | oss << "FREQUENCIES subtable is empty: there are no data!!!" << endl; |
---|
| 1091 | oss << asap::SEPERATOR << endl; |
---|
| 1092 | |
---|
| 1093 | ols << String(oss) << LogIO::POST; |
---|
| 1094 | if (ofs) { |
---|
| 1095 | ofs << String(oss) << flush; |
---|
| 1096 | ofs.close(); |
---|
| 1097 | } |
---|
| 1098 | return; |
---|
| 1099 | } |
---|
| 1100 | // Storages of overall IFNO, POLNO, and nchan per FREQ_ID |
---|
| 1101 | // the orders are identical to ID in FREQ subtable |
---|
| 1102 | Block< Vector<uInt> > ifNos(nfid), polNos(nfid); |
---|
| 1103 | Vector<Int> fIdchans(nfid,-1); |
---|
| 1104 | map<uInt, Int> fidMap; // (FREQ_ID, row # in FREQ subtable) pair |
---|
| 1105 | for (Int i=0; i < nfid; i++){ |
---|
| 1106 | // fidMap[freqId] returns row number in FREQ subtable |
---|
| 1107 | fidMap.insert(pair<uInt, Int>(ftabIds(i),i)); |
---|
| 1108 | ifNos[i] = Vector<uInt>(); |
---|
| 1109 | polNos[i] = Vector<uInt>(); |
---|
| 1110 | } |
---|
| 1111 | |
---|
| 1112 | TableIterator iter(table_, "SCANNO"); |
---|
| 1113 | |
---|
| 1114 | // Vars for keeping track of time, freqids, molIds in a SCANNO |
---|
| 1115 | Vector<uInt> freqids; |
---|
| 1116 | Vector<uInt> molids; |
---|
| 1117 | Vector<uInt> beamids(1,0); |
---|
| 1118 | Vector<MDirection> beamDirs; |
---|
| 1119 | Vector<Int> stypeids(1,0); |
---|
| 1120 | Vector<String> stypestrs; |
---|
| 1121 | Int nfreq(1); |
---|
| 1122 | Int nmol(1); |
---|
| 1123 | uInt nbeam(1); |
---|
| 1124 | uInt nstype(1); |
---|
| 1125 | |
---|
| 1126 | Double btime(0.0), etime(0.0); |
---|
| 1127 | Double meanIntTim(0.0); |
---|
| 1128 | |
---|
| 1129 | uInt currFreqId(0), ftabRow(0); |
---|
| 1130 | Int iflen(0), pollen(0); |
---|
| 1131 | |
---|
| 1132 | while (!iter.pastEnd()) { |
---|
| 1133 | Table subt = iter.table(); |
---|
| 1134 | uInt snrow = subt.nrow(); |
---|
| 1135 | ROTableRow row(subt); |
---|
| 1136 | const TableRecord& rec = row.get(0); |
---|
| 1137 | |
---|
| 1138 | // relevant columns |
---|
| 1139 | ROScalarColumn<Double> mjdCol(subt,"TIME"); |
---|
| 1140 | ROScalarColumn<Double> intervalCol(subt,"INTERVAL"); |
---|
| 1141 | MDirection::ROScalarColumn dirCol(subt,"DIRECTION"); |
---|
| 1142 | |
---|
| 1143 | ScalarColumn<uInt> freqIdCol(subt,"FREQ_ID"); |
---|
| 1144 | ScalarColumn<uInt> molIdCol(subt,"MOLECULE_ID"); |
---|
| 1145 | ROScalarColumn<uInt> beamCol(subt,"BEAMNO"); |
---|
| 1146 | ROScalarColumn<Int> stypeCol(subt,"SRCTYPE"); |
---|
| 1147 | |
---|
| 1148 | ROScalarColumn<uInt> ifNoCol(subt,"IFNO"); |
---|
| 1149 | ROScalarColumn<uInt> polNoCol(subt,"POLNO"); |
---|
| 1150 | |
---|
| 1151 | |
---|
| 1152 | // Times |
---|
| 1153 | meanIntTim = sum(intervalCol.getColumn()) / (double) snrow; |
---|
| 1154 | minMax(btime, etime, mjdCol.getColumn()); |
---|
| 1155 | etime += meanIntTim/C::day; |
---|
| 1156 | |
---|
| 1157 | // MOLECULE_ID and FREQ_ID |
---|
| 1158 | molids = getNumbers(molIdCol); |
---|
| 1159 | molids.shape(nmol); |
---|
| 1160 | |
---|
| 1161 | freqids = getNumbers(freqIdCol); |
---|
| 1162 | freqids.shape(nfreq); |
---|
| 1163 | |
---|
| 1164 | // Add first beamid, and srcNames |
---|
| 1165 | beamids.resize(1,False); |
---|
| 1166 | beamDirs.resize(1,False); |
---|
| 1167 | beamids(0)=beamCol(0); |
---|
| 1168 | beamDirs(0)=dirCol(0); |
---|
| 1169 | nbeam = 1; |
---|
| 1170 | |
---|
| 1171 | stypeids.resize(1,False); |
---|
| 1172 | stypeids(0)=stypeCol(0); |
---|
| 1173 | nstype = 1; |
---|
| 1174 | |
---|
| 1175 | // Global listings of nchan/IFNO/POLNO per FREQ_ID |
---|
| 1176 | currFreqId=freqIdCol(0); |
---|
| 1177 | ftabRow = fidMap[currFreqId]; |
---|
| 1178 | // Assumes an identical number of channels per FREQ_ID |
---|
| 1179 | if (fIdchans(ftabRow) < 0 ) { |
---|
| 1180 | RORecordFieldPtr< Array<Float> > spec(rec, "SPECTRA"); |
---|
| 1181 | fIdchans(ftabRow)=(*spec).shape()(0); |
---|
| 1182 | } |
---|
| 1183 | // Should keep ifNos and polNos form the previous SCANNO |
---|
| 1184 | if ( !anyEQ(ifNos[ftabRow],ifNoCol(0)) ) { |
---|
| 1185 | ifNos[ftabRow].shape(iflen); |
---|
| 1186 | iflen++; |
---|
| 1187 | ifNos[ftabRow].resize(iflen,True); |
---|
| 1188 | ifNos[ftabRow](iflen-1) = ifNoCol(0); |
---|
| 1189 | } |
---|
| 1190 | if ( !anyEQ(polNos[ftabRow],polNoCol(0)) ) { |
---|
| 1191 | polNos[ftabRow].shape(pollen); |
---|
| 1192 | pollen++; |
---|
| 1193 | polNos[ftabRow].resize(pollen,True); |
---|
| 1194 | polNos[ftabRow](pollen-1) = polNoCol(0); |
---|
| 1195 | } |
---|
| 1196 | |
---|
| 1197 | for (uInt i=1; i < snrow; i++){ |
---|
| 1198 | // Need to list BEAMNO and DIRECTION in the same order |
---|
| 1199 | if ( !anyEQ(beamids,beamCol(i)) ) { |
---|
| 1200 | nbeam++; |
---|
| 1201 | beamids.resize(nbeam,True); |
---|
| 1202 | beamids(nbeam-1)=beamCol(i); |
---|
| 1203 | beamDirs.resize(nbeam,True); |
---|
| 1204 | beamDirs(nbeam-1)=dirCol(i); |
---|
| 1205 | } |
---|
| 1206 | |
---|
| 1207 | // SRCTYPE is Int (getNumber takes only uInt) |
---|
| 1208 | if ( !anyEQ(stypeids,stypeCol(i)) ) { |
---|
| 1209 | nstype++; |
---|
| 1210 | stypeids.resize(nstype,True); |
---|
| 1211 | stypeids(nstype-1)=stypeCol(i); |
---|
| 1212 | } |
---|
| 1213 | |
---|
| 1214 | // Global listings of nchan/IFNO/POLNO per FREQ_ID |
---|
| 1215 | currFreqId=freqIdCol(i); |
---|
| 1216 | ftabRow = fidMap[currFreqId]; |
---|
| 1217 | if (fIdchans(ftabRow) < 0 ) { |
---|
| 1218 | const TableRecord& rec = row.get(i); |
---|
| 1219 | RORecordFieldPtr< Array<Float> > spec(rec, "SPECTRA"); |
---|
| 1220 | fIdchans(ftabRow) = (*spec).shape()(0); |
---|
| 1221 | } |
---|
| 1222 | if ( !anyEQ(ifNos[ftabRow],ifNoCol(i)) ) { |
---|
| 1223 | ifNos[ftabRow].shape(iflen); |
---|
| 1224 | iflen++; |
---|
| 1225 | ifNos[ftabRow].resize(iflen,True); |
---|
| 1226 | ifNos[ftabRow](iflen-1) = ifNoCol(i); |
---|
| 1227 | } |
---|
| 1228 | if ( !anyEQ(polNos[ftabRow],polNoCol(i)) ) { |
---|
| 1229 | polNos[ftabRow].shape(pollen); |
---|
| 1230 | pollen++; |
---|
| 1231 | polNos[ftabRow].resize(pollen,True); |
---|
| 1232 | polNos[ftabRow](pollen-1) = polNoCol(i); |
---|
| 1233 | } |
---|
| 1234 | } // end of row iteration |
---|
| 1235 | |
---|
| 1236 | stypestrs.resize(nstype,False); |
---|
| 1237 | for (uInt j=0; j < nstype; j++) |
---|
| 1238 | stypestrs(j) = SrcType::getName(stypeids(j)); |
---|
| 1239 | |
---|
| 1240 | // Format Scan summary |
---|
| 1241 | oss << setw(4) << std::right << rec.asuInt("SCANNO") |
---|
| 1242 | << std::left << setw(1) << "" |
---|
| 1243 | << setw(15) << rec.asString("SRCNAME") |
---|
| 1244 | << setw(21) << MVTime(btime).string(MVTime::YMD,7) |
---|
| 1245 | << setw(3) << " - " << MVTime(etime).string(MVTime::TIME,7) |
---|
| 1246 | << setw(3) << "" << setw(6) << meanIntTim << setw(1) << "" |
---|
| 1247 | << std::right << setw(5) << snrow << setw(2) << "" |
---|
| 1248 | << std::left << stypestrs << setw(1) << "" |
---|
| 1249 | << freqids << setw(1) << "" |
---|
| 1250 | << molids << endl; |
---|
| 1251 | // Format Beam summary |
---|
| 1252 | for (uInt j=0; j < nbeam; j++) { |
---|
| 1253 | oss << setw(7) << "" << setw(6) << beamids(j) << setw(1) << "" |
---|
| 1254 | << formatDirection(beamDirs(j)) << endl; |
---|
| 1255 | } |
---|
| 1256 | // Flush summary every scan and clear up the string |
---|
| 1257 | ols << String(oss) << LogIO::POST; |
---|
| 1258 | if (ofs) ofs << String(oss) << flush; |
---|
| 1259 | oss.str(""); |
---|
| 1260 | oss.clear(); |
---|
| 1261 | |
---|
| 1262 | ++iter; |
---|
| 1263 | } // end of scan iteration |
---|
| 1264 | oss << asap::SEPERATOR << endl; |
---|
| 1265 | |
---|
| 1266 | // List FRECUENCIES Table (using STFrequencies.print may be slow) |
---|
| 1267 | oss << "FREQUENCIES: " << nfreq << endl; |
---|
| 1268 | oss << std::right << setw(5) << "ID" << setw(2) << "" |
---|
| 1269 | << std::left << setw(5) << "IFNO" << setw(2) << "" |
---|
| 1270 | << setw(8) << "Frame" |
---|
| 1271 | << setw(16) << "RefVal" |
---|
| 1272 | << setw(7) << "RefPix" |
---|
| 1273 | << setw(15) << "Increment" |
---|
| 1274 | << setw(9) << "Channels" |
---|
| 1275 | << setw(6) << "POLNOs" << endl; |
---|
| 1276 | Int tmplen; |
---|
| 1277 | for (Int i=0; i < nfid; i++){ |
---|
| 1278 | // List row=i of FREQUENCIES subtable |
---|
| 1279 | ifNos[i].shape(tmplen); |
---|
[2531] | 1280 | if (tmplen >= 1) { |
---|
[2290] | 1281 | oss << std::right << setw(5) << ftabIds(i) << setw(2) << "" |
---|
| 1282 | << setw(3) << ifNos[i](0) << setw(1) << "" |
---|
| 1283 | << std::left << setw(46) << frequencies().print(ftabIds(i)) |
---|
| 1284 | << setw(2) << "" |
---|
| 1285 | << std::right << setw(8) << fIdchans[i] << setw(2) << "" |
---|
[2531] | 1286 | << std::left << polNos[i]; |
---|
| 1287 | if (tmplen > 1) { |
---|
| 1288 | oss << " (" << tmplen << " chains)"; |
---|
| 1289 | } |
---|
| 1290 | oss << endl; |
---|
[2290] | 1291 | } |
---|
[2531] | 1292 | |
---|
[2290] | 1293 | } |
---|
| 1294 | oss << asap::SEPERATOR << endl; |
---|
| 1295 | |
---|
| 1296 | // List MOLECULES Table (currently lists all rows) |
---|
| 1297 | oss << "MOLECULES: " << endl; |
---|
| 1298 | if (molecules().nrow() <= 0) { |
---|
| 1299 | oss << " MOLECULES subtable is empty: there are no data" << endl; |
---|
| 1300 | } else { |
---|
| 1301 | ROTableRow row(molecules().table()); |
---|
| 1302 | oss << std::right << setw(5) << "ID" |
---|
| 1303 | << std::left << setw(3) << "" |
---|
| 1304 | << setw(18) << "RestFreq" |
---|
| 1305 | << setw(15) << "Name" << endl; |
---|
| 1306 | for (Int i=0; i < molecules().nrow(); i++){ |
---|
| 1307 | const TableRecord& rec=row.get(i); |
---|
| 1308 | oss << std::right << setw(5) << rec.asuInt("ID") |
---|
| 1309 | << std::left << setw(3) << "" |
---|
| 1310 | << rec.asArrayDouble("RESTFREQUENCY") << setw(1) << "" |
---|
| 1311 | << rec.asArrayString("NAME") << endl; |
---|
| 1312 | } |
---|
| 1313 | } |
---|
| 1314 | oss << asap::SEPERATOR << endl; |
---|
| 1315 | ols << String(oss) << LogIO::POST; |
---|
| 1316 | if (ofs) { |
---|
| 1317 | ofs << String(oss) << flush; |
---|
| 1318 | ofs.close(); |
---|
| 1319 | } |
---|
| 1320 | // return String(oss); |
---|
| 1321 | } |
---|
| 1322 | |
---|
| 1323 | |
---|
| 1324 | std::string Scantable::oldheaderSummary() |
---|
| 1325 | { |
---|
| 1326 | // Format header info |
---|
| 1327 | // STHeader sdh; |
---|
| 1328 | // sdh = getHeader(); |
---|
| 1329 | // sdh.print(); |
---|
| 1330 | ostringstream oss; |
---|
| 1331 | oss.flags(std::ios_base::left); |
---|
| 1332 | oss << setw(15) << "Beams:" << setw(4) << nbeam() << endl |
---|
| 1333 | << setw(15) << "IFs:" << setw(4) << nif() << endl |
---|
| 1334 | << setw(15) << "Polarisations:" << setw(4) << npol() |
---|
| 1335 | << "(" << getPolType() << ")" << endl |
---|
| 1336 | << setw(15) << "Channels:" << nchan() << endl; |
---|
[805] | 1337 | String tmp; |
---|
[860] | 1338 | oss << setw(15) << "Observer:" |
---|
| 1339 | << table_.keywordSet().asString("Observer") << endl; |
---|
[805] | 1340 | oss << setw(15) << "Obs Date:" << getTime(-1,true) << endl; |
---|
| 1341 | table_.keywordSet().get("Project", tmp); |
---|
| 1342 | oss << setw(15) << "Project:" << tmp << endl; |
---|
| 1343 | table_.keywordSet().get("Obstype", tmp); |
---|
| 1344 | oss << setw(15) << "Obs. Type:" << tmp << endl; |
---|
| 1345 | table_.keywordSet().get("AntennaName", tmp); |
---|
| 1346 | oss << setw(15) << "Antenna Name:" << tmp << endl; |
---|
| 1347 | table_.keywordSet().get("FluxUnit", tmp); |
---|
| 1348 | oss << setw(15) << "Flux Unit:" << tmp << endl; |
---|
[1819] | 1349 | int nid = moleculeTable_.nrow(); |
---|
| 1350 | Bool firstline = True; |
---|
[805] | 1351 | oss << setw(15) << "Rest Freqs:"; |
---|
[1819] | 1352 | for (int i=0; i<nid; i++) { |
---|
[2244] | 1353 | Table t = table_(table_.col("MOLECULE_ID") == i, 1); |
---|
[1819] | 1354 | if (t.nrow() > 0) { |
---|
| 1355 | Vector<Double> vec(moleculeTable_.getRestFrequency(i)); |
---|
| 1356 | if (vec.nelements() > 0) { |
---|
| 1357 | if (firstline) { |
---|
| 1358 | oss << setprecision(10) << vec << " [Hz]" << endl; |
---|
| 1359 | firstline=False; |
---|
| 1360 | } |
---|
| 1361 | else{ |
---|
| 1362 | oss << setw(15)<<" " << setprecision(10) << vec << " [Hz]" << endl; |
---|
| 1363 | } |
---|
| 1364 | } else { |
---|
| 1365 | oss << "none" << endl; |
---|
| 1366 | } |
---|
| 1367 | } |
---|
[805] | 1368 | } |
---|
[941] | 1369 | |
---|
| 1370 | oss << setw(15) << "Abcissa:" << getAbcissaLabel(0) << endl; |
---|
[805] | 1371 | oss << selector_.print() << endl; |
---|
[2111] | 1372 | return String(oss); |
---|
| 1373 | } |
---|
| 1374 | |
---|
[2286] | 1375 | //std::string Scantable::summary( const std::string& filename ) |
---|
[2290] | 1376 | void Scantable::oldsummary( const std::string& filename ) |
---|
[2111] | 1377 | { |
---|
| 1378 | ostringstream oss; |
---|
[2286] | 1379 | ofstream ofs; |
---|
| 1380 | LogIO ols(LogOrigin("Scantable", "summary", WHERE)); |
---|
| 1381 | |
---|
| 1382 | if (filename != "") |
---|
| 1383 | ofs.open( filename.c_str(), ios::out ); |
---|
| 1384 | |
---|
[805] | 1385 | oss << endl; |
---|
[2111] | 1386 | oss << asap::SEPERATOR << endl; |
---|
| 1387 | oss << " Scan Table Summary" << endl; |
---|
| 1388 | oss << asap::SEPERATOR << endl; |
---|
| 1389 | |
---|
| 1390 | // Format header info |
---|
[2290] | 1391 | oss << oldheaderSummary(); |
---|
[2111] | 1392 | oss << endl; |
---|
| 1393 | |
---|
[805] | 1394 | // main table |
---|
| 1395 | String dirtype = "Position (" |
---|
[987] | 1396 | + getDirectionRefString() |
---|
[805] | 1397 | + ")"; |
---|
[2111] | 1398 | oss.flags(std::ios_base::left); |
---|
[941] | 1399 | oss << setw(5) << "Scan" << setw(15) << "Source" |
---|
[2005] | 1400 | << setw(10) << "Time" << setw(18) << "Integration" |
---|
| 1401 | << setw(15) << "Source Type" << endl; |
---|
[941] | 1402 | oss << setw(5) << "" << setw(5) << "Beam" << setw(3) << "" << dirtype << endl; |
---|
[1694] | 1403 | oss << setw(10) << "" << setw(3) << "IF" << setw(3) << "" |
---|
[805] | 1404 | << setw(8) << "Frame" << setw(16) |
---|
[1694] | 1405 | << "RefVal" << setw(10) << "RefPix" << setw(12) << "Increment" |
---|
| 1406 | << setw(7) << "Channels" |
---|
| 1407 | << endl; |
---|
[805] | 1408 | oss << asap::SEPERATOR << endl; |
---|
[2286] | 1409 | |
---|
| 1410 | // Flush summary and clear up the string |
---|
| 1411 | ols << String(oss) << LogIO::POST; |
---|
| 1412 | if (ofs) ofs << String(oss) << flush; |
---|
| 1413 | oss.str(""); |
---|
| 1414 | oss.clear(); |
---|
| 1415 | |
---|
[805] | 1416 | TableIterator iter(table_, "SCANNO"); |
---|
| 1417 | while (!iter.pastEnd()) { |
---|
| 1418 | Table subt = iter.table(); |
---|
| 1419 | ROTableRow row(subt); |
---|
| 1420 | MEpoch::ROScalarColumn timeCol(subt,"TIME"); |
---|
| 1421 | const TableRecord& rec = row.get(0); |
---|
| 1422 | oss << setw(4) << std::right << rec.asuInt("SCANNO") |
---|
| 1423 | << std::left << setw(1) << "" |
---|
| 1424 | << setw(15) << rec.asString("SRCNAME") |
---|
| 1425 | << setw(10) << formatTime(timeCol(0), false); |
---|
| 1426 | // count the cycles in the scan |
---|
| 1427 | TableIterator cyciter(subt, "CYCLENO"); |
---|
| 1428 | int nint = 0; |
---|
| 1429 | while (!cyciter.pastEnd()) { |
---|
| 1430 | ++nint; |
---|
| 1431 | ++cyciter; |
---|
| 1432 | } |
---|
| 1433 | oss << setw(3) << std::right << nint << setw(3) << " x " << std::left |
---|
[2005] | 1434 | << setw(11) << formatSec(rec.asFloat("INTERVAL")) << setw(1) << "" |
---|
| 1435 | << setw(15) << SrcType::getName(rec.asInt("SRCTYPE")) << endl; |
---|
[447] | 1436 | |
---|
[805] | 1437 | TableIterator biter(subt, "BEAMNO"); |
---|
| 1438 | while (!biter.pastEnd()) { |
---|
| 1439 | Table bsubt = biter.table(); |
---|
| 1440 | ROTableRow brow(bsubt); |
---|
| 1441 | const TableRecord& brec = brow.get(0); |
---|
[1000] | 1442 | uInt row0 = bsubt.rowNumbers(table_)[0]; |
---|
[941] | 1443 | oss << setw(5) << "" << setw(4) << std::right << brec.asuInt("BEAMNO")<< std::left; |
---|
[987] | 1444 | oss << setw(4) << "" << formatDirection(getDirection(row0)) << endl; |
---|
[805] | 1445 | TableIterator iiter(bsubt, "IFNO"); |
---|
| 1446 | while (!iiter.pastEnd()) { |
---|
| 1447 | Table isubt = iiter.table(); |
---|
| 1448 | ROTableRow irow(isubt); |
---|
| 1449 | const TableRecord& irec = irow.get(0); |
---|
[1694] | 1450 | oss << setw(9) << ""; |
---|
[941] | 1451 | oss << setw(3) << std::right << irec.asuInt("IFNO") << std::left |
---|
[1694] | 1452 | << setw(1) << "" << frequencies().print(irec.asuInt("FREQ_ID")) |
---|
| 1453 | << setw(3) << "" << nchan(irec.asuInt("IFNO")) |
---|
[1375] | 1454 | << endl; |
---|
[447] | 1455 | |
---|
[805] | 1456 | ++iiter; |
---|
| 1457 | } |
---|
| 1458 | ++biter; |
---|
| 1459 | } |
---|
[2286] | 1460 | // Flush summary every scan and clear up the string |
---|
| 1461 | ols << String(oss) << LogIO::POST; |
---|
| 1462 | if (ofs) ofs << String(oss) << flush; |
---|
| 1463 | oss.str(""); |
---|
| 1464 | oss.clear(); |
---|
| 1465 | |
---|
[805] | 1466 | ++iter; |
---|
[447] | 1467 | } |
---|
[2286] | 1468 | oss << asap::SEPERATOR << endl; |
---|
| 1469 | ols << String(oss) << LogIO::POST; |
---|
| 1470 | if (ofs) { |
---|
[2290] | 1471 | ofs << String(oss) << flush; |
---|
[2286] | 1472 | ofs.close(); |
---|
| 1473 | } |
---|
| 1474 | // return String(oss); |
---|
[447] | 1475 | } |
---|
| 1476 | |
---|
[1947] | 1477 | // std::string Scantable::getTime(int whichrow, bool showdate) const |
---|
| 1478 | // { |
---|
| 1479 | // MEpoch::ROScalarColumn timeCol(table_, "TIME"); |
---|
| 1480 | // MEpoch me; |
---|
| 1481 | // if (whichrow > -1) { |
---|
| 1482 | // me = timeCol(uInt(whichrow)); |
---|
| 1483 | // } else { |
---|
| 1484 | // Double tm; |
---|
| 1485 | // table_.keywordSet().get("UTC",tm); |
---|
| 1486 | // me = MEpoch(MVEpoch(tm)); |
---|
| 1487 | // } |
---|
| 1488 | // return formatTime(me, showdate); |
---|
| 1489 | // } |
---|
| 1490 | |
---|
| 1491 | std::string Scantable::getTime(int whichrow, bool showdate, uInt prec) const |
---|
[777] | 1492 | { |
---|
[805] | 1493 | MEpoch me; |
---|
[1947] | 1494 | me = getEpoch(whichrow); |
---|
| 1495 | return formatTime(me, showdate, prec); |
---|
[777] | 1496 | } |
---|
[805] | 1497 | |
---|
[1411] | 1498 | MEpoch Scantable::getEpoch(int whichrow) const |
---|
| 1499 | { |
---|
| 1500 | if (whichrow > -1) { |
---|
| 1501 | return timeCol_(uInt(whichrow)); |
---|
| 1502 | } else { |
---|
| 1503 | Double tm; |
---|
| 1504 | table_.keywordSet().get("UTC",tm); |
---|
[1598] | 1505 | return MEpoch(MVEpoch(tm)); |
---|
[1411] | 1506 | } |
---|
| 1507 | } |
---|
| 1508 | |
---|
[1068] | 1509 | std::string Scantable::getDirectionString(int whichrow) const |
---|
| 1510 | { |
---|
| 1511 | return formatDirection(getDirection(uInt(whichrow))); |
---|
| 1512 | } |
---|
| 1513 | |
---|
[1598] | 1514 | |
---|
| 1515 | SpectralCoordinate Scantable::getSpectralCoordinate(int whichrow) const { |
---|
| 1516 | const MPosition& mp = getAntennaPosition(); |
---|
| 1517 | const MDirection& md = getDirection(whichrow); |
---|
| 1518 | const MEpoch& me = timeCol_(whichrow); |
---|
[1819] | 1519 | //Double rf = moleculeTable_.getRestFrequency(mmolidCol_(whichrow)); |
---|
| 1520 | Vector<Double> rf = moleculeTable_.getRestFrequency(mmolidCol_(whichrow)); |
---|
[2346] | 1521 | return freqTable_.getSpectralCoordinate(md, mp, me, rf, |
---|
[1598] | 1522 | mfreqidCol_(whichrow)); |
---|
| 1523 | } |
---|
| 1524 | |
---|
[1360] | 1525 | std::vector< double > Scantable::getAbcissa( int whichrow ) const |
---|
[865] | 1526 | { |
---|
[1507] | 1527 | if ( whichrow > int(table_.nrow()) ) throw(AipsError("Illegal row number")); |
---|
[865] | 1528 | std::vector<double> stlout; |
---|
| 1529 | int nchan = specCol_(whichrow).nelements(); |
---|
[2346] | 1530 | String us = freqTable_.getUnitString(); |
---|
[865] | 1531 | if ( us == "" || us == "pixel" || us == "channel" ) { |
---|
| 1532 | for (int i=0; i<nchan; ++i) { |
---|
| 1533 | stlout.push_back(double(i)); |
---|
| 1534 | } |
---|
| 1535 | return stlout; |
---|
| 1536 | } |
---|
[1598] | 1537 | SpectralCoordinate spc = getSpectralCoordinate(whichrow); |
---|
[865] | 1538 | Vector<Double> pixel(nchan); |
---|
| 1539 | Vector<Double> world; |
---|
| 1540 | indgen(pixel); |
---|
| 1541 | if ( Unit(us) == Unit("Hz") ) { |
---|
| 1542 | for ( int i=0; i < nchan; ++i) { |
---|
| 1543 | Double world; |
---|
| 1544 | spc.toWorld(world, pixel[i]); |
---|
| 1545 | stlout.push_back(double(world)); |
---|
| 1546 | } |
---|
| 1547 | } else if ( Unit(us) == Unit("km/s") ) { |
---|
| 1548 | Vector<Double> world; |
---|
| 1549 | spc.pixelToVelocity(world, pixel); |
---|
| 1550 | world.tovector(stlout); |
---|
| 1551 | } |
---|
| 1552 | return stlout; |
---|
| 1553 | } |
---|
[1360] | 1554 | void Scantable::setDirectionRefString( const std::string & refstr ) |
---|
[987] | 1555 | { |
---|
| 1556 | MDirection::Types mdt; |
---|
| 1557 | if (refstr != "" && !MDirection::getType(mdt, refstr)) { |
---|
| 1558 | throw(AipsError("Illegal Direction frame.")); |
---|
| 1559 | } |
---|
| 1560 | if ( refstr == "" ) { |
---|
| 1561 | String defaultstr = MDirection::showType(dirCol_.getMeasRef().getType()); |
---|
| 1562 | table_.rwKeywordSet().define("DIRECTIONREF", defaultstr); |
---|
| 1563 | } else { |
---|
| 1564 | table_.rwKeywordSet().define("DIRECTIONREF", String(refstr)); |
---|
| 1565 | } |
---|
| 1566 | } |
---|
[865] | 1567 | |
---|
[1360] | 1568 | std::string Scantable::getDirectionRefString( ) const |
---|
[987] | 1569 | { |
---|
| 1570 | return table_.keywordSet().asString("DIRECTIONREF"); |
---|
| 1571 | } |
---|
| 1572 | |
---|
| 1573 | MDirection Scantable::getDirection(int whichrow ) const |
---|
| 1574 | { |
---|
| 1575 | String usertype = table_.keywordSet().asString("DIRECTIONREF"); |
---|
| 1576 | String type = MDirection::showType(dirCol_.getMeasRef().getType()); |
---|
| 1577 | if ( usertype != type ) { |
---|
| 1578 | MDirection::Types mdt; |
---|
| 1579 | if (!MDirection::getType(mdt, usertype)) { |
---|
| 1580 | throw(AipsError("Illegal Direction frame.")); |
---|
| 1581 | } |
---|
| 1582 | return dirCol_.convert(uInt(whichrow), mdt); |
---|
| 1583 | } else { |
---|
| 1584 | return dirCol_(uInt(whichrow)); |
---|
| 1585 | } |
---|
| 1586 | } |
---|
| 1587 | |
---|
[847] | 1588 | std::string Scantable::getAbcissaLabel( int whichrow ) const |
---|
| 1589 | { |
---|
[996] | 1590 | if ( whichrow > int(table_.nrow()) ) throw(AipsError("Illegal ro number")); |
---|
[847] | 1591 | const MPosition& mp = getAntennaPosition(); |
---|
[987] | 1592 | const MDirection& md = getDirection(whichrow); |
---|
[847] | 1593 | const MEpoch& me = timeCol_(whichrow); |
---|
[1819] | 1594 | //const Double& rf = mmolidCol_(whichrow); |
---|
| 1595 | const Vector<Double> rf = moleculeTable_.getRestFrequency(mmolidCol_(whichrow)); |
---|
[847] | 1596 | SpectralCoordinate spc = |
---|
[2346] | 1597 | freqTable_.getSpectralCoordinate(md, mp, me, rf, mfreqidCol_(whichrow)); |
---|
[847] | 1598 | |
---|
| 1599 | String s = "Channel"; |
---|
[2346] | 1600 | Unit u = Unit(freqTable_.getUnitString()); |
---|
[847] | 1601 | if (u == Unit("km/s")) { |
---|
[1170] | 1602 | s = CoordinateUtil::axisLabel(spc, 0, True,True, True); |
---|
[847] | 1603 | } else if (u == Unit("Hz")) { |
---|
| 1604 | Vector<String> wau(1);wau = u.getName(); |
---|
| 1605 | spc.setWorldAxisUnits(wau); |
---|
[1170] | 1606 | s = CoordinateUtil::axisLabel(spc, 0, True, True, False); |
---|
[847] | 1607 | } |
---|
| 1608 | return s; |
---|
| 1609 | |
---|
| 1610 | } |
---|
| 1611 | |
---|
[1819] | 1612 | /** |
---|
| 1613 | void asap::Scantable::setRestFrequencies( double rf, const std::string& name, |
---|
[1170] | 1614 | const std::string& unit ) |
---|
[1819] | 1615 | **/ |
---|
| 1616 | void Scantable::setRestFrequencies( vector<double> rf, const vector<std::string>& name, |
---|
| 1617 | const std::string& unit ) |
---|
| 1618 | |
---|
[847] | 1619 | { |
---|
[923] | 1620 | ///@todo lookup in line table to fill in name and formattedname |
---|
[847] | 1621 | Unit u(unit); |
---|
[1819] | 1622 | //Quantum<Double> urf(rf, u); |
---|
| 1623 | Quantum<Vector<Double> >urf(rf, u); |
---|
| 1624 | Vector<String> formattedname(0); |
---|
| 1625 | //cerr<<"Scantable::setRestFrequnecies="<<urf<<endl; |
---|
| 1626 | |
---|
| 1627 | //uInt id = moleculeTable_.addEntry(urf.getValue("Hz"), name, ""); |
---|
| 1628 | uInt id = moleculeTable_.addEntry(urf.getValue("Hz"), mathutil::toVectorString(name), formattedname); |
---|
[847] | 1629 | TableVector<uInt> tabvec(table_, "MOLECULE_ID"); |
---|
| 1630 | tabvec = id; |
---|
| 1631 | } |
---|
| 1632 | |
---|
[1819] | 1633 | /** |
---|
| 1634 | void asap::Scantable::setRestFrequencies( const std::string& name ) |
---|
[847] | 1635 | { |
---|
| 1636 | throw(AipsError("setRestFrequencies( const std::string& name ) NYI")); |
---|
| 1637 | ///@todo implement |
---|
| 1638 | } |
---|
[1819] | 1639 | **/ |
---|
[2012] | 1640 | |
---|
[1819] | 1641 | void Scantable::setRestFrequencies( const vector<std::string>& name ) |
---|
| 1642 | { |
---|
[2163] | 1643 | (void) name; // suppress unused warning |
---|
[1819] | 1644 | throw(AipsError("setRestFrequencies( const vector<std::string>& name ) NYI")); |
---|
| 1645 | ///@todo implement |
---|
| 1646 | } |
---|
[847] | 1647 | |
---|
[1360] | 1648 | std::vector< unsigned int > Scantable::rownumbers( ) const |
---|
[852] | 1649 | { |
---|
| 1650 | std::vector<unsigned int> stlout; |
---|
| 1651 | Vector<uInt> vec = table_.rowNumbers(); |
---|
| 1652 | vec.tovector(stlout); |
---|
| 1653 | return stlout; |
---|
| 1654 | } |
---|
| 1655 | |
---|
[865] | 1656 | |
---|
[1360] | 1657 | Matrix<Float> Scantable::getPolMatrix( uInt whichrow ) const |
---|
[896] | 1658 | { |
---|
| 1659 | ROTableRow row(table_); |
---|
| 1660 | const TableRecord& rec = row.get(whichrow); |
---|
| 1661 | Table t = |
---|
| 1662 | originalTable_( originalTable_.col("SCANNO") == Int(rec.asuInt("SCANNO")) |
---|
| 1663 | && originalTable_.col("BEAMNO") == Int(rec.asuInt("BEAMNO")) |
---|
| 1664 | && originalTable_.col("IFNO") == Int(rec.asuInt("IFNO")) |
---|
| 1665 | && originalTable_.col("CYCLENO") == Int(rec.asuInt("CYCLENO")) ); |
---|
| 1666 | ROArrayColumn<Float> speccol(t, "SPECTRA"); |
---|
| 1667 | return speccol.getColumn(); |
---|
| 1668 | } |
---|
[865] | 1669 | |
---|
[1360] | 1670 | std::vector< std::string > Scantable::columnNames( ) const |
---|
[902] | 1671 | { |
---|
| 1672 | Vector<String> vec = table_.tableDesc().columnNames(); |
---|
| 1673 | return mathutil::tovectorstring(vec); |
---|
| 1674 | } |
---|
[896] | 1675 | |
---|
[1360] | 1676 | MEpoch::Types Scantable::getTimeReference( ) const |
---|
[915] | 1677 | { |
---|
| 1678 | return MEpoch::castType(timeCol_.getMeasRef().getType()); |
---|
[972] | 1679 | } |
---|
[915] | 1680 | |
---|
[1360] | 1681 | void Scantable::addFit( const STFitEntry& fit, int row ) |
---|
[972] | 1682 | { |
---|
[1819] | 1683 | //cout << mfitidCol_(uInt(row)) << endl; |
---|
| 1684 | LogIO os( LogOrigin( "Scantable", "addFit()", WHERE ) ) ; |
---|
| 1685 | os << mfitidCol_(uInt(row)) << LogIO::POST ; |
---|
[972] | 1686 | uInt id = fitTable_.addEntry(fit, mfitidCol_(uInt(row))); |
---|
| 1687 | mfitidCol_.put(uInt(row), id); |
---|
| 1688 | } |
---|
[915] | 1689 | |
---|
[1360] | 1690 | void Scantable::shift(int npix) |
---|
| 1691 | { |
---|
| 1692 | Vector<uInt> fids(mfreqidCol_.getColumn()); |
---|
| 1693 | genSort( fids, Sort::Ascending, |
---|
| 1694 | Sort::QuickSort|Sort::NoDuplicates ); |
---|
| 1695 | for (uInt i=0; i<fids.nelements(); ++i) { |
---|
[1567] | 1696 | frequencies().shiftRefPix(npix, fids[i]); |
---|
[1360] | 1697 | } |
---|
| 1698 | } |
---|
[987] | 1699 | |
---|
[1819] | 1700 | String Scantable::getAntennaName() const |
---|
[1391] | 1701 | { |
---|
| 1702 | String out; |
---|
| 1703 | table_.keywordSet().get("AntennaName", out); |
---|
[1987] | 1704 | String::size_type pos1 = out.find("@") ; |
---|
| 1705 | String::size_type pos2 = out.find("//") ; |
---|
| 1706 | if ( pos2 != String::npos ) |
---|
[2036] | 1707 | out = out.substr(pos2+2,pos1-pos2-2) ; |
---|
[1987] | 1708 | else if ( pos1 != String::npos ) |
---|
| 1709 | out = out.substr(0,pos1) ; |
---|
[1391] | 1710 | return out; |
---|
[987] | 1711 | } |
---|
[1391] | 1712 | |
---|
[1730] | 1713 | int Scantable::checkScanInfo(const std::vector<int>& scanlist) const |
---|
[1391] | 1714 | { |
---|
| 1715 | String tbpath; |
---|
| 1716 | int ret = 0; |
---|
| 1717 | if ( table_.keywordSet().isDefined("GBT_GO") ) { |
---|
| 1718 | table_.keywordSet().get("GBT_GO", tbpath); |
---|
| 1719 | Table t(tbpath,Table::Old); |
---|
| 1720 | // check each scan if other scan of the pair exist |
---|
| 1721 | int nscan = scanlist.size(); |
---|
| 1722 | for (int i = 0; i < nscan; i++) { |
---|
| 1723 | Table subt = t( t.col("SCAN") == scanlist[i]+1 ); |
---|
| 1724 | if (subt.nrow()==0) { |
---|
[1819] | 1725 | //cerr <<"Scan "<<scanlist[i]<<" cannot be found in the scantable."<<endl; |
---|
| 1726 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1727 | os <<LogIO::WARN<<"Scan "<<scanlist[i]<<" cannot be found in the scantable."<<LogIO::POST; |
---|
[1391] | 1728 | ret = 1; |
---|
| 1729 | break; |
---|
| 1730 | } |
---|
| 1731 | ROTableRow row(subt); |
---|
| 1732 | const TableRecord& rec = row.get(0); |
---|
| 1733 | int scan1seqn = rec.asuInt("PROCSEQN"); |
---|
| 1734 | int laston1 = rec.asuInt("LASTON"); |
---|
| 1735 | if ( rec.asuInt("PROCSIZE")==2 ) { |
---|
| 1736 | if ( i < nscan-1 ) { |
---|
| 1737 | Table subt2 = t( t.col("SCAN") == scanlist[i+1]+1 ); |
---|
| 1738 | if ( subt2.nrow() == 0) { |
---|
[1819] | 1739 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1740 | |
---|
| 1741 | //cerr<<"Scan "<<scanlist[i+1]<<" cannot be found in the scantable."<<endl; |
---|
| 1742 | os<<LogIO::WARN<<"Scan "<<scanlist[i+1]<<" cannot be found in the scantable."<<LogIO::POST; |
---|
[1391] | 1743 | ret = 1; |
---|
| 1744 | break; |
---|
| 1745 | } |
---|
| 1746 | ROTableRow row2(subt2); |
---|
| 1747 | const TableRecord& rec2 = row2.get(0); |
---|
| 1748 | int scan2seqn = rec2.asuInt("PROCSEQN"); |
---|
| 1749 | int laston2 = rec2.asuInt("LASTON"); |
---|
| 1750 | if (scan1seqn == 1 && scan2seqn == 2) { |
---|
| 1751 | if (laston1 == laston2) { |
---|
[1819] | 1752 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1753 | //cerr<<"A valid scan pair ["<<scanlist[i]<<","<<scanlist[i+1]<<"]"<<endl; |
---|
| 1754 | os<<"A valid scan pair ["<<scanlist[i]<<","<<scanlist[i+1]<<"]"<<LogIO::POST; |
---|
[1391] | 1755 | i +=1; |
---|
| 1756 | } |
---|
| 1757 | else { |
---|
[1819] | 1758 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1759 | //cerr<<"Incorrect scan pair ["<<scanlist[i]<<","<<scanlist[i+1]<<"]"<<endl; |
---|
| 1760 | os<<LogIO::WARN<<"Incorrect scan pair ["<<scanlist[i]<<","<<scanlist[i+1]<<"]"<<LogIO::POST; |
---|
[1391] | 1761 | } |
---|
| 1762 | } |
---|
| 1763 | else if (scan1seqn==2 && scan2seqn == 1) { |
---|
| 1764 | if (laston1 == laston2) { |
---|
[1819] | 1765 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1766 | //cerr<<"["<<scanlist[i]<<","<<scanlist[i+1]<<"] is a valid scan pair but in incorrect order."<<endl; |
---|
| 1767 | os<<LogIO::WARN<<"["<<scanlist[i]<<","<<scanlist[i+1]<<"] is a valid scan pair but in incorrect order."<<LogIO::POST; |
---|
[1391] | 1768 | ret = 1; |
---|
| 1769 | break; |
---|
| 1770 | } |
---|
| 1771 | } |
---|
| 1772 | else { |
---|
[1819] | 1773 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1774 | //cerr<<"The other scan for "<<scanlist[i]<<" appears to be missing. Check the input scan numbers."<<endl; |
---|
| 1775 | os<<LogIO::WARN<<"The other scan for "<<scanlist[i]<<" appears to be missing. Check the input scan numbers."<<LogIO::POST; |
---|
[1391] | 1776 | ret = 1; |
---|
| 1777 | break; |
---|
| 1778 | } |
---|
| 1779 | } |
---|
| 1780 | } |
---|
| 1781 | else { |
---|
[1819] | 1782 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1783 | //cerr<<"The scan does not appear to be standard obsevation."<<endl; |
---|
| 1784 | os<<LogIO::WARN<<"The scan does not appear to be standard obsevation."<<LogIO::POST; |
---|
[1391] | 1785 | } |
---|
| 1786 | //if ( i >= nscan ) break; |
---|
| 1787 | } |
---|
| 1788 | } |
---|
| 1789 | else { |
---|
[1819] | 1790 | LogIO os( LogOrigin( "Scantable", "checkScanInfo()", WHERE ) ) ; |
---|
| 1791 | //cerr<<"No reference to GBT_GO table."<<endl; |
---|
| 1792 | os<<LogIO::WARN<<"No reference to GBT_GO table."<<LogIO::POST; |
---|
[1391] | 1793 | ret = 1; |
---|
| 1794 | } |
---|
| 1795 | return ret; |
---|
| 1796 | } |
---|
| 1797 | |
---|
[1730] | 1798 | std::vector<double> Scantable::getDirectionVector(int whichrow) const |
---|
[1391] | 1799 | { |
---|
| 1800 | Vector<Double> Dir = dirCol_(whichrow).getAngle("rad").getValue(); |
---|
| 1801 | std::vector<double> dir; |
---|
| 1802 | Dir.tovector(dir); |
---|
| 1803 | return dir; |
---|
| 1804 | } |
---|
| 1805 | |
---|
[1819] | 1806 | void asap::Scantable::reshapeSpectrum( int nmin, int nmax ) |
---|
| 1807 | throw( casa::AipsError ) |
---|
| 1808 | { |
---|
| 1809 | // assumed that all rows have same nChan |
---|
| 1810 | Vector<Float> arr = specCol_( 0 ) ; |
---|
| 1811 | int nChan = arr.nelements() ; |
---|
| 1812 | |
---|
| 1813 | // if nmin < 0 or nmax < 0, nothing to do |
---|
| 1814 | if ( nmin < 0 ) { |
---|
| 1815 | throw( casa::indexError<int>( nmin, "asap::Scantable::reshapeSpectrum: Invalid range. Negative index is specified." ) ) ; |
---|
| 1816 | } |
---|
| 1817 | if ( nmax < 0 ) { |
---|
| 1818 | throw( casa::indexError<int>( nmax, "asap::Scantable::reshapeSpectrum: Invalid range. Negative index is specified." ) ) ; |
---|
| 1819 | } |
---|
| 1820 | |
---|
| 1821 | // if nmin > nmax, exchange values |
---|
| 1822 | if ( nmin > nmax ) { |
---|
| 1823 | int tmp = nmax ; |
---|
| 1824 | nmax = nmin ; |
---|
| 1825 | nmin = tmp ; |
---|
| 1826 | LogIO os( LogOrigin( "Scantable", "reshapeSpectrum()", WHERE ) ) ; |
---|
| 1827 | os << "Swap values. Applied range is [" |
---|
| 1828 | << nmin << ", " << nmax << "]" << LogIO::POST ; |
---|
| 1829 | } |
---|
| 1830 | |
---|
| 1831 | // if nmin exceeds nChan, nothing to do |
---|
| 1832 | if ( nmin >= nChan ) { |
---|
| 1833 | throw( casa::indexError<int>( nmin, "asap::Scantable::reshapeSpectrum: Invalid range. Specified minimum exceeds nChan." ) ) ; |
---|
| 1834 | } |
---|
| 1835 | |
---|
| 1836 | // if nmax exceeds nChan, reset nmax to nChan |
---|
[2672] | 1837 | if ( nmax >= nChan-1 ) { |
---|
[1819] | 1838 | if ( nmin == 0 ) { |
---|
| 1839 | // nothing to do |
---|
| 1840 | LogIO os( LogOrigin( "Scantable", "reshapeSpectrum()", WHERE ) ) ; |
---|
| 1841 | os << "Whole range is selected. Nothing to do." << LogIO::POST ; |
---|
| 1842 | return ; |
---|
| 1843 | } |
---|
| 1844 | else { |
---|
| 1845 | LogIO os( LogOrigin( "Scantable", "reshapeSpectrum()", WHERE ) ) ; |
---|
| 1846 | os << "Specified maximum exceeds nChan. Applied range is [" |
---|
| 1847 | << nmin << ", " << nChan-1 << "]." << LogIO::POST ; |
---|
| 1848 | nmax = nChan - 1 ; |
---|
| 1849 | } |
---|
| 1850 | } |
---|
| 1851 | |
---|
| 1852 | // reshape specCol_ and flagCol_ |
---|
| 1853 | for ( int irow = 0 ; irow < nrow() ; irow++ ) { |
---|
| 1854 | reshapeSpectrum( nmin, nmax, irow ) ; |
---|
| 1855 | } |
---|
| 1856 | |
---|
| 1857 | // update FREQUENCIES subtable |
---|
| 1858 | Double refpix ; |
---|
| 1859 | Double refval ; |
---|
| 1860 | Double increment ; |
---|
[2346] | 1861 | int freqnrow = freqTable_.table().nrow() ; |
---|
[1819] | 1862 | Vector<uInt> oldId( freqnrow ) ; |
---|
| 1863 | Vector<uInt> newId( freqnrow ) ; |
---|
| 1864 | for ( int irow = 0 ; irow < freqnrow ; irow++ ) { |
---|
[2346] | 1865 | freqTable_.getEntry( refpix, refval, increment, irow ) ; |
---|
[1819] | 1866 | /*** |
---|
| 1867 | * need to shift refpix to nmin |
---|
| 1868 | * note that channel nmin in old index will be channel 0 in new one |
---|
| 1869 | ***/ |
---|
| 1870 | refval = refval - ( refpix - nmin ) * increment ; |
---|
| 1871 | refpix = 0 ; |
---|
[2346] | 1872 | freqTable_.setEntry( refpix, refval, increment, irow ) ; |
---|
[1819] | 1873 | } |
---|
| 1874 | |
---|
| 1875 | // update nchan |
---|
| 1876 | int newsize = nmax - nmin + 1 ; |
---|
| 1877 | table_.rwKeywordSet().define( "nChan", newsize ) ; |
---|
| 1878 | |
---|
| 1879 | // update bandwidth |
---|
| 1880 | // assumed all spectra in the scantable have same bandwidth |
---|
| 1881 | table_.rwKeywordSet().define( "Bandwidth", increment * newsize ) ; |
---|
| 1882 | |
---|
| 1883 | return ; |
---|
| 1884 | } |
---|
| 1885 | |
---|
| 1886 | void asap::Scantable::reshapeSpectrum( int nmin, int nmax, int irow ) |
---|
| 1887 | { |
---|
| 1888 | // reshape specCol_ and flagCol_ |
---|
| 1889 | Vector<Float> oldspec = specCol_( irow ) ; |
---|
| 1890 | Vector<uChar> oldflag = flagsCol_( irow ) ; |
---|
[2475] | 1891 | Vector<Float> oldtsys = tsysCol_( irow ) ; |
---|
[1819] | 1892 | uInt newsize = nmax - nmin + 1 ; |
---|
[2475] | 1893 | Slice slice( nmin, newsize, 1 ) ; |
---|
| 1894 | specCol_.put( irow, oldspec( slice ) ) ; |
---|
| 1895 | flagsCol_.put( irow, oldflag( slice ) ) ; |
---|
| 1896 | if ( oldspec.size() == oldtsys.size() ) |
---|
| 1897 | tsysCol_.put( irow, oldtsys( slice ) ) ; |
---|
[1819] | 1898 | |
---|
| 1899 | return ; |
---|
| 1900 | } |
---|
| 1901 | |
---|
[2435] | 1902 | void asap::Scantable::regridSpecChannel( double dnu, int nChan ) |
---|
| 1903 | { |
---|
| 1904 | LogIO os( LogOrigin( "Scantable", "regridChannel()", WHERE ) ) ; |
---|
| 1905 | os << "Regrid abcissa with spectral resoultion " << dnu << " " << freqTable_.getUnitString() << " with channel number " << ((nChan>0)? String(nChan) : "covering band width")<< LogIO::POST ; |
---|
| 1906 | int freqnrow = freqTable_.table().nrow() ; |
---|
| 1907 | Vector<bool> firstTime( freqnrow, true ) ; |
---|
| 1908 | double oldincr, factor; |
---|
| 1909 | uInt currId; |
---|
| 1910 | Double refpix ; |
---|
| 1911 | Double refval ; |
---|
| 1912 | Double increment ; |
---|
| 1913 | for ( int irow = 0 ; irow < nrow() ; irow++ ) { |
---|
| 1914 | currId = mfreqidCol_(irow); |
---|
| 1915 | vector<double> abcissa = getAbcissa( irow ) ; |
---|
| 1916 | if (nChan < 0) { |
---|
| 1917 | int oldsize = abcissa.size() ; |
---|
| 1918 | double bw = (abcissa[oldsize-1]-abcissa[0]) + \ |
---|
| 1919 | 0.5 * (abcissa[1]-abcissa[0] + abcissa[oldsize-1]-abcissa[oldsize-2]) ; |
---|
| 1920 | nChan = int( ceil( abs(bw/dnu) ) ) ; |
---|
| 1921 | } |
---|
| 1922 | // actual regridding |
---|
| 1923 | regridChannel( nChan, dnu, irow ) ; |
---|
[2433] | 1924 | |
---|
[2435] | 1925 | // update FREQUENCIES subtable |
---|
| 1926 | if (firstTime[currId]) { |
---|
| 1927 | oldincr = abcissa[1]-abcissa[0] ; |
---|
| 1928 | factor = dnu/oldincr ; |
---|
| 1929 | firstTime[currId] = false ; |
---|
| 1930 | freqTable_.getEntry( refpix, refval, increment, currId ) ; |
---|
[2463] | 1931 | |
---|
[2437] | 1932 | //refval = refval - ( refpix + 0.5 * (1 - factor) ) * increment ; |
---|
[2463] | 1933 | if (factor > 0 ) { |
---|
[2462] | 1934 | refpix = (refpix + 0.5)/factor - 0.5; |
---|
| 1935 | } else { |
---|
[2463] | 1936 | refpix = (abcissa.size() - 0.5 - refpix)/abs(factor) - 0.5; |
---|
[2462] | 1937 | } |
---|
[2435] | 1938 | freqTable_.setEntry( refpix, refval, increment*factor, currId ) ; |
---|
[2463] | 1939 | //os << "ID" << currId << ": channel width (Orig) = " << oldincr << " [" << freqTable_.getUnitString() << "], scale factor = " << factor << LogIO::POST ; |
---|
| 1940 | //os << " frequency increment (Orig) = " << increment << "-> (New) " << increment*factor << LogIO::POST ; |
---|
[2435] | 1941 | } |
---|
| 1942 | } |
---|
| 1943 | } |
---|
| 1944 | |
---|
[1819] | 1945 | void asap::Scantable::regridChannel( int nChan, double dnu ) |
---|
| 1946 | { |
---|
| 1947 | LogIO os( LogOrigin( "Scantable", "regridChannel()", WHERE ) ) ; |
---|
| 1948 | os << "Regrid abcissa with channel number " << nChan << " and spectral resoultion " << dnu << "Hz." << LogIO::POST ; |
---|
| 1949 | // assumed that all rows have same nChan |
---|
| 1950 | Vector<Float> arr = specCol_( 0 ) ; |
---|
| 1951 | int oldsize = arr.nelements() ; |
---|
| 1952 | |
---|
| 1953 | // if oldsize == nChan, nothing to do |
---|
| 1954 | if ( oldsize == nChan ) { |
---|
| 1955 | os << "Specified channel number is same as current one. Nothing to do." << LogIO::POST ; |
---|
| 1956 | return ; |
---|
| 1957 | } |
---|
| 1958 | |
---|
| 1959 | // if oldChan < nChan, unphysical operation |
---|
| 1960 | if ( oldsize < nChan ) { |
---|
| 1961 | os << "Unphysical operation. Nothing to do." << LogIO::POST ; |
---|
| 1962 | return ; |
---|
| 1963 | } |
---|
| 1964 | |
---|
[2433] | 1965 | // change channel number for specCol_, flagCol_, and tsysCol_ (if necessary) |
---|
[1819] | 1966 | vector<string> coordinfo = getCoordInfo() ; |
---|
| 1967 | string oldinfo = coordinfo[0] ; |
---|
| 1968 | coordinfo[0] = "Hz" ; |
---|
| 1969 | setCoordInfo( coordinfo ) ; |
---|
| 1970 | for ( int irow = 0 ; irow < nrow() ; irow++ ) { |
---|
| 1971 | regridChannel( nChan, dnu, irow ) ; |
---|
| 1972 | } |
---|
| 1973 | coordinfo[0] = oldinfo ; |
---|
| 1974 | setCoordInfo( coordinfo ) ; |
---|
| 1975 | |
---|
| 1976 | |
---|
| 1977 | // NOTE: this method does not update metadata such as |
---|
| 1978 | // FREQUENCIES subtable, nChan, Bandwidth, etc. |
---|
| 1979 | |
---|
| 1980 | return ; |
---|
| 1981 | } |
---|
| 1982 | |
---|
| 1983 | void asap::Scantable::regridChannel( int nChan, double dnu, int irow ) |
---|
| 1984 | { |
---|
| 1985 | // logging |
---|
| 1986 | //ofstream ofs( "average.log", std::ios::out | std::ios::app ) ; |
---|
| 1987 | //ofs << "IFNO = " << getIF( irow ) << " irow = " << irow << endl ; |
---|
| 1988 | |
---|
| 1989 | Vector<Float> oldspec = specCol_( irow ) ; |
---|
| 1990 | Vector<uChar> oldflag = flagsCol_( irow ) ; |
---|
[2431] | 1991 | Vector<Float> oldtsys = tsysCol_( irow ) ; |
---|
[1819] | 1992 | Vector<Float> newspec( nChan, 0 ) ; |
---|
[2431] | 1993 | Vector<uChar> newflag( nChan, true ) ; |
---|
| 1994 | Vector<Float> newtsys ; |
---|
| 1995 | bool regridTsys = false ; |
---|
| 1996 | if (oldtsys.size() == oldspec.size()) { |
---|
| 1997 | regridTsys = true ; |
---|
| 1998 | newtsys.resize(nChan,false) ; |
---|
| 1999 | newtsys = 0 ; |
---|
| 2000 | } |
---|
[1819] | 2001 | |
---|
| 2002 | // regrid |
---|
| 2003 | vector<double> abcissa = getAbcissa( irow ) ; |
---|
| 2004 | int oldsize = abcissa.size() ; |
---|
| 2005 | double olddnu = abcissa[1] - abcissa[0] ; |
---|
[2462] | 2006 | //int ichan = 0 ; |
---|
[1819] | 2007 | double wsum = 0.0 ; |
---|
[2433] | 2008 | Vector<double> zi( nChan+1 ) ; |
---|
| 2009 | Vector<double> yi( oldsize + 1 ) ; |
---|
[1819] | 2010 | yi[0] = abcissa[0] - 0.5 * olddnu ; |
---|
[2431] | 2011 | for ( int ii = 1 ; ii < oldsize ; ii++ ) |
---|
[2433] | 2012 | yi[ii] = 0.5* (abcissa[ii-1] + abcissa[ii]) ; |
---|
| 2013 | yi[oldsize] = abcissa[oldsize-1] \ |
---|
| 2014 | + 0.5 * (abcissa[oldsize-1] - abcissa[oldsize-2]) ; |
---|
[2462] | 2015 | //zi[0] = abcissa[0] - 0.5 * olddnu ; |
---|
| 2016 | zi[0] = ((olddnu*dnu > 0) ? yi[0] : yi[oldsize]) ; |
---|
| 2017 | for ( int ii = 1 ; ii < nChan ; ii++ ) |
---|
| 2018 | zi[ii] = zi[0] + dnu * ii ; |
---|
| 2019 | zi[nChan] = zi[nChan-1] + dnu ; |
---|
| 2020 | // Access zi and yi in ascending order |
---|
| 2021 | int izs = ((dnu > 0) ? 0 : nChan ) ; |
---|
| 2022 | int ize = ((dnu > 0) ? nChan : 0 ) ; |
---|
| 2023 | int izincr = ((dnu > 0) ? 1 : -1 ) ; |
---|
| 2024 | int ichan = ((olddnu > 0) ? 0 : oldsize ) ; |
---|
| 2025 | int iye = ((olddnu > 0) ? oldsize : 0 ) ; |
---|
| 2026 | int iyincr = ((olddnu > 0) ? 1 : -1 ) ; |
---|
| 2027 | //for ( int ii = izs ; ii != ize ; ii+=izincr ){ |
---|
| 2028 | int ii = izs ; |
---|
| 2029 | while (ii != ize) { |
---|
| 2030 | // always zl < zr |
---|
| 2031 | double zl = zi[ii] ; |
---|
| 2032 | double zr = zi[ii+izincr] ; |
---|
| 2033 | // Need to access smaller index for the new spec, flag, and tsys. |
---|
| 2034 | // Values between zi[k] and zi[k+1] should be stored in newspec[k], etc. |
---|
| 2035 | int i = min(ii, ii+izincr) ; |
---|
| 2036 | //for ( int jj = ichan ; jj != iye ; jj+=iyincr ) { |
---|
| 2037 | int jj = ichan ; |
---|
| 2038 | while (jj != iye) { |
---|
| 2039 | // always yl < yr |
---|
| 2040 | double yl = yi[jj] ; |
---|
| 2041 | double yr = yi[jj+iyincr] ; |
---|
| 2042 | // Need to access smaller index for the original spec, flag, and tsys. |
---|
| 2043 | // Values between yi[k] and yi[k+1] are stored in oldspec[k], etc. |
---|
| 2044 | int j = min(jj, jj+iyincr) ; |
---|
| 2045 | if ( yr <= zl ) { |
---|
| 2046 | jj += iyincr ; |
---|
| 2047 | continue ; |
---|
[1819] | 2048 | } |
---|
[2462] | 2049 | else if ( yl <= zl ) { |
---|
| 2050 | if ( yr < zr ) { |
---|
| 2051 | if (!oldflag[j]) { |
---|
| 2052 | newspec[i] += oldspec[j] * ( yr - zl ) ; |
---|
| 2053 | if (regridTsys) newtsys[i] += oldtsys[j] * ( yr - zl ) ; |
---|
| 2054 | wsum += ( yr - zl ) ; |
---|
| 2055 | } |
---|
| 2056 | newflag[i] = newflag[i] && oldflag[j] ; |
---|
| 2057 | } |
---|
| 2058 | else { |
---|
| 2059 | if (!oldflag[j]) { |
---|
| 2060 | newspec[i] += oldspec[j] * abs(dnu) ; |
---|
| 2061 | if (regridTsys) newtsys[i] += oldtsys[j] * abs(dnu) ; |
---|
| 2062 | wsum += abs(dnu) ; |
---|
| 2063 | } |
---|
| 2064 | newflag[i] = newflag[i] && oldflag[j] ; |
---|
| 2065 | ichan = jj ; |
---|
| 2066 | break ; |
---|
| 2067 | } |
---|
[2431] | 2068 | } |
---|
[2462] | 2069 | else if ( yl < zr ) { |
---|
| 2070 | if ( yr <= zr ) { |
---|
| 2071 | if (!oldflag[j]) { |
---|
| 2072 | newspec[i] += oldspec[j] * ( yr - yl ) ; |
---|
| 2073 | if (regridTsys) newtsys[i] += oldtsys[j] * ( yr - yl ) ; |
---|
| 2074 | wsum += ( yr - yl ) ; |
---|
| 2075 | } |
---|
| 2076 | newflag[i] = newflag[i] && oldflag[j] ; |
---|
| 2077 | } |
---|
| 2078 | else { |
---|
| 2079 | if (!oldflag[j]) { |
---|
| 2080 | newspec[i] += oldspec[j] * ( zr - yl ) ; |
---|
| 2081 | if (regridTsys) newtsys[i] += oldtsys[j] * ( zr - yl ) ; |
---|
| 2082 | wsum += ( zr - yl ) ; |
---|
| 2083 | } |
---|
| 2084 | newflag[i] = newflag[i] && oldflag[j] ; |
---|
| 2085 | ichan = jj ; |
---|
| 2086 | break ; |
---|
| 2087 | } |
---|
[1819] | 2088 | } |
---|
[2462] | 2089 | else { |
---|
| 2090 | ichan = jj - iyincr ; |
---|
| 2091 | break ; |
---|
[2431] | 2092 | } |
---|
[2462] | 2093 | jj += iyincr ; |
---|
[1819] | 2094 | } |
---|
[2462] | 2095 | if ( wsum != 0.0 ) { |
---|
| 2096 | newspec[i] /= wsum ; |
---|
| 2097 | if (regridTsys) newtsys[i] /= wsum ; |
---|
| 2098 | } |
---|
| 2099 | wsum = 0.0 ; |
---|
| 2100 | ii += izincr ; |
---|
[1819] | 2101 | } |
---|
[2462] | 2102 | // if ( dnu > 0.0 ) { |
---|
| 2103 | // for ( int ii = 0 ; ii < nChan ; ii++ ) { |
---|
| 2104 | // double zl = zi[ii] ; |
---|
| 2105 | // double zr = zi[ii+1] ; |
---|
| 2106 | // for ( int j = ichan ; j < oldsize ; j++ ) { |
---|
| 2107 | // double yl = yi[j] ; |
---|
| 2108 | // double yr = yi[j+1] ; |
---|
| 2109 | // if ( yl <= zl ) { |
---|
| 2110 | // if ( yr <= zl ) { |
---|
| 2111 | // continue ; |
---|
| 2112 | // } |
---|
| 2113 | // else if ( yr <= zr ) { |
---|
| 2114 | // if (!oldflag[j]) { |
---|
| 2115 | // newspec[ii] += oldspec[j] * ( yr - zl ) ; |
---|
| 2116 | // if (regridTsys) newtsys[ii] += oldtsys[j] * ( yr - zl ) ; |
---|
| 2117 | // wsum += ( yr - zl ) ; |
---|
| 2118 | // } |
---|
| 2119 | // newflag[ii] = newflag[ii] && oldflag[j] ; |
---|
| 2120 | // } |
---|
| 2121 | // else { |
---|
| 2122 | // if (!oldflag[j]) { |
---|
| 2123 | // newspec[ii] += oldspec[j] * dnu ; |
---|
| 2124 | // if (regridTsys) newtsys[ii] += oldtsys[j] * dnu ; |
---|
| 2125 | // wsum += dnu ; |
---|
| 2126 | // } |
---|
| 2127 | // newflag[ii] = newflag[ii] && oldflag[j] ; |
---|
| 2128 | // ichan = j ; |
---|
| 2129 | // break ; |
---|
| 2130 | // } |
---|
| 2131 | // } |
---|
| 2132 | // else if ( yl < zr ) { |
---|
| 2133 | // if ( yr <= zr ) { |
---|
| 2134 | // if (!oldflag[j]) { |
---|
| 2135 | // newspec[ii] += oldspec[j] * ( yr - yl ) ; |
---|
| 2136 | // if (regridTsys) newtsys[ii] += oldtsys[j] * ( yr - yl ) ; |
---|
| 2137 | // wsum += ( yr - yl ) ; |
---|
| 2138 | // } |
---|
| 2139 | // newflag[ii] = newflag[ii] && oldflag[j] ; |
---|
| 2140 | // } |
---|
| 2141 | // else { |
---|
| 2142 | // if (!oldflag[j]) { |
---|
| 2143 | // newspec[ii] += oldspec[j] * ( zr - yl ) ; |
---|
| 2144 | // if (regridTsys) newtsys[ii] += oldtsys[j] * ( zr - yl ) ; |
---|
| 2145 | // wsum += ( zr - yl ) ; |
---|
| 2146 | // } |
---|
| 2147 | // newflag[ii] = newflag[ii] && oldflag[j] ; |
---|
| 2148 | // ichan = j ; |
---|
| 2149 | // break ; |
---|
| 2150 | // } |
---|
| 2151 | // } |
---|
| 2152 | // else { |
---|
| 2153 | // ichan = j - 1 ; |
---|
| 2154 | // break ; |
---|
| 2155 | // } |
---|
| 2156 | // } |
---|
| 2157 | // if ( wsum != 0.0 ) { |
---|
| 2158 | // newspec[ii] /= wsum ; |
---|
| 2159 | // if (regridTsys) newtsys[ii] /= wsum ; |
---|
| 2160 | // } |
---|
| 2161 | // wsum = 0.0 ; |
---|
| 2162 | // } |
---|
[1819] | 2163 | // } |
---|
[2462] | 2164 | // else if ( dnu < 0.0 ) { |
---|
| 2165 | // for ( int ii = 0 ; ii < nChan ; ii++ ) { |
---|
| 2166 | // double zl = zi[ii] ; |
---|
| 2167 | // double zr = zi[ii+1] ; |
---|
| 2168 | // for ( int j = ichan ; j < oldsize ; j++ ) { |
---|
| 2169 | // double yl = yi[j] ; |
---|
| 2170 | // double yr = yi[j+1] ; |
---|
| 2171 | // if ( yl >= zl ) { |
---|
| 2172 | // if ( yr >= zl ) { |
---|
| 2173 | // continue ; |
---|
| 2174 | // } |
---|
| 2175 | // else if ( yr >= zr ) { |
---|
| 2176 | // if (!oldflag[j]) { |
---|
| 2177 | // newspec[ii] += oldspec[j] * abs( yr - zl ) ; |
---|
| 2178 | // if (regridTsys) newtsys[ii] += oldtsys[j] * abs( yr - zl ) ; |
---|
| 2179 | // wsum += abs( yr - zl ) ; |
---|
| 2180 | // } |
---|
| 2181 | // newflag[ii] = newflag[ii] && oldflag[j] ; |
---|
| 2182 | // } |
---|
| 2183 | // else { |
---|
| 2184 | // if (!oldflag[j]) { |
---|
| 2185 | // newspec[ii] += oldspec[j] * abs( dnu ) ; |
---|
| 2186 | // if (regridTsys) newtsys[ii] += oldtsys[j] * abs( dnu ) ; |
---|
| 2187 | // wsum += abs( dnu ) ; |
---|
| 2188 | // } |
---|
| 2189 | // newflag[ii] = newflag[ii] && oldflag[j] ; |
---|
| 2190 | // ichan = j ; |
---|
| 2191 | // break ; |
---|
| 2192 | // } |
---|
| 2193 | // } |
---|
| 2194 | // else if ( yl > zr ) { |
---|
| 2195 | // if ( yr >= zr ) { |
---|
| 2196 | // if (!oldflag[j]) { |
---|
| 2197 | // newspec[ii] += oldspec[j] * abs( yr - yl ) ; |
---|
| 2198 | // if (regridTsys) newtsys[ii] += oldtsys[j] * abs( yr - yl ) ; |
---|
| 2199 | // wsum += abs( yr - yl ) ; |
---|
| 2200 | // } |
---|
| 2201 | // newflag[ii] = newflag[ii] && oldflag[j] ; |
---|
| 2202 | // } |
---|
| 2203 | // else { |
---|
| 2204 | // if (!oldflag[j]) { |
---|
| 2205 | // newspec[ii] += oldspec[j] * abs( zr - yl ) ; |
---|
| 2206 | // if (regridTsys) newtsys[ii] += oldtsys[j] * abs( zr - yl ) ; |
---|
| 2207 | // wsum += abs( zr - yl ) ; |
---|
| 2208 | // } |
---|
| 2209 | // newflag[ii] = newflag[ii] && oldflag[j] ; |
---|
| 2210 | // ichan = j ; |
---|
| 2211 | // break ; |
---|
| 2212 | // } |
---|
| 2213 | // } |
---|
| 2214 | // else { |
---|
| 2215 | // ichan = j - 1 ; |
---|
| 2216 | // break ; |
---|
| 2217 | // } |
---|
| 2218 | // } |
---|
| 2219 | // if ( wsum != 0.0 ) { |
---|
| 2220 | // newspec[ii] /= wsum ; |
---|
| 2221 | // if (regridTsys) newtsys[ii] /= wsum ; |
---|
| 2222 | // } |
---|
| 2223 | // wsum = 0.0 ; |
---|
[1819] | 2224 | // } |
---|
| 2225 | // } |
---|
[2462] | 2226 | // // //ofs << "olddnu = " << olddnu << ", dnu = " << dnu << endl ; |
---|
| 2227 | // // pile += dnu ; |
---|
| 2228 | // // wedge = olddnu * ( refChan + 1 ) ; |
---|
| 2229 | // // while ( wedge < pile ) { |
---|
| 2230 | // // newspec[0] += olddnu * oldspec[refChan] ; |
---|
| 2231 | // // newflag[0] = newflag[0] || oldflag[refChan] ; |
---|
| 2232 | // // //ofs << "channel " << refChan << " is included in new channel 0" << endl ; |
---|
| 2233 | // // refChan++ ; |
---|
| 2234 | // // wedge += olddnu ; |
---|
| 2235 | // // wsum += olddnu ; |
---|
| 2236 | // // //ofs << "newspec[0] = " << newspec[0] << " wsum = " << wsum << endl ; |
---|
| 2237 | // // } |
---|
| 2238 | // // frac = ( wedge - pile ) / olddnu ; |
---|
| 2239 | // // wsum += ( 1.0 - frac ) * olddnu ; |
---|
| 2240 | // // newspec[0] += ( 1.0 - frac ) * olddnu * oldspec[refChan] ; |
---|
| 2241 | // // newflag[0] = newflag[0] || oldflag[refChan] ; |
---|
| 2242 | // // //ofs << "channel " << refChan << " is partly included in new channel 0" << " with fraction of " << ( 1.0 - frac ) << endl ; |
---|
| 2243 | // // //ofs << "newspec[0] = " << newspec[0] << " wsum = " << wsum << endl ; |
---|
| 2244 | // // newspec[0] /= wsum ; |
---|
| 2245 | // // //ofs << "newspec[0] = " << newspec[0] << endl ; |
---|
| 2246 | // // //ofs << "wedge = " << wedge << ", pile = " << pile << endl ; |
---|
[1819] | 2247 | |
---|
[2462] | 2248 | // // /*** |
---|
| 2249 | // // * ichan = 1 - nChan-2 |
---|
| 2250 | // // ***/ |
---|
| 2251 | // // for ( int ichan = 1 ; ichan < nChan - 1 ; ichan++ ) { |
---|
| 2252 | // // pile += dnu ; |
---|
| 2253 | // // newspec[ichan] += frac * olddnu * oldspec[refChan] ; |
---|
| 2254 | // // newflag[ichan] = newflag[ichan] || oldflag[refChan] ; |
---|
| 2255 | // // //ofs << "channel " << refChan << " is partly included in new channel " << ichan << " with fraction of " << frac << endl ; |
---|
| 2256 | // // refChan++ ; |
---|
| 2257 | // // wedge += olddnu ; |
---|
| 2258 | // // wsum = frac * olddnu ; |
---|
| 2259 | // // //ofs << "newspec[" << ichan << "] = " << newspec[ichan] << " wsum = " << wsum << endl ; |
---|
| 2260 | // // while ( wedge < pile ) { |
---|
| 2261 | // // newspec[ichan] += olddnu * oldspec[refChan] ; |
---|
| 2262 | // // newflag[ichan] = newflag[ichan] || oldflag[refChan] ; |
---|
| 2263 | // // //ofs << "channel " << refChan << " is included in new channel " << ichan << endl ; |
---|
| 2264 | // // refChan++ ; |
---|
| 2265 | // // wedge += olddnu ; |
---|
| 2266 | // // wsum += olddnu ; |
---|
| 2267 | // // //ofs << "newspec[" << ichan << "] = " << newspec[ichan] << " wsum = " << wsum << endl ; |
---|
| 2268 | // // } |
---|
| 2269 | // // frac = ( wedge - pile ) / olddnu ; |
---|
| 2270 | // // wsum += ( 1.0 - frac ) * olddnu ; |
---|
| 2271 | // // newspec[ichan] += ( 1.0 - frac ) * olddnu * oldspec[refChan] ; |
---|
| 2272 | // // newflag[ichan] = newflag[ichan] || oldflag[refChan] ; |
---|
| 2273 | // // //ofs << "channel " << refChan << " is partly included in new channel " << ichan << " with fraction of " << ( 1.0 - frac ) << endl ; |
---|
| 2274 | // // //ofs << "wedge = " << wedge << ", pile = " << pile << endl ; |
---|
| 2275 | // // //ofs << "newspec[" << ichan << "] = " << newspec[ichan] << " wsum = " << wsum << endl ; |
---|
| 2276 | // // newspec[ichan] /= wsum ; |
---|
| 2277 | // // //ofs << "newspec[" << ichan << "] = " << newspec[ichan] << endl ; |
---|
| 2278 | // // } |
---|
[1819] | 2279 | |
---|
[2462] | 2280 | // // /*** |
---|
| 2281 | // // * ichan = nChan-1 |
---|
| 2282 | // // ***/ |
---|
| 2283 | // // // NOTE: Assumed that all spectra have the same bandwidth |
---|
| 2284 | // // pile += dnu ; |
---|
| 2285 | // // newspec[nChan-1] += frac * olddnu * oldspec[refChan] ; |
---|
| 2286 | // // newflag[nChan-1] = newflag[nChan-1] || oldflag[refChan] ; |
---|
| 2287 | // // //ofs << "channel " << refChan << " is partly included in new channel " << nChan-1 << " with fraction of " << frac << endl ; |
---|
| 2288 | // // refChan++ ; |
---|
| 2289 | // // wedge += olddnu ; |
---|
| 2290 | // // wsum = frac * olddnu ; |
---|
| 2291 | // // //ofs << "newspec[" << nChan - 1 << "] = " << newspec[nChan-1] << " wsum = " << wsum << endl ; |
---|
| 2292 | // // for ( int jchan = refChan ; jchan < oldsize ; jchan++ ) { |
---|
| 2293 | // // newspec[nChan-1] += olddnu * oldspec[jchan] ; |
---|
| 2294 | // // newflag[nChan-1] = newflag[nChan-1] || oldflag[jchan] ; |
---|
| 2295 | // // wsum += olddnu ; |
---|
| 2296 | // // //ofs << "channel " << jchan << " is included in new channel " << nChan-1 << " with fraction of " << frac << endl ; |
---|
| 2297 | // // //ofs << "newspec[" << nChan - 1 << "] = " << newspec[nChan-1] << " wsum = " << wsum << endl ; |
---|
| 2298 | // // } |
---|
| 2299 | // // //ofs << "wedge = " << wedge << ", pile = " << pile << endl ; |
---|
| 2300 | // // //ofs << "newspec[" << nChan - 1 << "] = " << newspec[nChan-1] << " wsum = " << wsum << endl ; |
---|
| 2301 | // // newspec[nChan-1] /= wsum ; |
---|
| 2302 | // // //ofs << "newspec[" << nChan - 1 << "] = " << newspec[nChan-1] << endl ; |
---|
[1819] | 2303 | |
---|
[2462] | 2304 | // // // ofs.close() ; |
---|
| 2305 | |
---|
[2032] | 2306 | specCol_.put( irow, newspec ) ; |
---|
| 2307 | flagsCol_.put( irow, newflag ) ; |
---|
[2431] | 2308 | if (regridTsys) tsysCol_.put( irow, newtsys ); |
---|
[1819] | 2309 | |
---|
| 2310 | return ; |
---|
| 2311 | } |
---|
| 2312 | |
---|
[2595] | 2313 | void Scantable::regridChannel( int nChan, double dnu, double fmin, int irow ) |
---|
| 2314 | { |
---|
| 2315 | Vector<Float> oldspec = specCol_( irow ) ; |
---|
| 2316 | Vector<uChar> oldflag = flagsCol_( irow ) ; |
---|
| 2317 | Vector<Float> oldtsys = tsysCol_( irow ) ; |
---|
| 2318 | Vector<Float> newspec( nChan, 0 ) ; |
---|
| 2319 | Vector<uChar> newflag( nChan, true ) ; |
---|
| 2320 | Vector<Float> newtsys ; |
---|
| 2321 | bool regridTsys = false ; |
---|
| 2322 | if (oldtsys.size() == oldspec.size()) { |
---|
| 2323 | regridTsys = true ; |
---|
| 2324 | newtsys.resize(nChan,false) ; |
---|
| 2325 | newtsys = 0 ; |
---|
| 2326 | } |
---|
| 2327 | |
---|
| 2328 | // regrid |
---|
| 2329 | vector<double> abcissa = getAbcissa( irow ) ; |
---|
| 2330 | int oldsize = abcissa.size() ; |
---|
| 2331 | double olddnu = abcissa[1] - abcissa[0] ; |
---|
| 2332 | //int ichan = 0 ; |
---|
| 2333 | double wsum = 0.0 ; |
---|
| 2334 | Vector<double> zi( nChan+1 ) ; |
---|
| 2335 | Vector<double> yi( oldsize + 1 ) ; |
---|
| 2336 | Block<uInt> count( nChan, 0 ) ; |
---|
| 2337 | yi[0] = abcissa[0] - 0.5 * olddnu ; |
---|
| 2338 | for ( int ii = 1 ; ii < oldsize ; ii++ ) |
---|
| 2339 | yi[ii] = 0.5* (abcissa[ii-1] + abcissa[ii]) ; |
---|
| 2340 | yi[oldsize] = abcissa[oldsize-1] \ |
---|
| 2341 | + 0.5 * (abcissa[oldsize-1] - abcissa[oldsize-2]) ; |
---|
| 2342 | // cout << "olddnu=" << olddnu << ", dnu=" << dnu << " (diff=" << olddnu-dnu << ")" << endl ; |
---|
| 2343 | // cout << "yi[0]=" << yi[0] << ", fmin=" << fmin << " (diff=" << yi[0]-fmin << ")" << endl ; |
---|
| 2344 | // cout << "oldsize=" << oldsize << ", nChan=" << nChan << endl ; |
---|
| 2345 | |
---|
| 2346 | // do not regrid if input parameters are almost same as current |
---|
| 2347 | // spectral setup |
---|
| 2348 | double dnuDiff = abs( ( dnu - olddnu ) / olddnu ) ; |
---|
| 2349 | double oldfmin = min( yi[0], yi[oldsize] ) ; |
---|
| 2350 | double fminDiff = abs( ( fmin - oldfmin ) / oldfmin ) ; |
---|
| 2351 | double nChanDiff = nChan - oldsize ; |
---|
| 2352 | double eps = 1.0e-8 ; |
---|
| 2353 | if ( nChanDiff == 0 && dnuDiff < eps && fminDiff < eps ) |
---|
| 2354 | return ; |
---|
| 2355 | |
---|
| 2356 | //zi[0] = abcissa[0] - 0.5 * olddnu ; |
---|
| 2357 | //zi[0] = ((olddnu*dnu > 0) ? yi[0] : yi[oldsize]) ; |
---|
| 2358 | if ( dnu > 0 ) |
---|
| 2359 | zi[0] = fmin - 0.5 * dnu ; |
---|
| 2360 | else |
---|
| 2361 | zi[0] = fmin + nChan * abs(dnu) ; |
---|
| 2362 | for ( int ii = 1 ; ii < nChan ; ii++ ) |
---|
| 2363 | zi[ii] = zi[0] + dnu * ii ; |
---|
| 2364 | zi[nChan] = zi[nChan-1] + dnu ; |
---|
| 2365 | // Access zi and yi in ascending order |
---|
| 2366 | int izs = ((dnu > 0) ? 0 : nChan ) ; |
---|
| 2367 | int ize = ((dnu > 0) ? nChan : 0 ) ; |
---|
| 2368 | int izincr = ((dnu > 0) ? 1 : -1 ) ; |
---|
| 2369 | int ichan = ((olddnu > 0) ? 0 : oldsize ) ; |
---|
| 2370 | int iye = ((olddnu > 0) ? oldsize : 0 ) ; |
---|
| 2371 | int iyincr = ((olddnu > 0) ? 1 : -1 ) ; |
---|
| 2372 | //for ( int ii = izs ; ii != ize ; ii+=izincr ){ |
---|
| 2373 | int ii = izs ; |
---|
| 2374 | while (ii != ize) { |
---|
| 2375 | // always zl < zr |
---|
| 2376 | double zl = zi[ii] ; |
---|
| 2377 | double zr = zi[ii+izincr] ; |
---|
| 2378 | // Need to access smaller index for the new spec, flag, and tsys. |
---|
| 2379 | // Values between zi[k] and zi[k+1] should be stored in newspec[k], etc. |
---|
| 2380 | int i = min(ii, ii+izincr) ; |
---|
| 2381 | //for ( int jj = ichan ; jj != iye ; jj+=iyincr ) { |
---|
| 2382 | int jj = ichan ; |
---|
| 2383 | while (jj != iye) { |
---|
| 2384 | // always yl < yr |
---|
| 2385 | double yl = yi[jj] ; |
---|
| 2386 | double yr = yi[jj+iyincr] ; |
---|
| 2387 | // Need to access smaller index for the original spec, flag, and tsys. |
---|
| 2388 | // Values between yi[k] and yi[k+1] are stored in oldspec[k], etc. |
---|
| 2389 | int j = min(jj, jj+iyincr) ; |
---|
| 2390 | if ( yr <= zl ) { |
---|
| 2391 | jj += iyincr ; |
---|
| 2392 | continue ; |
---|
| 2393 | } |
---|
| 2394 | else if ( yl <= zl ) { |
---|
| 2395 | if ( yr < zr ) { |
---|
| 2396 | if (!oldflag[j]) { |
---|
| 2397 | newspec[i] += oldspec[j] * ( yr - zl ) ; |
---|
| 2398 | if (regridTsys) newtsys[i] += oldtsys[j] * ( yr - zl ) ; |
---|
| 2399 | wsum += ( yr - zl ) ; |
---|
| 2400 | count[i]++ ; |
---|
| 2401 | } |
---|
| 2402 | newflag[i] = newflag[i] && oldflag[j] ; |
---|
| 2403 | } |
---|
| 2404 | else { |
---|
| 2405 | if (!oldflag[j]) { |
---|
| 2406 | newspec[i] += oldspec[j] * abs(dnu) ; |
---|
| 2407 | if (regridTsys) newtsys[i] += oldtsys[j] * abs(dnu) ; |
---|
| 2408 | wsum += abs(dnu) ; |
---|
| 2409 | count[i]++ ; |
---|
| 2410 | } |
---|
| 2411 | newflag[i] = newflag[i] && oldflag[j] ; |
---|
| 2412 | ichan = jj ; |
---|
| 2413 | break ; |
---|
| 2414 | } |
---|
| 2415 | } |
---|
| 2416 | else if ( yl < zr ) { |
---|
| 2417 | if ( yr <= zr ) { |
---|
| 2418 | if (!oldflag[j]) { |
---|
| 2419 | newspec[i] += oldspec[j] * ( yr - yl ) ; |
---|
| 2420 | if (regridTsys) newtsys[i] += oldtsys[j] * ( yr - yl ) ; |
---|
| 2421 | wsum += ( yr - yl ) ; |
---|
| 2422 | count[i]++ ; |
---|
| 2423 | } |
---|
| 2424 | newflag[i] = newflag[i] && oldflag[j] ; |
---|
| 2425 | } |
---|
| 2426 | else { |
---|
| 2427 | if (!oldflag[j]) { |
---|
| 2428 | newspec[i] += oldspec[j] * ( zr - yl ) ; |
---|
| 2429 | if (regridTsys) newtsys[i] += oldtsys[j] * ( zr - yl ) ; |
---|
| 2430 | wsum += ( zr - yl ) ; |
---|
| 2431 | count[i]++ ; |
---|
| 2432 | } |
---|
| 2433 | newflag[i] = newflag[i] && oldflag[j] ; |
---|
| 2434 | ichan = jj ; |
---|
| 2435 | break ; |
---|
| 2436 | } |
---|
| 2437 | } |
---|
| 2438 | else { |
---|
| 2439 | //ichan = jj - iyincr ; |
---|
| 2440 | break ; |
---|
| 2441 | } |
---|
| 2442 | jj += iyincr ; |
---|
| 2443 | } |
---|
| 2444 | if ( wsum != 0.0 ) { |
---|
| 2445 | newspec[i] /= wsum ; |
---|
| 2446 | if (regridTsys) newtsys[i] /= wsum ; |
---|
| 2447 | } |
---|
| 2448 | wsum = 0.0 ; |
---|
| 2449 | ii += izincr ; |
---|
| 2450 | } |
---|
| 2451 | |
---|
| 2452 | // flag out channels without data |
---|
| 2453 | // this is tentative since there is no specific definition |
---|
| 2454 | // on bit flag... |
---|
| 2455 | uChar noData = 1 << 7 ; |
---|
| 2456 | for ( Int i = 0 ; i < nChan ; i++ ) { |
---|
| 2457 | if ( count[i] == 0 ) |
---|
| 2458 | newflag[i] = noData ; |
---|
| 2459 | } |
---|
| 2460 | |
---|
| 2461 | specCol_.put( irow, newspec ) ; |
---|
| 2462 | flagsCol_.put( irow, newflag ) ; |
---|
| 2463 | if (regridTsys) tsysCol_.put( irow, newtsys ); |
---|
| 2464 | |
---|
| 2465 | return ; |
---|
| 2466 | } |
---|
| 2467 | |
---|
[1730] | 2468 | std::vector<float> Scantable::getWeather(int whichrow) const |
---|
| 2469 | { |
---|
| 2470 | std::vector<float> out(5); |
---|
| 2471 | //Float temperature, pressure, humidity, windspeed, windaz; |
---|
| 2472 | weatherTable_.getEntry(out[0], out[1], out[2], out[3], out[4], |
---|
| 2473 | mweatheridCol_(uInt(whichrow))); |
---|
| 2474 | |
---|
| 2475 | |
---|
| 2476 | return out; |
---|
[1391] | 2477 | } |
---|
[1730] | 2478 | |
---|
[2047] | 2479 | bool Scantable::getFlagtraFast(uInt whichrow) |
---|
[1907] | 2480 | { |
---|
| 2481 | uChar flag; |
---|
| 2482 | Vector<uChar> flags; |
---|
[2047] | 2483 | flagsCol_.get(whichrow, flags); |
---|
[2012] | 2484 | flag = flags[0]; |
---|
[2047] | 2485 | for (uInt i = 1; i < flags.size(); ++i) { |
---|
[2012] | 2486 | flag &= flags[i]; |
---|
| 2487 | } |
---|
| 2488 | return ((flag >> 7) == 1); |
---|
| 2489 | } |
---|
| 2490 | |
---|
[2277] | 2491 | void Scantable::polyBaseline(const std::vector<bool>& mask, int order, bool getResidual, const std::string& progressInfo, const bool outLogger, const std::string& blfile) |
---|
[2047] | 2492 | { |
---|
[2193] | 2493 | try { |
---|
| 2494 | ofstream ofs; |
---|
| 2495 | String coordInfo = ""; |
---|
| 2496 | bool hasSameNchan = true; |
---|
| 2497 | bool outTextFile = false; |
---|
[2641] | 2498 | bool csvFormat = false; |
---|
[2047] | 2499 | |
---|
[2193] | 2500 | if (blfile != "") { |
---|
[2641] | 2501 | csvFormat = (blfile.substr(0, 1) == "T"); |
---|
| 2502 | ofs.open(blfile.substr(1).c_str(), ios::out | ios::app); |
---|
[2193] | 2503 | if (ofs) outTextFile = true; |
---|
| 2504 | } |
---|
[2047] | 2505 | |
---|
[2193] | 2506 | if (outLogger || outTextFile) { |
---|
| 2507 | coordInfo = getCoordInfo()[0]; |
---|
| 2508 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 2509 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 2510 | } |
---|
[2047] | 2511 | |
---|
[2193] | 2512 | Fitter fitter = Fitter(); |
---|
| 2513 | fitter.setExpression("poly", order); |
---|
| 2514 | //fitter.setIterClipping(thresClip, nIterClip); |
---|
[2047] | 2515 | |
---|
[2193] | 2516 | int nRow = nrow(); |
---|
| 2517 | std::vector<bool> chanMask; |
---|
| 2518 | bool showProgress; |
---|
| 2519 | int minNRow; |
---|
| 2520 | parseProgressInfo(progressInfo, showProgress, minNRow); |
---|
[2047] | 2521 | |
---|
[2193] | 2522 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
| 2523 | chanMask = getCompositeChanMask(whichrow, mask); |
---|
| 2524 | fitBaseline(chanMask, whichrow, fitter); |
---|
| 2525 | setSpectrum((getResidual ? fitter.getResidual() : fitter.getFit()), whichrow); |
---|
[2641] | 2526 | outputFittingResult(outLogger, outTextFile, csvFormat, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "polyBaseline()", fitter); |
---|
[2193] | 2527 | showProgressOnTerminal(whichrow, nRow, showProgress, minNRow); |
---|
| 2528 | } |
---|
| 2529 | |
---|
| 2530 | if (outTextFile) ofs.close(); |
---|
| 2531 | |
---|
| 2532 | } catch (...) { |
---|
| 2533 | throw; |
---|
[2047] | 2534 | } |
---|
| 2535 | } |
---|
| 2536 | |
---|
[2189] | 2537 | void Scantable::autoPolyBaseline(const std::vector<bool>& mask, int order, const std::vector<int>& edge, float threshold, int chanAvgLimit, bool getResidual, const std::string& progressInfo, const bool outLogger, const std::string& blfile) |
---|
[2047] | 2538 | { |
---|
[2193] | 2539 | try { |
---|
| 2540 | ofstream ofs; |
---|
| 2541 | String coordInfo = ""; |
---|
| 2542 | bool hasSameNchan = true; |
---|
| 2543 | bool outTextFile = false; |
---|
[2641] | 2544 | bool csvFormat = false; |
---|
[2047] | 2545 | |
---|
[2193] | 2546 | if (blfile != "") { |
---|
[2641] | 2547 | csvFormat = (blfile.substr(0, 1) == "T"); |
---|
| 2548 | ofs.open(blfile.substr(1).c_str(), ios::out | ios::app); |
---|
[2193] | 2549 | if (ofs) outTextFile = true; |
---|
| 2550 | } |
---|
[2047] | 2551 | |
---|
[2193] | 2552 | if (outLogger || outTextFile) { |
---|
| 2553 | coordInfo = getCoordInfo()[0]; |
---|
| 2554 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 2555 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 2556 | } |
---|
[2047] | 2557 | |
---|
[2193] | 2558 | Fitter fitter = Fitter(); |
---|
| 2559 | fitter.setExpression("poly", order); |
---|
| 2560 | //fitter.setIterClipping(thresClip, nIterClip); |
---|
[2047] | 2561 | |
---|
[2193] | 2562 | int nRow = nrow(); |
---|
| 2563 | std::vector<bool> chanMask; |
---|
| 2564 | int minEdgeSize = getIFNos().size()*2; |
---|
| 2565 | STLineFinder lineFinder = STLineFinder(); |
---|
| 2566 | lineFinder.setOptions(threshold, 3, chanAvgLimit); |
---|
[2047] | 2567 | |
---|
[2193] | 2568 | bool showProgress; |
---|
| 2569 | int minNRow; |
---|
| 2570 | parseProgressInfo(progressInfo, showProgress, minNRow); |
---|
[2189] | 2571 | |
---|
[2193] | 2572 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
[2047] | 2573 | |
---|
[2193] | 2574 | //------------------------------------------------------- |
---|
| 2575 | //chanMask = getCompositeChanMask(whichrow, mask, edge, minEdgeSize, lineFinder); |
---|
| 2576 | //------------------------------------------------------- |
---|
| 2577 | int edgeSize = edge.size(); |
---|
| 2578 | std::vector<int> currentEdge; |
---|
| 2579 | if (edgeSize >= 2) { |
---|
| 2580 | int idx = 0; |
---|
| 2581 | if (edgeSize > 2) { |
---|
| 2582 | if (edgeSize < minEdgeSize) { |
---|
| 2583 | throw(AipsError("Length of edge element info is less than that of IFs")); |
---|
| 2584 | } |
---|
| 2585 | idx = 2 * getIF(whichrow); |
---|
[2047] | 2586 | } |
---|
[2193] | 2587 | currentEdge.push_back(edge[idx]); |
---|
| 2588 | currentEdge.push_back(edge[idx+1]); |
---|
| 2589 | } else { |
---|
| 2590 | throw(AipsError("Wrong length of edge element")); |
---|
[2047] | 2591 | } |
---|
[2193] | 2592 | lineFinder.setData(getSpectrum(whichrow)); |
---|
| 2593 | lineFinder.findLines(getCompositeChanMask(whichrow, mask), currentEdge, whichrow); |
---|
| 2594 | chanMask = lineFinder.getMask(); |
---|
| 2595 | //------------------------------------------------------- |
---|
| 2596 | |
---|
| 2597 | fitBaseline(chanMask, whichrow, fitter); |
---|
| 2598 | setSpectrum((getResidual ? fitter.getResidual() : fitter.getFit()), whichrow); |
---|
| 2599 | |
---|
[2641] | 2600 | outputFittingResult(outLogger, outTextFile, csvFormat, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "autoPolyBaseline()", fitter); |
---|
[2193] | 2601 | showProgressOnTerminal(whichrow, nRow, showProgress, minNRow); |
---|
[2047] | 2602 | } |
---|
| 2603 | |
---|
[2193] | 2604 | if (outTextFile) ofs.close(); |
---|
[2047] | 2605 | |
---|
[2193] | 2606 | } catch (...) { |
---|
| 2607 | throw; |
---|
[2047] | 2608 | } |
---|
| 2609 | } |
---|
| 2610 | |
---|
[2645] | 2611 | void Scantable::chebyshevBaseline(const std::vector<bool>& mask, int order, float thresClip, int nIterClip, bool getResidual, const std::string& progressInfo, const bool outLogger, const std::string& blfile) |
---|
| 2612 | { |
---|
| 2613 | try { |
---|
| 2614 | ofstream ofs; |
---|
| 2615 | String coordInfo = ""; |
---|
| 2616 | bool hasSameNchan = true; |
---|
| 2617 | bool outTextFile = false; |
---|
| 2618 | bool csvFormat = false; |
---|
| 2619 | |
---|
| 2620 | if (blfile != "") { |
---|
| 2621 | csvFormat = (blfile.substr(0, 1) == "T"); |
---|
| 2622 | ofs.open(blfile.substr(1).c_str(), ios::out | ios::app); |
---|
| 2623 | if (ofs) outTextFile = true; |
---|
| 2624 | } |
---|
| 2625 | |
---|
| 2626 | if (outLogger || outTextFile) { |
---|
| 2627 | coordInfo = getCoordInfo()[0]; |
---|
| 2628 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 2629 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 2630 | } |
---|
| 2631 | |
---|
| 2632 | bool showProgress; |
---|
| 2633 | int minNRow; |
---|
| 2634 | parseProgressInfo(progressInfo, showProgress, minNRow); |
---|
| 2635 | |
---|
| 2636 | int nRow = nrow(); |
---|
| 2637 | std::vector<bool> chanMask; |
---|
| 2638 | |
---|
| 2639 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
| 2640 | std::vector<float> sp = getSpectrum(whichrow); |
---|
| 2641 | chanMask = getCompositeChanMask(whichrow, mask); |
---|
| 2642 | std::vector<float> params(order+1); |
---|
| 2643 | int nClipped = 0; |
---|
| 2644 | std::vector<float> res = doChebyshevFitting(sp, chanMask, order, params, nClipped, thresClip, nIterClip, getResidual); |
---|
| 2645 | |
---|
| 2646 | setSpectrum(res, whichrow); |
---|
| 2647 | outputFittingResult(outLogger, outTextFile, csvFormat, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "chebyshevBaseline()", params, nClipped); |
---|
| 2648 | showProgressOnTerminal(whichrow, nRow, showProgress, minNRow); |
---|
| 2649 | } |
---|
| 2650 | |
---|
| 2651 | if (outTextFile) ofs.close(); |
---|
| 2652 | |
---|
| 2653 | } catch (...) { |
---|
| 2654 | throw; |
---|
| 2655 | } |
---|
| 2656 | } |
---|
| 2657 | |
---|
| 2658 | void Scantable::autoChebyshevBaseline(const std::vector<bool>& mask, int order, float thresClip, int nIterClip, const std::vector<int>& edge, float threshold, int chanAvgLimit, bool getResidual, const std::string& progressInfo, const bool outLogger, const std::string& blfile) |
---|
| 2659 | { |
---|
| 2660 | try { |
---|
| 2661 | ofstream ofs; |
---|
| 2662 | String coordInfo = ""; |
---|
| 2663 | bool hasSameNchan = true; |
---|
| 2664 | bool outTextFile = false; |
---|
| 2665 | bool csvFormat = false; |
---|
| 2666 | |
---|
| 2667 | if (blfile != "") { |
---|
| 2668 | csvFormat = (blfile.substr(0, 1) == "T"); |
---|
| 2669 | ofs.open(blfile.substr(1).c_str(), ios::out | ios::app); |
---|
| 2670 | if (ofs) outTextFile = true; |
---|
| 2671 | } |
---|
| 2672 | |
---|
| 2673 | if (outLogger || outTextFile) { |
---|
| 2674 | coordInfo = getCoordInfo()[0]; |
---|
| 2675 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 2676 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 2677 | } |
---|
| 2678 | |
---|
| 2679 | int nRow = nrow(); |
---|
| 2680 | std::vector<bool> chanMask; |
---|
| 2681 | int minEdgeSize = getIFNos().size()*2; |
---|
| 2682 | STLineFinder lineFinder = STLineFinder(); |
---|
| 2683 | lineFinder.setOptions(threshold, 3, chanAvgLimit); |
---|
| 2684 | |
---|
| 2685 | bool showProgress; |
---|
| 2686 | int minNRow; |
---|
| 2687 | parseProgressInfo(progressInfo, showProgress, minNRow); |
---|
| 2688 | |
---|
| 2689 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
| 2690 | std::vector<float> sp = getSpectrum(whichrow); |
---|
| 2691 | |
---|
| 2692 | //------------------------------------------------------- |
---|
| 2693 | //chanMask = getCompositeChanMask(whichrow, mask, edge, minEdgeSize, lineFinder); |
---|
| 2694 | //------------------------------------------------------- |
---|
| 2695 | int edgeSize = edge.size(); |
---|
| 2696 | std::vector<int> currentEdge; |
---|
| 2697 | if (edgeSize >= 2) { |
---|
| 2698 | int idx = 0; |
---|
| 2699 | if (edgeSize > 2) { |
---|
| 2700 | if (edgeSize < minEdgeSize) { |
---|
| 2701 | throw(AipsError("Length of edge element info is less than that of IFs")); |
---|
| 2702 | } |
---|
| 2703 | idx = 2 * getIF(whichrow); |
---|
| 2704 | } |
---|
| 2705 | currentEdge.push_back(edge[idx]); |
---|
| 2706 | currentEdge.push_back(edge[idx+1]); |
---|
| 2707 | } else { |
---|
| 2708 | throw(AipsError("Wrong length of edge element")); |
---|
| 2709 | } |
---|
| 2710 | //lineFinder.setData(getSpectrum(whichrow)); |
---|
| 2711 | lineFinder.setData(sp); |
---|
| 2712 | lineFinder.findLines(getCompositeChanMask(whichrow, mask), currentEdge, whichrow); |
---|
| 2713 | chanMask = lineFinder.getMask(); |
---|
| 2714 | //------------------------------------------------------- |
---|
| 2715 | |
---|
| 2716 | |
---|
| 2717 | //fitBaseline(chanMask, whichrow, fitter); |
---|
| 2718 | //setSpectrum((getResidual ? fitter.getResidual() : fitter.getFit()), whichrow); |
---|
| 2719 | std::vector<float> params(order+1); |
---|
| 2720 | int nClipped = 0; |
---|
| 2721 | std::vector<float> res = doChebyshevFitting(sp, chanMask, order, params, nClipped, thresClip, nIterClip, getResidual); |
---|
| 2722 | setSpectrum(res, whichrow); |
---|
| 2723 | |
---|
| 2724 | outputFittingResult(outLogger, outTextFile, csvFormat, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "autoChebyshevBaseline()", params, nClipped); |
---|
| 2725 | showProgressOnTerminal(whichrow, nRow, showProgress, minNRow); |
---|
| 2726 | } |
---|
| 2727 | |
---|
| 2728 | if (outTextFile) ofs.close(); |
---|
| 2729 | |
---|
| 2730 | } catch (...) { |
---|
| 2731 | throw; |
---|
| 2732 | } |
---|
| 2733 | } |
---|
| 2734 | |
---|
| 2735 | /* |
---|
| 2736 | double Scantable::getChebyshevPolynomial(int n, double x) { |
---|
| 2737 | if ((x < -1.0)||(x > 1.0)) { |
---|
| 2738 | throw(AipsError("out of definition range (-1 <= x <= 1).")); |
---|
| 2739 | } else if (n < 0) { |
---|
| 2740 | throw(AipsError("the order must be zero or positive.")); |
---|
| 2741 | } else if (n == 0) { |
---|
| 2742 | return 1.0; |
---|
| 2743 | } else if (n == 1) { |
---|
| 2744 | return x; |
---|
| 2745 | } else { |
---|
| 2746 | return 2.0*x*getChebyshevPolynomial(n-1, x) - getChebyshevPolynomial(n-2, x); |
---|
| 2747 | } |
---|
| 2748 | } |
---|
| 2749 | */ |
---|
| 2750 | double Scantable::getChebyshevPolynomial(int n, double x) { |
---|
| 2751 | if ((x < -1.0)||(x > 1.0)) { |
---|
| 2752 | throw(AipsError("out of definition range (-1 <= x <= 1).")); |
---|
| 2753 | } else if (n < 0) { |
---|
| 2754 | throw(AipsError("the order must be zero or positive.")); |
---|
| 2755 | } else if (n == 0) { |
---|
| 2756 | return 1.0; |
---|
| 2757 | } else if (n == 1) { |
---|
| 2758 | return x; |
---|
| 2759 | } else { |
---|
| 2760 | double res = 0.0; |
---|
| 2761 | for (int m = 0; m <= n/2; ++m) { |
---|
| 2762 | double c = 1.0; |
---|
| 2763 | if (m > 0) { |
---|
| 2764 | for (int i = 1; i <= m; ++i) { |
---|
| 2765 | c *= (double)(n-2*m+i)/(double)i; |
---|
| 2766 | } |
---|
| 2767 | } |
---|
| 2768 | res += (m%2 == 0 ? 1.0 : -1.0)*(double)n/(double)(n-m)*pow(2.0*x, (double)(n-2*m-1))/2.0*c; |
---|
| 2769 | } |
---|
| 2770 | return res; |
---|
| 2771 | } |
---|
| 2772 | } |
---|
| 2773 | |
---|
| 2774 | std::vector<float> Scantable::doChebyshevFitting(const std::vector<float>& data, const std::vector<bool>& mask, int order, std::vector<float>& params, int& nClipped, float thresClip, int nIterClip, bool getResidual) |
---|
| 2775 | { |
---|
| 2776 | if (data.size() != mask.size()) { |
---|
| 2777 | throw(AipsError("data and mask sizes are not identical")); |
---|
| 2778 | } |
---|
| 2779 | if (order < 0) { |
---|
| 2780 | throw(AipsError("maximum order of Chebyshev polynomial must not be negative.")); |
---|
| 2781 | } |
---|
| 2782 | |
---|
| 2783 | int nChan = data.size(); |
---|
| 2784 | std::vector<int> maskArray; |
---|
| 2785 | std::vector<int> x; |
---|
| 2786 | for (int i = 0; i < nChan; ++i) { |
---|
| 2787 | maskArray.push_back(mask[i] ? 1 : 0); |
---|
| 2788 | if (mask[i]) { |
---|
| 2789 | x.push_back(i); |
---|
| 2790 | } |
---|
| 2791 | } |
---|
| 2792 | |
---|
| 2793 | int initNData = x.size(); |
---|
| 2794 | |
---|
| 2795 | int nData = initNData; |
---|
| 2796 | int nDOF = order + 1; //number of parameters to solve. |
---|
| 2797 | |
---|
| 2798 | // xArray : contains elemental values for computing the least-square matrix. |
---|
| 2799 | // xArray.size() is nDOF and xArray[*].size() is nChan. |
---|
| 2800 | // Each xArray element are as follows: |
---|
| 2801 | // xArray[0] = {T0(-1), T0(2/(nChan-1)-1), T0(4/(nChan-1)-1), ..., T0(1)}, |
---|
| 2802 | // xArray[n-1] = ..., |
---|
| 2803 | // xArray[n] = {Tn(-1), Tn(2/(nChan-1)-1), Tn(4/(nChan-1)-1), ..., Tn(1)} |
---|
| 2804 | // where (0 <= n <= order), |
---|
| 2805 | std::vector<std::vector<double> > xArray; |
---|
| 2806 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2807 | double xFactor = 2.0/(double)(nChan - 1); |
---|
| 2808 | std::vector<double> xs; |
---|
| 2809 | xs.clear(); |
---|
| 2810 | for (int j = 0; j < nChan; ++j) { |
---|
| 2811 | xs.push_back(getChebyshevPolynomial(i, xFactor*(double)j-1.0)); |
---|
| 2812 | } |
---|
| 2813 | xArray.push_back(xs); |
---|
| 2814 | } |
---|
| 2815 | |
---|
| 2816 | std::vector<double> z1, r1, residual; |
---|
| 2817 | for (int i = 0; i < nChan; ++i) { |
---|
| 2818 | z1.push_back((double)data[i]); |
---|
| 2819 | r1.push_back(0.0); |
---|
| 2820 | residual.push_back(0.0); |
---|
| 2821 | } |
---|
| 2822 | |
---|
| 2823 | for (int nClip = 0; nClip < nIterClip+1; ++nClip) { |
---|
| 2824 | // xMatrix : horizontal concatenation of |
---|
| 2825 | // the least-sq. matrix (left) and an |
---|
| 2826 | // identity matrix (right). |
---|
| 2827 | // the right part is used to calculate the inverse matrix of the left part. |
---|
| 2828 | double xMatrix[nDOF][2*nDOF]; |
---|
| 2829 | double zMatrix[nDOF]; |
---|
| 2830 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2831 | for (int j = 0; j < 2*nDOF; ++j) { |
---|
| 2832 | xMatrix[i][j] = 0.0; |
---|
| 2833 | } |
---|
| 2834 | xMatrix[i][nDOF+i] = 1.0; |
---|
| 2835 | zMatrix[i] = 0.0; |
---|
| 2836 | } |
---|
| 2837 | |
---|
| 2838 | int nUseData = 0; |
---|
| 2839 | for (int k = 0; k < nChan; ++k) { |
---|
| 2840 | if (maskArray[k] == 0) continue; |
---|
| 2841 | |
---|
| 2842 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2843 | for (int j = i; j < nDOF; ++j) { |
---|
| 2844 | xMatrix[i][j] += xArray[i][k] * xArray[j][k]; |
---|
| 2845 | } |
---|
| 2846 | zMatrix[i] += z1[k] * xArray[i][k]; |
---|
| 2847 | } |
---|
| 2848 | |
---|
| 2849 | nUseData++; |
---|
| 2850 | } |
---|
| 2851 | |
---|
| 2852 | if (nUseData < 1) { |
---|
| 2853 | throw(AipsError("all channels clipped or masked. can't execute fitting anymore.")); |
---|
| 2854 | } |
---|
| 2855 | |
---|
| 2856 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2857 | for (int j = 0; j < i; ++j) { |
---|
| 2858 | xMatrix[i][j] = xMatrix[j][i]; |
---|
| 2859 | } |
---|
| 2860 | } |
---|
| 2861 | |
---|
| 2862 | std::vector<double> invDiag; |
---|
| 2863 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2864 | invDiag.push_back(1.0/xMatrix[i][i]); |
---|
| 2865 | for (int j = 0; j < nDOF; ++j) { |
---|
| 2866 | xMatrix[i][j] *= invDiag[i]; |
---|
| 2867 | } |
---|
| 2868 | } |
---|
| 2869 | |
---|
| 2870 | for (int k = 0; k < nDOF; ++k) { |
---|
| 2871 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2872 | if (i != k) { |
---|
| 2873 | double factor1 = xMatrix[k][k]; |
---|
| 2874 | double factor2 = xMatrix[i][k]; |
---|
| 2875 | for (int j = k; j < 2*nDOF; ++j) { |
---|
| 2876 | xMatrix[i][j] *= factor1; |
---|
| 2877 | xMatrix[i][j] -= xMatrix[k][j]*factor2; |
---|
| 2878 | xMatrix[i][j] /= factor1; |
---|
| 2879 | } |
---|
| 2880 | } |
---|
| 2881 | } |
---|
| 2882 | double xDiag = xMatrix[k][k]; |
---|
| 2883 | for (int j = k; j < 2*nDOF; ++j) { |
---|
| 2884 | xMatrix[k][j] /= xDiag; |
---|
| 2885 | } |
---|
| 2886 | } |
---|
| 2887 | |
---|
| 2888 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2889 | for (int j = 0; j < nDOF; ++j) { |
---|
| 2890 | xMatrix[i][nDOF+j] *= invDiag[j]; |
---|
| 2891 | } |
---|
| 2892 | } |
---|
| 2893 | //compute a vector y which consists of the coefficients of the sinusoids forming the |
---|
| 2894 | //best-fit curves (a0,s1,c1,s2,c2,...), where a0 is constant and s* and c* are of sine |
---|
| 2895 | //and cosine functions, respectively. |
---|
| 2896 | std::vector<double> y; |
---|
| 2897 | params.clear(); |
---|
| 2898 | for (int i = 0; i < nDOF; ++i) { |
---|
| 2899 | y.push_back(0.0); |
---|
| 2900 | for (int j = 0; j < nDOF; ++j) { |
---|
| 2901 | y[i] += xMatrix[i][nDOF+j]*zMatrix[j]; |
---|
| 2902 | } |
---|
| 2903 | params.push_back(y[i]); |
---|
| 2904 | } |
---|
| 2905 | |
---|
| 2906 | for (int i = 0; i < nChan; ++i) { |
---|
| 2907 | r1[i] = y[0]; |
---|
| 2908 | for (int j = 1; j < nDOF; ++j) { |
---|
| 2909 | r1[i] += y[j]*xArray[j][i]; |
---|
| 2910 | } |
---|
| 2911 | residual[i] = z1[i] - r1[i]; |
---|
| 2912 | } |
---|
| 2913 | |
---|
| 2914 | if ((nClip == nIterClip) || (thresClip <= 0.0)) { |
---|
| 2915 | break; |
---|
| 2916 | } else { |
---|
| 2917 | double stdDev = 0.0; |
---|
| 2918 | for (int i = 0; i < nChan; ++i) { |
---|
| 2919 | stdDev += residual[i]*residual[i]*(double)maskArray[i]; |
---|
| 2920 | } |
---|
| 2921 | stdDev = sqrt(stdDev/(double)nData); |
---|
| 2922 | |
---|
| 2923 | double thres = stdDev * thresClip; |
---|
| 2924 | int newNData = 0; |
---|
| 2925 | for (int i = 0; i < nChan; ++i) { |
---|
| 2926 | if (abs(residual[i]) >= thres) { |
---|
| 2927 | maskArray[i] = 0; |
---|
| 2928 | } |
---|
| 2929 | if (maskArray[i] > 0) { |
---|
| 2930 | newNData++; |
---|
| 2931 | } |
---|
| 2932 | } |
---|
| 2933 | if (newNData == nData) { |
---|
| 2934 | break; //no more flag to add. iteration stops. |
---|
| 2935 | } else { |
---|
| 2936 | nData = newNData; |
---|
| 2937 | } |
---|
| 2938 | } |
---|
| 2939 | } |
---|
| 2940 | |
---|
| 2941 | nClipped = initNData - nData; |
---|
| 2942 | |
---|
| 2943 | std::vector<float> result; |
---|
| 2944 | if (getResidual) { |
---|
| 2945 | for (int i = 0; i < nChan; ++i) { |
---|
| 2946 | result.push_back((float)residual[i]); |
---|
| 2947 | } |
---|
| 2948 | } else { |
---|
| 2949 | for (int i = 0; i < nChan; ++i) { |
---|
| 2950 | result.push_back((float)r1[i]); |
---|
| 2951 | } |
---|
| 2952 | } |
---|
| 2953 | |
---|
| 2954 | return result; |
---|
| 2955 | } |
---|
| 2956 | |
---|
[2189] | 2957 | void Scantable::cubicSplineBaseline(const std::vector<bool>& mask, int nPiece, float thresClip, int nIterClip, bool getResidual, const std::string& progressInfo, const bool outLogger, const std::string& blfile) |
---|
[2081] | 2958 | { |
---|
[2641] | 2959 | /************* |
---|
[2591] | 2960 | double totTimeStart, totTimeEnd, blTimeStart, blTimeEnd, ioTimeStart, ioTimeEnd, msTimeStart, msTimeEnd, seTimeStart, seTimeEnd, otTimeStart, otTimeEnd, prTimeStart, prTimeEnd; |
---|
| 2961 | double elapseMs = 0.0; |
---|
| 2962 | double elapseSe = 0.0; |
---|
| 2963 | double elapseOt = 0.0; |
---|
| 2964 | double elapsePr = 0.0; |
---|
| 2965 | double elapseBl = 0.0; |
---|
| 2966 | double elapseIo = 0.0; |
---|
| 2967 | totTimeStart = mathutil::gettimeofday_sec(); |
---|
[2641] | 2968 | *************/ |
---|
[2591] | 2969 | |
---|
[2193] | 2970 | try { |
---|
| 2971 | ofstream ofs; |
---|
| 2972 | String coordInfo = ""; |
---|
| 2973 | bool hasSameNchan = true; |
---|
| 2974 | bool outTextFile = false; |
---|
[2641] | 2975 | bool csvFormat = false; |
---|
[2012] | 2976 | |
---|
[2193] | 2977 | if (blfile != "") { |
---|
[2641] | 2978 | csvFormat = (blfile.substr(0, 1) == "T"); |
---|
| 2979 | ofs.open(blfile.substr(1).c_str(), ios::out | ios::app); |
---|
[2193] | 2980 | if (ofs) outTextFile = true; |
---|
| 2981 | } |
---|
[2012] | 2982 | |
---|
[2193] | 2983 | if (outLogger || outTextFile) { |
---|
| 2984 | coordInfo = getCoordInfo()[0]; |
---|
| 2985 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 2986 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 2987 | } |
---|
[2012] | 2988 | |
---|
[2193] | 2989 | //Fitter fitter = Fitter(); |
---|
| 2990 | //fitter.setExpression("cspline", nPiece); |
---|
| 2991 | //fitter.setIterClipping(thresClip, nIterClip); |
---|
[2012] | 2992 | |
---|
[2193] | 2993 | bool showProgress; |
---|
| 2994 | int minNRow; |
---|
| 2995 | parseProgressInfo(progressInfo, showProgress, minNRow); |
---|
[2012] | 2996 | |
---|
[2344] | 2997 | int nRow = nrow(); |
---|
| 2998 | std::vector<bool> chanMask; |
---|
| 2999 | |
---|
| 3000 | //-------------------------------- |
---|
[2193] | 3001 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
[2641] | 3002 | /****************** |
---|
[2591] | 3003 | ioTimeStart = mathutil::gettimeofday_sec(); |
---|
[2641] | 3004 | **/ |
---|
[2591] | 3005 | std::vector<float> sp = getSpectrum(whichrow); |
---|
[2641] | 3006 | /** |
---|
[2591] | 3007 | ioTimeEnd = mathutil::gettimeofday_sec(); |
---|
| 3008 | elapseIo += (double)(ioTimeEnd - ioTimeStart); |
---|
| 3009 | msTimeStart = mathutil::gettimeofday_sec(); |
---|
[2641] | 3010 | ******************/ |
---|
[2591] | 3011 | |
---|
[2193] | 3012 | chanMask = getCompositeChanMask(whichrow, mask); |
---|
[2591] | 3013 | |
---|
[2641] | 3014 | /** |
---|
[2591] | 3015 | msTimeEnd = mathutil::gettimeofday_sec(); |
---|
| 3016 | elapseMs += (double)(msTimeEnd - msTimeStart); |
---|
| 3017 | blTimeStart = mathutil::gettimeofday_sec(); |
---|
[2641] | 3018 | **/ |
---|
[2591] | 3019 | |
---|
[2193] | 3020 | //fitBaseline(chanMask, whichrow, fitter); |
---|
| 3021 | //setSpectrum((getResidual ? fitter.getResidual() : fitter.getFit()), whichrow); |
---|
[2344] | 3022 | std::vector<int> pieceEdges(nPiece+1); |
---|
| 3023 | std::vector<float> params(nPiece*4); |
---|
[2193] | 3024 | int nClipped = 0; |
---|
[2591] | 3025 | std::vector<float> res = doCubicSplineFitting(sp, chanMask, nPiece, pieceEdges, params, nClipped, thresClip, nIterClip, getResidual); |
---|
| 3026 | |
---|
[2641] | 3027 | /** |
---|
[2591] | 3028 | blTimeEnd = mathutil::gettimeofday_sec(); |
---|
| 3029 | elapseBl += (double)(blTimeEnd - blTimeStart); |
---|
| 3030 | seTimeStart = mathutil::gettimeofday_sec(); |
---|
[2641] | 3031 | **/ |
---|
[2591] | 3032 | |
---|
| 3033 | |
---|
[2193] | 3034 | setSpectrum(res, whichrow); |
---|
| 3035 | // |
---|
[2012] | 3036 | |
---|
[2641] | 3037 | /** |
---|
[2591] | 3038 | seTimeEnd = mathutil::gettimeofday_sec(); |
---|
| 3039 | elapseSe += (double)(seTimeEnd - seTimeStart); |
---|
| 3040 | otTimeStart = mathutil::gettimeofday_sec(); |
---|
[2641] | 3041 | **/ |
---|
[2591] | 3042 | |
---|
[2641] | 3043 | outputFittingResult(outLogger, outTextFile, csvFormat, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "cubicSplineBaseline()", pieceEdges, params, nClipped); |
---|
[2591] | 3044 | |
---|
[2641] | 3045 | /** |
---|
[2591] | 3046 | otTimeEnd = mathutil::gettimeofday_sec(); |
---|
| 3047 | elapseOt += (double)(otTimeEnd - otTimeStart); |
---|
| 3048 | prTimeStart = mathutil::gettimeofday_sec(); |
---|
[2641] | 3049 | **/ |
---|
[2591] | 3050 | |
---|
[2193] | 3051 | showProgressOnTerminal(whichrow, nRow, showProgress, minNRow); |
---|
[2591] | 3052 | |
---|
[2641] | 3053 | /****************** |
---|
[2591] | 3054 | prTimeEnd = mathutil::gettimeofday_sec(); |
---|
| 3055 | elapsePr += (double)(prTimeEnd - prTimeStart); |
---|
[2641] | 3056 | ******************/ |
---|
[2193] | 3057 | } |
---|
[2344] | 3058 | //-------------------------------- |
---|
| 3059 | |
---|
[2193] | 3060 | if (outTextFile) ofs.close(); |
---|
| 3061 | |
---|
| 3062 | } catch (...) { |
---|
| 3063 | throw; |
---|
[2012] | 3064 | } |
---|
[2641] | 3065 | /*************** |
---|
[2591] | 3066 | totTimeEnd = mathutil::gettimeofday_sec(); |
---|
| 3067 | std::cout << "io : " << elapseIo << " (sec.)" << endl; |
---|
| 3068 | std::cout << "ms : " << elapseMs << " (sec.)" << endl; |
---|
| 3069 | std::cout << "bl : " << elapseBl << " (sec.)" << endl; |
---|
| 3070 | std::cout << "se : " << elapseSe << " (sec.)" << endl; |
---|
| 3071 | std::cout << "ot : " << elapseOt << " (sec.)" << endl; |
---|
| 3072 | std::cout << "pr : " << elapsePr << " (sec.)" << endl; |
---|
| 3073 | std::cout << "total : " << (double)(totTimeEnd - totTimeStart) << " (sec.)" << endl; |
---|
[2641] | 3074 | ***************/ |
---|
[2012] | 3075 | } |
---|
| 3076 | |
---|
[2189] | 3077 | void Scantable::autoCubicSplineBaseline(const std::vector<bool>& mask, int nPiece, float thresClip, int nIterClip, const std::vector<int>& edge, float threshold, int chanAvgLimit, bool getResidual, const std::string& progressInfo, const bool outLogger, const std::string& blfile) |
---|
[2012] | 3078 | { |
---|
[2193] | 3079 | try { |
---|
| 3080 | ofstream ofs; |
---|
| 3081 | String coordInfo = ""; |
---|
| 3082 | bool hasSameNchan = true; |
---|
| 3083 | bool outTextFile = false; |
---|
[2641] | 3084 | bool csvFormat = false; |
---|
[2012] | 3085 | |
---|
[2193] | 3086 | if (blfile != "") { |
---|
[2641] | 3087 | csvFormat = (blfile.substr(0, 1) == "T"); |
---|
| 3088 | ofs.open(blfile.substr(1).c_str(), ios::out | ios::app); |
---|
[2193] | 3089 | if (ofs) outTextFile = true; |
---|
| 3090 | } |
---|
[2012] | 3091 | |
---|
[2193] | 3092 | if (outLogger || outTextFile) { |
---|
| 3093 | coordInfo = getCoordInfo()[0]; |
---|
| 3094 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 3095 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 3096 | } |
---|
[2012] | 3097 | |
---|
[2193] | 3098 | //Fitter fitter = Fitter(); |
---|
| 3099 | //fitter.setExpression("cspline", nPiece); |
---|
| 3100 | //fitter.setIterClipping(thresClip, nIterClip); |
---|
[2012] | 3101 | |
---|
[2193] | 3102 | int nRow = nrow(); |
---|
| 3103 | std::vector<bool> chanMask; |
---|
| 3104 | int minEdgeSize = getIFNos().size()*2; |
---|
| 3105 | STLineFinder lineFinder = STLineFinder(); |
---|
| 3106 | lineFinder.setOptions(threshold, 3, chanAvgLimit); |
---|
[2012] | 3107 | |
---|
[2193] | 3108 | bool showProgress; |
---|
| 3109 | int minNRow; |
---|
| 3110 | parseProgressInfo(progressInfo, showProgress, minNRow); |
---|
[2189] | 3111 | |
---|
[2193] | 3112 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
[2591] | 3113 | std::vector<float> sp = getSpectrum(whichrow); |
---|
[2012] | 3114 | |
---|
[2193] | 3115 | //------------------------------------------------------- |
---|
| 3116 | //chanMask = getCompositeChanMask(whichrow, mask, edge, minEdgeSize, lineFinder); |
---|
| 3117 | //------------------------------------------------------- |
---|
| 3118 | int edgeSize = edge.size(); |
---|
| 3119 | std::vector<int> currentEdge; |
---|
| 3120 | if (edgeSize >= 2) { |
---|
| 3121 | int idx = 0; |
---|
| 3122 | if (edgeSize > 2) { |
---|
| 3123 | if (edgeSize < minEdgeSize) { |
---|
| 3124 | throw(AipsError("Length of edge element info is less than that of IFs")); |
---|
| 3125 | } |
---|
| 3126 | idx = 2 * getIF(whichrow); |
---|
[2012] | 3127 | } |
---|
[2193] | 3128 | currentEdge.push_back(edge[idx]); |
---|
| 3129 | currentEdge.push_back(edge[idx+1]); |
---|
| 3130 | } else { |
---|
| 3131 | throw(AipsError("Wrong length of edge element")); |
---|
[2012] | 3132 | } |
---|
[2641] | 3133 | //lineFinder.setData(getSpectrum(whichrow)); |
---|
| 3134 | lineFinder.setData(sp); |
---|
[2193] | 3135 | lineFinder.findLines(getCompositeChanMask(whichrow, mask), currentEdge, whichrow); |
---|
| 3136 | chanMask = lineFinder.getMask(); |
---|
| 3137 | //------------------------------------------------------- |
---|
| 3138 | |
---|
| 3139 | |
---|
| 3140 | //fitBaseline(chanMask, whichrow, fitter); |
---|
| 3141 | //setSpectrum((getResidual ? fitter.getResidual() : fitter.getFit()), whichrow); |
---|
[2344] | 3142 | std::vector<int> pieceEdges(nPiece+1); |
---|
| 3143 | std::vector<float> params(nPiece*4); |
---|
[2193] | 3144 | int nClipped = 0; |
---|
[2591] | 3145 | std::vector<float> res = doCubicSplineFitting(sp, chanMask, nPiece, pieceEdges, params, nClipped, thresClip, nIterClip, getResidual); |
---|
[2193] | 3146 | setSpectrum(res, whichrow); |
---|
| 3147 | // |
---|
| 3148 | |
---|
[2641] | 3149 | outputFittingResult(outLogger, outTextFile, csvFormat, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "autoCubicSplineBaseline()", pieceEdges, params, nClipped); |
---|
[2193] | 3150 | showProgressOnTerminal(whichrow, nRow, showProgress, minNRow); |
---|
[1907] | 3151 | } |
---|
[2012] | 3152 | |
---|
[2193] | 3153 | if (outTextFile) ofs.close(); |
---|
[2012] | 3154 | |
---|
[2193] | 3155 | } catch (...) { |
---|
| 3156 | throw; |
---|
[2012] | 3157 | } |
---|
[1730] | 3158 | } |
---|
[1907] | 3159 | |
---|
[2193] | 3160 | std::vector<float> Scantable::doCubicSplineFitting(const std::vector<float>& data, const std::vector<bool>& mask, int nPiece, std::vector<int>& idxEdge, std::vector<float>& params, int& nClipped, float thresClip, int nIterClip, bool getResidual) |
---|
[2081] | 3161 | { |
---|
| 3162 | if (data.size() != mask.size()) { |
---|
| 3163 | throw(AipsError("data and mask sizes are not identical")); |
---|
| 3164 | } |
---|
[2012] | 3165 | if (nPiece < 1) { |
---|
[2094] | 3166 | throw(AipsError("number of the sections must be one or more")); |
---|
[2012] | 3167 | } |
---|
| 3168 | |
---|
| 3169 | int nChan = data.size(); |
---|
[2344] | 3170 | std::vector<int> maskArray(nChan); |
---|
| 3171 | std::vector<int> x(nChan); |
---|
| 3172 | int j = 0; |
---|
[2012] | 3173 | for (int i = 0; i < nChan; ++i) { |
---|
[2344] | 3174 | maskArray[i] = mask[i] ? 1 : 0; |
---|
[2012] | 3175 | if (mask[i]) { |
---|
[2344] | 3176 | x[j] = i; |
---|
| 3177 | j++; |
---|
[2012] | 3178 | } |
---|
| 3179 | } |
---|
[2344] | 3180 | int initNData = j; |
---|
[2012] | 3181 | |
---|
[2193] | 3182 | if (initNData < nPiece) { |
---|
| 3183 | throw(AipsError("too few non-flagged channels")); |
---|
| 3184 | } |
---|
[2081] | 3185 | |
---|
| 3186 | int nElement = (int)(floor(floor((double)(initNData/nPiece))+0.5)); |
---|
[2344] | 3187 | std::vector<double> invEdge(nPiece-1); |
---|
| 3188 | idxEdge[0] = x[0]; |
---|
[2012] | 3189 | for (int i = 1; i < nPiece; ++i) { |
---|
[2047] | 3190 | int valX = x[nElement*i]; |
---|
[2344] | 3191 | idxEdge[i] = valX; |
---|
| 3192 | invEdge[i-1] = 1.0/(double)valX; |
---|
[2012] | 3193 | } |
---|
[2344] | 3194 | idxEdge[nPiece] = x[initNData-1]+1; |
---|
[2064] | 3195 | |
---|
[2081] | 3196 | int nData = initNData; |
---|
| 3197 | int nDOF = nPiece + 3; //number of parameters to solve, namely, 4+(nPiece-1). |
---|
| 3198 | |
---|
[2344] | 3199 | std::vector<double> x1(nChan), x2(nChan), x3(nChan); |
---|
| 3200 | std::vector<double> z1(nChan), x1z1(nChan), x2z1(nChan), x3z1(nChan); |
---|
| 3201 | std::vector<double> r1(nChan), residual(nChan); |
---|
[2012] | 3202 | for (int i = 0; i < nChan; ++i) { |
---|
[2064] | 3203 | double di = (double)i; |
---|
| 3204 | double dD = (double)data[i]; |
---|
[2344] | 3205 | x1[i] = di; |
---|
| 3206 | x2[i] = di*di; |
---|
| 3207 | x3[i] = di*di*di; |
---|
| 3208 | z1[i] = dD; |
---|
| 3209 | x1z1[i] = dD*di; |
---|
| 3210 | x2z1[i] = dD*di*di; |
---|
| 3211 | x3z1[i] = dD*di*di*di; |
---|
| 3212 | r1[i] = 0.0; |
---|
| 3213 | residual[i] = 0.0; |
---|
[2012] | 3214 | } |
---|
| 3215 | |
---|
| 3216 | for (int nClip = 0; nClip < nIterClip+1; ++nClip) { |
---|
[2064] | 3217 | // xMatrix : horizontal concatenation of |
---|
| 3218 | // the least-sq. matrix (left) and an |
---|
| 3219 | // identity matrix (right). |
---|
| 3220 | // the right part is used to calculate the inverse matrix of the left part. |
---|
[2012] | 3221 | double xMatrix[nDOF][2*nDOF]; |
---|
| 3222 | double zMatrix[nDOF]; |
---|
| 3223 | for (int i = 0; i < nDOF; ++i) { |
---|
| 3224 | for (int j = 0; j < 2*nDOF; ++j) { |
---|
| 3225 | xMatrix[i][j] = 0.0; |
---|
| 3226 | } |
---|
| 3227 | xMatrix[i][nDOF+i] = 1.0; |
---|
| 3228 | zMatrix[i] = 0.0; |
---|
| 3229 | } |
---|
| 3230 | |
---|
| 3231 | for (int n = 0; n < nPiece; ++n) { |
---|
[2193] | 3232 | int nUseDataInPiece = 0; |
---|
[2064] | 3233 | for (int i = idxEdge[n]; i < idxEdge[n+1]; ++i) { |
---|
| 3234 | |
---|
[2012] | 3235 | if (maskArray[i] == 0) continue; |
---|
[2064] | 3236 | |
---|
[2012] | 3237 | xMatrix[0][0] += 1.0; |
---|
[2064] | 3238 | xMatrix[0][1] += x1[i]; |
---|
| 3239 | xMatrix[0][2] += x2[i]; |
---|
| 3240 | xMatrix[0][3] += x3[i]; |
---|
| 3241 | xMatrix[1][1] += x2[i]; |
---|
| 3242 | xMatrix[1][2] += x3[i]; |
---|
| 3243 | xMatrix[1][3] += x2[i]*x2[i]; |
---|
| 3244 | xMatrix[2][2] += x2[i]*x2[i]; |
---|
| 3245 | xMatrix[2][3] += x3[i]*x2[i]; |
---|
| 3246 | xMatrix[3][3] += x3[i]*x3[i]; |
---|
[2012] | 3247 | zMatrix[0] += z1[i]; |
---|
[2064] | 3248 | zMatrix[1] += x1z1[i]; |
---|
| 3249 | zMatrix[2] += x2z1[i]; |
---|
| 3250 | zMatrix[3] += x3z1[i]; |
---|
| 3251 | |
---|
[2012] | 3252 | for (int j = 0; j < n; ++j) { |
---|
[2064] | 3253 | double q = 1.0 - x1[i]*invEdge[j]; |
---|
[2012] | 3254 | q = q*q*q; |
---|
| 3255 | xMatrix[0][j+4] += q; |
---|
[2064] | 3256 | xMatrix[1][j+4] += q*x1[i]; |
---|
| 3257 | xMatrix[2][j+4] += q*x2[i]; |
---|
| 3258 | xMatrix[3][j+4] += q*x3[i]; |
---|
[2012] | 3259 | for (int k = 0; k < j; ++k) { |
---|
[2064] | 3260 | double r = 1.0 - x1[i]*invEdge[k]; |
---|
[2012] | 3261 | r = r*r*r; |
---|
| 3262 | xMatrix[k+4][j+4] += r*q; |
---|
| 3263 | } |
---|
| 3264 | xMatrix[j+4][j+4] += q*q; |
---|
| 3265 | zMatrix[j+4] += q*z1[i]; |
---|
| 3266 | } |
---|
[2064] | 3267 | |
---|
[2193] | 3268 | nUseDataInPiece++; |
---|
[2012] | 3269 | } |
---|
[2193] | 3270 | |
---|
| 3271 | if (nUseDataInPiece < 1) { |
---|
| 3272 | std::vector<string> suffixOfPieceNumber(4); |
---|
| 3273 | suffixOfPieceNumber[0] = "th"; |
---|
| 3274 | suffixOfPieceNumber[1] = "st"; |
---|
| 3275 | suffixOfPieceNumber[2] = "nd"; |
---|
| 3276 | suffixOfPieceNumber[3] = "rd"; |
---|
| 3277 | int idxNoDataPiece = (n % 10 <= 3) ? n : 0; |
---|
| 3278 | ostringstream oss; |
---|
| 3279 | oss << "all channels clipped or masked in " << n << suffixOfPieceNumber[idxNoDataPiece]; |
---|
| 3280 | oss << " piece of the spectrum. can't execute fitting anymore."; |
---|
| 3281 | throw(AipsError(String(oss))); |
---|
| 3282 | } |
---|
[2012] | 3283 | } |
---|
| 3284 | |
---|
| 3285 | for (int i = 0; i < nDOF; ++i) { |
---|
| 3286 | for (int j = 0; j < i; ++j) { |
---|
| 3287 | xMatrix[i][j] = xMatrix[j][i]; |
---|
| 3288 | } |
---|
| 3289 | } |
---|
| 3290 | |
---|
[2344] | 3291 | std::vector<double> invDiag(nDOF); |
---|
[2012] | 3292 | for (int i = 0; i < nDOF; ++i) { |
---|
[2344] | 3293 | invDiag[i] = 1.0/xMatrix[i][i]; |
---|
[2012] | 3294 | for (int j = 0; j < nDOF; ++j) { |
---|
| 3295 | xMatrix[i][j] *= invDiag[i]; |
---|
| 3296 | } |
---|
| 3297 | } |
---|
| 3298 | |
---|
| 3299 | for (int k = 0; k < nDOF; ++k) { |
---|
| 3300 | for (int i = 0; i < nDOF; ++i) { |
---|
| 3301 | if (i != k) { |
---|
| 3302 | double factor1 = xMatrix[k][k]; |
---|
| 3303 | double factor2 = xMatrix[i][k]; |
---|
| 3304 | for (int j = k; j < 2*nDOF; ++j) { |
---|
| 3305 | xMatrix[i][j] *= factor1; |
---|
| 3306 | xMatrix[i][j] -= xMatrix[k][j]*factor2; |
---|
| 3307 | xMatrix[i][j] /= factor1; |
---|
| 3308 | } |
---|
| 3309 | } |
---|
| 3310 | } |
---|
| 3311 | double xDiag = xMatrix[k][k]; |
---|
| 3312 | for (int j = k; j < 2*nDOF; ++j) { |
---|
| 3313 | xMatrix[k][j] /= xDiag; |
---|
| 3314 | } |
---|
| 3315 | } |
---|
| 3316 | |
---|
| 3317 | for (int i = 0; i < nDOF; ++i) { |
---|
| 3318 | for (int j = 0; j < nDOF; ++j) { |
---|
| 3319 | xMatrix[i][nDOF+j] *= invDiag[j]; |
---|
| 3320 | } |
---|
| 3321 | } |
---|
| 3322 | //compute a vector y which consists of the coefficients of the best-fit spline curves |
---|
| 3323 | //(a0,a1,a2,a3(,b3,c3,...)), namely, the ones for the leftmost piece and the ones of |
---|
| 3324 | //cubic terms for the other pieces (in case nPiece>1). |
---|
[2344] | 3325 | std::vector<double> y(nDOF); |
---|
[2012] | 3326 | for (int i = 0; i < nDOF; ++i) { |
---|
[2344] | 3327 | y[i] = 0.0; |
---|
[2012] | 3328 | for (int j = 0; j < nDOF; ++j) { |
---|
| 3329 | y[i] += xMatrix[i][nDOF+j]*zMatrix[j]; |
---|
| 3330 | } |
---|
| 3331 | } |
---|
| 3332 | |
---|
| 3333 | double a0 = y[0]; |
---|
| 3334 | double a1 = y[1]; |
---|
| 3335 | double a2 = y[2]; |
---|
| 3336 | double a3 = y[3]; |
---|
| 3337 | |
---|
[2344] | 3338 | int j = 0; |
---|
[2012] | 3339 | for (int n = 0; n < nPiece; ++n) { |
---|
[2064] | 3340 | for (int i = idxEdge[n]; i < idxEdge[n+1]; ++i) { |
---|
| 3341 | r1[i] = a0 + a1*x1[i] + a2*x2[i] + a3*x3[i]; |
---|
[2012] | 3342 | } |
---|
[2344] | 3343 | params[j] = a0; |
---|
| 3344 | params[j+1] = a1; |
---|
| 3345 | params[j+2] = a2; |
---|
| 3346 | params[j+3] = a3; |
---|
| 3347 | j += 4; |
---|
[2012] | 3348 | |
---|
| 3349 | if (n == nPiece-1) break; |
---|
| 3350 | |
---|
| 3351 | double d = y[4+n]; |
---|
[2064] | 3352 | double iE = invEdge[n]; |
---|
| 3353 | a0 += d; |
---|
| 3354 | a1 -= 3.0*d*iE; |
---|
| 3355 | a2 += 3.0*d*iE*iE; |
---|
| 3356 | a3 -= d*iE*iE*iE; |
---|
[2012] | 3357 | } |
---|
| 3358 | |
---|
[2344] | 3359 | //subtract constant value for masked regions at the edge of spectrum |
---|
| 3360 | if (idxEdge[0] > 0) { |
---|
| 3361 | int n = idxEdge[0]; |
---|
| 3362 | for (int i = 0; i < idxEdge[0]; ++i) { |
---|
| 3363 | //--cubic extrapolate-- |
---|
| 3364 | //r1[i] = params[0] + params[1]*x1[i] + params[2]*x2[i] + params[3]*x3[i]; |
---|
| 3365 | //--linear extrapolate-- |
---|
| 3366 | //r1[i] = (r1[n+1] - r1[n])/(x1[n+1] - x1[n])*(x1[i] - x1[n]) + r1[n]; |
---|
| 3367 | //--constant-- |
---|
| 3368 | r1[i] = r1[n]; |
---|
| 3369 | } |
---|
| 3370 | } |
---|
| 3371 | if (idxEdge[nPiece] < nChan) { |
---|
| 3372 | int n = idxEdge[nPiece]-1; |
---|
| 3373 | for (int i = idxEdge[nPiece]; i < nChan; ++i) { |
---|
| 3374 | //--cubic extrapolate-- |
---|
| 3375 | //int m = 4*(nPiece-1); |
---|
| 3376 | //r1[i] = params[m] + params[m+1]*x1[i] + params[m+2]*x2[i] + params[m+3]*x3[i]; |
---|
| 3377 | //--linear extrapolate-- |
---|
| 3378 | //r1[i] = (r1[n-1] - r1[n])/(x1[n-1] - x1[n])*(x1[i] - x1[n]) + r1[n]; |
---|
| 3379 | //--constant-- |
---|
| 3380 | r1[i] = r1[n]; |
---|
| 3381 | } |
---|
| 3382 | } |
---|
| 3383 | |
---|
| 3384 | for (int i = 0; i < nChan; ++i) { |
---|
| 3385 | residual[i] = z1[i] - r1[i]; |
---|
| 3386 | } |
---|
| 3387 | |
---|
[2012] | 3388 | if ((nClip == nIterClip) || (thresClip <= 0.0)) { |
---|
| 3389 | break; |
---|
| 3390 | } else { |
---|
| 3391 | double stdDev = 0.0; |
---|
| 3392 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 3393 | stdDev += residual[i]*residual[i]*(double)maskArray[i]; |
---|
[2012] | 3394 | } |
---|
| 3395 | stdDev = sqrt(stdDev/(double)nData); |
---|
| 3396 | |
---|
| 3397 | double thres = stdDev * thresClip; |
---|
| 3398 | int newNData = 0; |
---|
| 3399 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 3400 | if (abs(residual[i]) >= thres) { |
---|
[2012] | 3401 | maskArray[i] = 0; |
---|
| 3402 | } |
---|
| 3403 | if (maskArray[i] > 0) { |
---|
| 3404 | newNData++; |
---|
| 3405 | } |
---|
| 3406 | } |
---|
[2081] | 3407 | if (newNData == nData) { |
---|
[2064] | 3408 | break; //no more flag to add. iteration stops. |
---|
[2012] | 3409 | } else { |
---|
[2081] | 3410 | nData = newNData; |
---|
[2012] | 3411 | } |
---|
| 3412 | } |
---|
| 3413 | } |
---|
| 3414 | |
---|
[2193] | 3415 | nClipped = initNData - nData; |
---|
| 3416 | |
---|
[2344] | 3417 | std::vector<float> result(nChan); |
---|
[2058] | 3418 | if (getResidual) { |
---|
| 3419 | for (int i = 0; i < nChan; ++i) { |
---|
[2344] | 3420 | result[i] = (float)residual[i]; |
---|
[2058] | 3421 | } |
---|
| 3422 | } else { |
---|
| 3423 | for (int i = 0; i < nChan; ++i) { |
---|
[2344] | 3424 | result[i] = (float)r1[i]; |
---|
[2058] | 3425 | } |
---|
[2012] | 3426 | } |
---|
| 3427 | |
---|
[2058] | 3428 | return result; |
---|
[2012] | 3429 | } |
---|
| 3430 | |
---|
[2344] | 3431 | void Scantable::selectWaveNumbers(const int whichrow, const std::vector<bool>& chanMask, const bool applyFFT, const std::string& fftMethod, const std::string& fftThresh, const std::vector<int>& addNWaves, const std::vector<int>& rejectNWaves, std::vector<int>& nWaves) |
---|
[2081] | 3432 | { |
---|
[2186] | 3433 | nWaves.clear(); |
---|
| 3434 | |
---|
| 3435 | if (applyFFT) { |
---|
| 3436 | string fftThAttr; |
---|
| 3437 | float fftThSigma; |
---|
| 3438 | int fftThTop; |
---|
| 3439 | parseThresholdExpression(fftThresh, fftThAttr, fftThSigma, fftThTop); |
---|
| 3440 | doSelectWaveNumbers(whichrow, chanMask, fftMethod, fftThSigma, fftThTop, fftThAttr, nWaves); |
---|
| 3441 | } |
---|
| 3442 | |
---|
[2411] | 3443 | addAuxWaveNumbers(whichrow, addNWaves, rejectNWaves, nWaves); |
---|
[2186] | 3444 | } |
---|
| 3445 | |
---|
| 3446 | void Scantable::parseThresholdExpression(const std::string& fftThresh, std::string& fftThAttr, float& fftThSigma, int& fftThTop) |
---|
| 3447 | { |
---|
| 3448 | uInt idxSigma = fftThresh.find("sigma"); |
---|
| 3449 | uInt idxTop = fftThresh.find("top"); |
---|
| 3450 | |
---|
| 3451 | if (idxSigma == fftThresh.size() - 5) { |
---|
| 3452 | std::istringstream is(fftThresh.substr(0, fftThresh.size() - 5)); |
---|
| 3453 | is >> fftThSigma; |
---|
| 3454 | fftThAttr = "sigma"; |
---|
| 3455 | } else if (idxTop == 0) { |
---|
| 3456 | std::istringstream is(fftThresh.substr(3)); |
---|
| 3457 | is >> fftThTop; |
---|
| 3458 | fftThAttr = "top"; |
---|
| 3459 | } else { |
---|
| 3460 | bool isNumber = true; |
---|
| 3461 | for (uInt i = 0; i < fftThresh.size()-1; ++i) { |
---|
| 3462 | char ch = (fftThresh.substr(i, 1).c_str())[0]; |
---|
| 3463 | if (!(isdigit(ch) || (fftThresh.substr(i, 1) == "."))) { |
---|
| 3464 | isNumber = false; |
---|
| 3465 | break; |
---|
| 3466 | } |
---|
| 3467 | } |
---|
| 3468 | if (isNumber) { |
---|
| 3469 | std::istringstream is(fftThresh); |
---|
| 3470 | is >> fftThSigma; |
---|
| 3471 | fftThAttr = "sigma"; |
---|
| 3472 | } else { |
---|
| 3473 | throw(AipsError("fftthresh has a wrong value")); |
---|
| 3474 | } |
---|
| 3475 | } |
---|
| 3476 | } |
---|
| 3477 | |
---|
| 3478 | void Scantable::doSelectWaveNumbers(const int whichrow, const std::vector<bool>& chanMask, const std::string& fftMethod, const float fftThSigma, const int fftThTop, const std::string& fftThAttr, std::vector<int>& nWaves) |
---|
| 3479 | { |
---|
| 3480 | std::vector<float> fspec; |
---|
| 3481 | if (fftMethod == "fft") { |
---|
| 3482 | fspec = execFFT(whichrow, chanMask, false, true); |
---|
| 3483 | //} else if (fftMethod == "lsp") { |
---|
| 3484 | // fspec = lombScarglePeriodogram(whichrow); |
---|
| 3485 | } |
---|
| 3486 | |
---|
| 3487 | if (fftThAttr == "sigma") { |
---|
| 3488 | float mean = 0.0; |
---|
| 3489 | float mean2 = 0.0; |
---|
| 3490 | for (uInt i = 0; i < fspec.size(); ++i) { |
---|
| 3491 | mean += fspec[i]; |
---|
| 3492 | mean2 += fspec[i]*fspec[i]; |
---|
| 3493 | } |
---|
| 3494 | mean /= float(fspec.size()); |
---|
| 3495 | mean2 /= float(fspec.size()); |
---|
| 3496 | float thres = mean + fftThSigma * float(sqrt(mean2 - mean*mean)); |
---|
| 3497 | |
---|
| 3498 | for (uInt i = 0; i < fspec.size(); ++i) { |
---|
| 3499 | if (fspec[i] >= thres) { |
---|
| 3500 | nWaves.push_back(i); |
---|
| 3501 | } |
---|
| 3502 | } |
---|
| 3503 | |
---|
| 3504 | } else if (fftThAttr == "top") { |
---|
| 3505 | for (int i = 0; i < fftThTop; ++i) { |
---|
| 3506 | float max = 0.0; |
---|
| 3507 | int maxIdx = 0; |
---|
| 3508 | for (uInt j = 0; j < fspec.size(); ++j) { |
---|
| 3509 | if (fspec[j] > max) { |
---|
| 3510 | max = fspec[j]; |
---|
| 3511 | maxIdx = j; |
---|
| 3512 | } |
---|
| 3513 | } |
---|
| 3514 | nWaves.push_back(maxIdx); |
---|
| 3515 | fspec[maxIdx] = 0.0; |
---|
| 3516 | } |
---|
| 3517 | |
---|
| 3518 | } |
---|
| 3519 | |
---|
| 3520 | if (nWaves.size() > 1) { |
---|
| 3521 | sort(nWaves.begin(), nWaves.end()); |
---|
| 3522 | } |
---|
| 3523 | } |
---|
| 3524 | |
---|
[2411] | 3525 | void Scantable::addAuxWaveNumbers(const int whichrow, const std::vector<int>& addNWaves, const std::vector<int>& rejectNWaves, std::vector<int>& nWaves) |
---|
[2186] | 3526 | { |
---|
[2411] | 3527 | std::vector<int> tempAddNWaves, tempRejectNWaves; |
---|
[2186] | 3528 | for (uInt i = 0; i < addNWaves.size(); ++i) { |
---|
[2411] | 3529 | tempAddNWaves.push_back(addNWaves[i]); |
---|
| 3530 | } |
---|
| 3531 | if ((tempAddNWaves.size() == 2) && (tempAddNWaves[1] == -999)) { |
---|
| 3532 | setWaveNumberListUptoNyquistFreq(whichrow, tempAddNWaves); |
---|
| 3533 | } |
---|
| 3534 | |
---|
| 3535 | for (uInt i = 0; i < rejectNWaves.size(); ++i) { |
---|
| 3536 | tempRejectNWaves.push_back(rejectNWaves[i]); |
---|
| 3537 | } |
---|
| 3538 | if ((tempRejectNWaves.size() == 2) && (tempRejectNWaves[1] == -999)) { |
---|
| 3539 | setWaveNumberListUptoNyquistFreq(whichrow, tempRejectNWaves); |
---|
| 3540 | } |
---|
| 3541 | |
---|
| 3542 | for (uInt i = 0; i < tempAddNWaves.size(); ++i) { |
---|
[2186] | 3543 | bool found = false; |
---|
| 3544 | for (uInt j = 0; j < nWaves.size(); ++j) { |
---|
[2411] | 3545 | if (nWaves[j] == tempAddNWaves[i]) { |
---|
[2186] | 3546 | found = true; |
---|
| 3547 | break; |
---|
| 3548 | } |
---|
| 3549 | } |
---|
[2411] | 3550 | if (!found) nWaves.push_back(tempAddNWaves[i]); |
---|
[2186] | 3551 | } |
---|
| 3552 | |
---|
[2411] | 3553 | for (uInt i = 0; i < tempRejectNWaves.size(); ++i) { |
---|
[2186] | 3554 | for (std::vector<int>::iterator j = nWaves.begin(); j != nWaves.end(); ) { |
---|
[2411] | 3555 | if (*j == tempRejectNWaves[i]) { |
---|
[2186] | 3556 | j = nWaves.erase(j); |
---|
| 3557 | } else { |
---|
| 3558 | ++j; |
---|
| 3559 | } |
---|
| 3560 | } |
---|
| 3561 | } |
---|
| 3562 | |
---|
| 3563 | if (nWaves.size() > 1) { |
---|
| 3564 | sort(nWaves.begin(), nWaves.end()); |
---|
| 3565 | unique(nWaves.begin(), nWaves.end()); |
---|
| 3566 | } |
---|
| 3567 | } |
---|
| 3568 | |
---|
[2411] | 3569 | void Scantable::setWaveNumberListUptoNyquistFreq(const int whichrow, std::vector<int>& nWaves) |
---|
| 3570 | { |
---|
| 3571 | if ((nWaves.size() == 2)&&(nWaves[1] == -999)) { |
---|
| 3572 | int val = nWaves[0]; |
---|
| 3573 | int nyquistFreq = nchan(getIF(whichrow))/2+1; |
---|
| 3574 | nWaves.clear(); |
---|
| 3575 | if (val > nyquistFreq) { // for safety, at least nWaves contains a constant; CAS-3759 |
---|
| 3576 | nWaves.push_back(0); |
---|
| 3577 | } |
---|
| 3578 | while (val <= nyquistFreq) { |
---|
| 3579 | nWaves.push_back(val); |
---|
| 3580 | val++; |
---|
| 3581 | } |
---|
| 3582 | } |
---|
| 3583 | } |
---|
| 3584 | |
---|
[2189] | 3585 | void Scantable::sinusoidBaseline(const std::vector<bool>& mask, const bool applyFFT, const std::string& fftMethod, const std::string& fftThresh, const std::vector<int>& addNWaves, const std::vector<int>& rejectNWaves, float thresClip, int nIterClip, bool getResidual, const std::string& progressInfo, const bool outLogger, const std::string& blfile) |
---|
[2186] | 3586 | { |
---|
[2193] | 3587 | try { |
---|
| 3588 | ofstream ofs; |
---|
| 3589 | String coordInfo = ""; |
---|
| 3590 | bool hasSameNchan = true; |
---|
| 3591 | bool outTextFile = false; |
---|
[2641] | 3592 | bool csvFormat = false; |
---|
[2012] | 3593 | |
---|
[2193] | 3594 | if (blfile != "") { |
---|
[2641] | 3595 | csvFormat = (blfile.substr(0, 1) == "T"); |
---|
| 3596 | ofs.open(blfile.substr(1).c_str(), ios::out | ios::app); |
---|
[2193] | 3597 | if (ofs) outTextFile = true; |
---|
| 3598 | } |
---|
[2012] | 3599 | |
---|
[2193] | 3600 | if (outLogger || outTextFile) { |
---|
| 3601 | coordInfo = getCoordInfo()[0]; |
---|
| 3602 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 3603 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 3604 | } |
---|
[2012] | 3605 | |
---|
[2193] | 3606 | //Fitter fitter = Fitter(); |
---|
| 3607 | //fitter.setExpression("sinusoid", nWaves); |
---|
| 3608 | //fitter.setIterClipping(thresClip, nIterClip); |
---|
[2012] | 3609 | |
---|
[2193] | 3610 | int nRow = nrow(); |
---|
| 3611 | std::vector<bool> chanMask; |
---|
| 3612 | std::vector<int> nWaves; |
---|
[2012] | 3613 | |
---|
[2193] | 3614 | bool showProgress; |
---|
| 3615 | int minNRow; |
---|
| 3616 | parseProgressInfo(progressInfo, showProgress, minNRow); |
---|
[2189] | 3617 | |
---|
[2193] | 3618 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
| 3619 | chanMask = getCompositeChanMask(whichrow, mask); |
---|
| 3620 | selectWaveNumbers(whichrow, chanMask, applyFFT, fftMethod, fftThresh, addNWaves, rejectNWaves, nWaves); |
---|
[2186] | 3621 | |
---|
[2193] | 3622 | //FOR DEBUGGING------------ |
---|
[2411] | 3623 | /* |
---|
[2193] | 3624 | if (whichrow < 0) {// == nRow -1) { |
---|
| 3625 | cout << "+++ i=" << setw(3) << whichrow << ", IF=" << setw(2) << getIF(whichrow); |
---|
| 3626 | if (applyFFT) { |
---|
[2186] | 3627 | cout << "[ "; |
---|
| 3628 | for (uInt j = 0; j < nWaves.size(); ++j) { |
---|
| 3629 | cout << nWaves[j] << ", "; |
---|
| 3630 | } |
---|
| 3631 | cout << " ] " << endl; |
---|
[2193] | 3632 | } |
---|
| 3633 | cout << flush; |
---|
[2186] | 3634 | } |
---|
[2411] | 3635 | */ |
---|
[2193] | 3636 | //------------------------- |
---|
| 3637 | |
---|
| 3638 | //fitBaseline(chanMask, whichrow, fitter); |
---|
| 3639 | //setSpectrum((getResidual ? fitter.getResidual() : fitter.getFit()), whichrow); |
---|
| 3640 | std::vector<float> params; |
---|
| 3641 | int nClipped = 0; |
---|
| 3642 | std::vector<float> res = doSinusoidFitting(getSpectrum(whichrow), chanMask, nWaves, params, nClipped, thresClip, nIterClip, getResidual); |
---|
| 3643 | setSpectrum(res, whichrow); |
---|
| 3644 | // |
---|
| 3645 | |
---|
[2641] | 3646 | outputFittingResult(outLogger, outTextFile, csvFormat, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "sinusoidBaseline()", params, nClipped); |
---|
[2193] | 3647 | showProgressOnTerminal(whichrow, nRow, showProgress, minNRow); |
---|
[2186] | 3648 | } |
---|
| 3649 | |
---|
[2193] | 3650 | if (outTextFile) ofs.close(); |
---|
[2012] | 3651 | |
---|
[2193] | 3652 | } catch (...) { |
---|
| 3653 | throw; |
---|
[1931] | 3654 | } |
---|
[1907] | 3655 | } |
---|
| 3656 | |
---|
[2189] | 3657 | void Scantable::autoSinusoidBaseline(const std::vector<bool>& mask, const bool applyFFT, const std::string& fftMethod, const std::string& fftThresh, const std::vector<int>& addNWaves, const std::vector<int>& rejectNWaves, float thresClip, int nIterClip, const std::vector<int>& edge, float threshold, int chanAvgLimit, bool getResidual, const std::string& progressInfo, const bool outLogger, const std::string& blfile) |
---|
[2012] | 3658 | { |
---|
[2193] | 3659 | try { |
---|
| 3660 | ofstream ofs; |
---|
| 3661 | String coordInfo = ""; |
---|
| 3662 | bool hasSameNchan = true; |
---|
| 3663 | bool outTextFile = false; |
---|
[2641] | 3664 | bool csvFormat = false; |
---|
[2012] | 3665 | |
---|
[2193] | 3666 | if (blfile != "") { |
---|
[2641] | 3667 | csvFormat = (blfile.substr(0, 1) == "T"); |
---|
| 3668 | ofs.open(blfile.substr(1).c_str(), ios::out | ios::app); |
---|
[2193] | 3669 | if (ofs) outTextFile = true; |
---|
| 3670 | } |
---|
[2012] | 3671 | |
---|
[2193] | 3672 | if (outLogger || outTextFile) { |
---|
| 3673 | coordInfo = getCoordInfo()[0]; |
---|
| 3674 | if (coordInfo == "") coordInfo = "channel"; |
---|
| 3675 | hasSameNchan = hasSameNchanOverIFs(); |
---|
| 3676 | } |
---|
[2012] | 3677 | |
---|
[2193] | 3678 | //Fitter fitter = Fitter(); |
---|
| 3679 | //fitter.setExpression("sinusoid", nWaves); |
---|
| 3680 | //fitter.setIterClipping(thresClip, nIterClip); |
---|
[2012] | 3681 | |
---|
[2193] | 3682 | int nRow = nrow(); |
---|
| 3683 | std::vector<bool> chanMask; |
---|
| 3684 | std::vector<int> nWaves; |
---|
[2186] | 3685 | |
---|
[2193] | 3686 | int minEdgeSize = getIFNos().size()*2; |
---|
| 3687 | STLineFinder lineFinder = STLineFinder(); |
---|
| 3688 | lineFinder.setOptions(threshold, 3, chanAvgLimit); |
---|
[2012] | 3689 | |
---|
[2193] | 3690 | bool showProgress; |
---|
| 3691 | int minNRow; |
---|
| 3692 | parseProgressInfo(progressInfo, showProgress, minNRow); |
---|
[2189] | 3693 | |
---|
[2193] | 3694 | for (int whichrow = 0; whichrow < nRow; ++whichrow) { |
---|
[2012] | 3695 | |
---|
[2193] | 3696 | //------------------------------------------------------- |
---|
| 3697 | //chanMask = getCompositeChanMask(whichrow, mask, edge, minEdgeSize, lineFinder); |
---|
| 3698 | //------------------------------------------------------- |
---|
| 3699 | int edgeSize = edge.size(); |
---|
| 3700 | std::vector<int> currentEdge; |
---|
| 3701 | if (edgeSize >= 2) { |
---|
| 3702 | int idx = 0; |
---|
| 3703 | if (edgeSize > 2) { |
---|
| 3704 | if (edgeSize < minEdgeSize) { |
---|
| 3705 | throw(AipsError("Length of edge element info is less than that of IFs")); |
---|
| 3706 | } |
---|
| 3707 | idx = 2 * getIF(whichrow); |
---|
[2012] | 3708 | } |
---|
[2193] | 3709 | currentEdge.push_back(edge[idx]); |
---|
| 3710 | currentEdge.push_back(edge[idx+1]); |
---|
| 3711 | } else { |
---|
| 3712 | throw(AipsError("Wrong length of edge element")); |
---|
[2012] | 3713 | } |
---|
[2193] | 3714 | lineFinder.setData(getSpectrum(whichrow)); |
---|
| 3715 | lineFinder.findLines(getCompositeChanMask(whichrow, mask), currentEdge, whichrow); |
---|
| 3716 | chanMask = lineFinder.getMask(); |
---|
| 3717 | //------------------------------------------------------- |
---|
| 3718 | |
---|
| 3719 | selectWaveNumbers(whichrow, chanMask, applyFFT, fftMethod, fftThresh, addNWaves, rejectNWaves, nWaves); |
---|
| 3720 | |
---|
| 3721 | //fitBaseline(chanMask, whichrow, fitter); |
---|
| 3722 | //setSpectrum((getResidual ? fitter.getResidual() : fitter.getFit()), whichrow); |
---|
| 3723 | std::vector<float> params; |
---|
| 3724 | int nClipped = 0; |
---|
| 3725 | std::vector<float> res = doSinusoidFitting(getSpectrum(whichrow), chanMask, nWaves, params, nClipped, thresClip, nIterClip, getResidual); |
---|
| 3726 | setSpectrum(res, whichrow); |
---|
| 3727 | // |
---|
| 3728 | |
---|
[2641] | 3729 | outputFittingResult(outLogger, outTextFile, csvFormat, chanMask, whichrow, coordInfo, hasSameNchan, ofs, "autoSinusoidBaseline()", params, nClipped); |
---|
[2193] | 3730 | showProgressOnTerminal(whichrow, nRow, showProgress, minNRow); |
---|
[2012] | 3731 | } |
---|
| 3732 | |
---|
[2193] | 3733 | if (outTextFile) ofs.close(); |
---|
[2012] | 3734 | |
---|
[2193] | 3735 | } catch (...) { |
---|
| 3736 | throw; |
---|
[2047] | 3737 | } |
---|
| 3738 | } |
---|
| 3739 | |
---|
[2193] | 3740 | std::vector<float> Scantable::doSinusoidFitting(const std::vector<float>& data, const std::vector<bool>& mask, const std::vector<int>& waveNumbers, std::vector<float>& params, int& nClipped, float thresClip, int nIterClip, bool getResidual) |
---|
[2081] | 3741 | { |
---|
[2047] | 3742 | if (data.size() != mask.size()) { |
---|
[2081] | 3743 | throw(AipsError("data and mask sizes are not identical")); |
---|
[2047] | 3744 | } |
---|
[2081] | 3745 | if (data.size() < 2) { |
---|
| 3746 | throw(AipsError("data size is too short")); |
---|
| 3747 | } |
---|
| 3748 | if (waveNumbers.size() == 0) { |
---|
[2186] | 3749 | throw(AipsError("no wave numbers given")); |
---|
[2081] | 3750 | } |
---|
| 3751 | std::vector<int> nWaves; // sorted and uniqued array of wave numbers |
---|
| 3752 | nWaves.reserve(waveNumbers.size()); |
---|
| 3753 | copy(waveNumbers.begin(), waveNumbers.end(), back_inserter(nWaves)); |
---|
| 3754 | sort(nWaves.begin(), nWaves.end()); |
---|
| 3755 | std::vector<int>::iterator end_it = unique(nWaves.begin(), nWaves.end()); |
---|
| 3756 | nWaves.erase(end_it, nWaves.end()); |
---|
| 3757 | |
---|
| 3758 | int minNWaves = nWaves[0]; |
---|
| 3759 | if (minNWaves < 0) { |
---|
[2058] | 3760 | throw(AipsError("wave number must be positive or zero (i.e. constant)")); |
---|
| 3761 | } |
---|
[2081] | 3762 | bool hasConstantTerm = (minNWaves == 0); |
---|
[2047] | 3763 | |
---|
| 3764 | int nChan = data.size(); |
---|
| 3765 | std::vector<int> maskArray; |
---|
| 3766 | std::vector<int> x; |
---|
| 3767 | for (int i = 0; i < nChan; ++i) { |
---|
| 3768 | maskArray.push_back(mask[i] ? 1 : 0); |
---|
| 3769 | if (mask[i]) { |
---|
| 3770 | x.push_back(i); |
---|
| 3771 | } |
---|
| 3772 | } |
---|
| 3773 | |
---|
[2081] | 3774 | int initNData = x.size(); |
---|
[2047] | 3775 | |
---|
[2081] | 3776 | int nData = initNData; |
---|
| 3777 | int nDOF = nWaves.size() * 2 - (hasConstantTerm ? 1 : 0); //number of parameters to solve. |
---|
| 3778 | |
---|
| 3779 | const double PI = 6.0 * asin(0.5); // PI (= 3.141592653...) |
---|
[2186] | 3780 | double baseXFactor = 2.0*PI/(double)(nChan-1); //the denominator (nChan-1) should be changed to (xdata[nChan-1]-xdata[0]) for accepting x-values given in velocity or frequency when this function is moved to fitter. (2011/03/30 WK) |
---|
[2081] | 3781 | |
---|
| 3782 | // xArray : contains elemental values for computing the least-square matrix. |
---|
| 3783 | // xArray.size() is nDOF and xArray[*].size() is nChan. |
---|
| 3784 | // Each xArray element are as follows: |
---|
| 3785 | // xArray[0] = {1.0, 1.0, 1.0, ..., 1.0}, |
---|
| 3786 | // xArray[2n-1] = {sin(nPI/L*x[0]), sin(nPI/L*x[1]), ..., sin(nPI/L*x[nChan])}, |
---|
| 3787 | // xArray[2n] = {cos(nPI/L*x[0]), cos(nPI/L*x[1]), ..., cos(nPI/L*x[nChan])}, |
---|
| 3788 | // where (1 <= n <= nMaxWavesInSW), |
---|
| 3789 | // or, |
---|
| 3790 | // xArray[2n-1] = {sin(wn[n]PI/L*x[0]), sin(wn[n]PI/L*x[1]), ..., sin(wn[n]PI/L*x[nChan])}, |
---|
| 3791 | // xArray[2n] = {cos(wn[n]PI/L*x[0]), cos(wn[n]PI/L*x[1]), ..., cos(wn[n]PI/L*x[nChan])}, |
---|
| 3792 | // where wn[n] denotes waveNumbers[n] (1 <= n <= waveNumbers.size()). |
---|
| 3793 | std::vector<std::vector<double> > xArray; |
---|
| 3794 | if (hasConstantTerm) { |
---|
| 3795 | std::vector<double> xu; |
---|
| 3796 | for (int j = 0; j < nChan; ++j) { |
---|
| 3797 | xu.push_back(1.0); |
---|
| 3798 | } |
---|
| 3799 | xArray.push_back(xu); |
---|
| 3800 | } |
---|
| 3801 | for (uInt i = (hasConstantTerm ? 1 : 0); i < nWaves.size(); ++i) { |
---|
| 3802 | double xFactor = baseXFactor*(double)nWaves[i]; |
---|
| 3803 | std::vector<double> xs, xc; |
---|
| 3804 | xs.clear(); |
---|
| 3805 | xc.clear(); |
---|
| 3806 | for (int j = 0; j < nChan; ++j) { |
---|
| 3807 | xs.push_back(sin(xFactor*(double)j)); |
---|
| 3808 | xc.push_back(cos(xFactor*(double)j)); |
---|
| 3809 | } |
---|
| 3810 | xArray.push_back(xs); |
---|
| 3811 | xArray.push_back(xc); |
---|
| 3812 | } |
---|
| 3813 | |
---|
| 3814 | std::vector<double> z1, r1, residual; |
---|
[2047] | 3815 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 3816 | z1.push_back((double)data[i]); |
---|
[2047] | 3817 | r1.push_back(0.0); |
---|
[2081] | 3818 | residual.push_back(0.0); |
---|
[2047] | 3819 | } |
---|
| 3820 | |
---|
| 3821 | for (int nClip = 0; nClip < nIterClip+1; ++nClip) { |
---|
[2081] | 3822 | // xMatrix : horizontal concatenation of |
---|
| 3823 | // the least-sq. matrix (left) and an |
---|
| 3824 | // identity matrix (right). |
---|
| 3825 | // the right part is used to calculate the inverse matrix of the left part. |
---|
[2047] | 3826 | double xMatrix[nDOF][2*nDOF]; |
---|
| 3827 | double zMatrix[nDOF]; |
---|
| 3828 | for (int i = 0; i < nDOF; ++i) { |
---|
| 3829 | for (int j = 0; j < 2*nDOF; ++j) { |
---|
| 3830 | xMatrix[i][j] = 0.0; |
---|
[2012] | 3831 | } |
---|
[2047] | 3832 | xMatrix[i][nDOF+i] = 1.0; |
---|
| 3833 | zMatrix[i] = 0.0; |
---|
| 3834 | } |
---|
| 3835 | |
---|
[2193] | 3836 | int nUseData = 0; |
---|
[2081] | 3837 | for (int k = 0; k < nChan; ++k) { |
---|
| 3838 | if (maskArray[k] == 0) continue; |
---|
| 3839 | |
---|
| 3840 | for (int i = 0; i < nDOF; ++i) { |
---|
| 3841 | for (int j = i; j < nDOF; ++j) { |
---|
| 3842 | xMatrix[i][j] += xArray[i][k] * xArray[j][k]; |
---|
| 3843 | } |
---|
| 3844 | zMatrix[i] += z1[k] * xArray[i][k]; |
---|
| 3845 | } |
---|
[2193] | 3846 | |
---|
| 3847 | nUseData++; |
---|
[2047] | 3848 | } |
---|
| 3849 | |
---|
[2193] | 3850 | if (nUseData < 1) { |
---|
| 3851 | throw(AipsError("all channels clipped or masked. can't execute fitting anymore.")); |
---|
| 3852 | } |
---|
| 3853 | |
---|
[2047] | 3854 | for (int i = 0; i < nDOF; ++i) { |
---|
| 3855 | for (int j = 0; j < i; ++j) { |
---|
| 3856 | xMatrix[i][j] = xMatrix[j][i]; |
---|
[2012] | 3857 | } |
---|
| 3858 | } |
---|
| 3859 | |
---|
[2047] | 3860 | std::vector<double> invDiag; |
---|
| 3861 | for (int i = 0; i < nDOF; ++i) { |
---|
| 3862 | invDiag.push_back(1.0/xMatrix[i][i]); |
---|
| 3863 | for (int j = 0; j < nDOF; ++j) { |
---|
| 3864 | xMatrix[i][j] *= invDiag[i]; |
---|
| 3865 | } |
---|
| 3866 | } |
---|
| 3867 | |
---|
| 3868 | for (int k = 0; k < nDOF; ++k) { |
---|
| 3869 | for (int i = 0; i < nDOF; ++i) { |
---|
| 3870 | if (i != k) { |
---|
| 3871 | double factor1 = xMatrix[k][k]; |
---|
| 3872 | double factor2 = xMatrix[i][k]; |
---|
| 3873 | for (int j = k; j < 2*nDOF; ++j) { |
---|
| 3874 | xMatrix[i][j] *= factor1; |
---|
| 3875 | xMatrix[i][j] -= xMatrix[k][j]*factor2; |
---|
| 3876 | xMatrix[i][j] /= factor1; |
---|
| 3877 | } |
---|
| 3878 | } |
---|
| 3879 | } |
---|
| 3880 | double xDiag = xMatrix[k][k]; |
---|
| 3881 | for (int j = k; j < 2*nDOF; ++j) { |
---|
| 3882 | xMatrix[k][j] /= xDiag; |
---|
| 3883 | } |
---|
| 3884 | } |
---|
| 3885 | |
---|
| 3886 | for (int i = 0; i < nDOF; ++i) { |
---|
| 3887 | for (int j = 0; j < nDOF; ++j) { |
---|
| 3888 | xMatrix[i][nDOF+j] *= invDiag[j]; |
---|
| 3889 | } |
---|
| 3890 | } |
---|
| 3891 | //compute a vector y which consists of the coefficients of the sinusoids forming the |
---|
[2081] | 3892 | //best-fit curves (a0,s1,c1,s2,c2,...), where a0 is constant and s* and c* are of sine |
---|
| 3893 | //and cosine functions, respectively. |
---|
[2047] | 3894 | std::vector<double> y; |
---|
[2081] | 3895 | params.clear(); |
---|
[2047] | 3896 | for (int i = 0; i < nDOF; ++i) { |
---|
| 3897 | y.push_back(0.0); |
---|
| 3898 | for (int j = 0; j < nDOF; ++j) { |
---|
| 3899 | y[i] += xMatrix[i][nDOF+j]*zMatrix[j]; |
---|
| 3900 | } |
---|
[2081] | 3901 | params.push_back(y[i]); |
---|
[2047] | 3902 | } |
---|
| 3903 | |
---|
| 3904 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 3905 | r1[i] = y[0]; |
---|
| 3906 | for (int j = 1; j < nDOF; ++j) { |
---|
| 3907 | r1[i] += y[j]*xArray[j][i]; |
---|
| 3908 | } |
---|
| 3909 | residual[i] = z1[i] - r1[i]; |
---|
[2047] | 3910 | } |
---|
| 3911 | |
---|
| 3912 | if ((nClip == nIterClip) || (thresClip <= 0.0)) { |
---|
| 3913 | break; |
---|
| 3914 | } else { |
---|
| 3915 | double stdDev = 0.0; |
---|
| 3916 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 3917 | stdDev += residual[i]*residual[i]*(double)maskArray[i]; |
---|
[2047] | 3918 | } |
---|
| 3919 | stdDev = sqrt(stdDev/(double)nData); |
---|
| 3920 | |
---|
| 3921 | double thres = stdDev * thresClip; |
---|
| 3922 | int newNData = 0; |
---|
| 3923 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 3924 | if (abs(residual[i]) >= thres) { |
---|
[2047] | 3925 | maskArray[i] = 0; |
---|
| 3926 | } |
---|
| 3927 | if (maskArray[i] > 0) { |
---|
| 3928 | newNData++; |
---|
| 3929 | } |
---|
| 3930 | } |
---|
[2081] | 3931 | if (newNData == nData) { |
---|
| 3932 | break; //no more flag to add. iteration stops. |
---|
[2047] | 3933 | } else { |
---|
[2081] | 3934 | nData = newNData; |
---|
[2047] | 3935 | } |
---|
| 3936 | } |
---|
[2012] | 3937 | } |
---|
| 3938 | |
---|
[2193] | 3939 | nClipped = initNData - nData; |
---|
| 3940 | |
---|
[2058] | 3941 | std::vector<float> result; |
---|
| 3942 | if (getResidual) { |
---|
| 3943 | for (int i = 0; i < nChan; ++i) { |
---|
[2081] | 3944 | result.push_back((float)residual[i]); |
---|
[2058] | 3945 | } |
---|
| 3946 | } else { |
---|
| 3947 | for (int i = 0; i < nChan; ++i) { |
---|
| 3948 | result.push_back((float)r1[i]); |
---|
| 3949 | } |
---|
[2047] | 3950 | } |
---|
| 3951 | |
---|
[2058] | 3952 | return result; |
---|
[2012] | 3953 | } |
---|
| 3954 | |
---|
[2047] | 3955 | void Scantable::fitBaseline(const std::vector<bool>& mask, int whichrow, Fitter& fitter) |
---|
| 3956 | { |
---|
[2081] | 3957 | std::vector<double> dAbcissa = getAbcissa(whichrow); |
---|
| 3958 | std::vector<float> abcissa; |
---|
| 3959 | for (uInt i = 0; i < dAbcissa.size(); ++i) { |
---|
| 3960 | abcissa.push_back((float)dAbcissa[i]); |
---|
[2047] | 3961 | } |
---|
| 3962 | std::vector<float> spec = getSpectrum(whichrow); |
---|
[2012] | 3963 | |
---|
[2081] | 3964 | fitter.setData(abcissa, spec, mask); |
---|
[2047] | 3965 | fitter.lfit(); |
---|
| 3966 | } |
---|
| 3967 | |
---|
| 3968 | std::vector<bool> Scantable::getCompositeChanMask(int whichrow, const std::vector<bool>& inMask) |
---|
| 3969 | { |
---|
[2591] | 3970 | /**** |
---|
| 3971 | double ms1TimeStart, ms1TimeEnd, ms2TimeStart, ms2TimeEnd; |
---|
| 3972 | double elapse1 = 0.0; |
---|
| 3973 | double elapse2 = 0.0; |
---|
| 3974 | |
---|
| 3975 | ms1TimeStart = mathutil::gettimeofday_sec(); |
---|
| 3976 | ****/ |
---|
| 3977 | |
---|
[2186] | 3978 | std::vector<bool> mask = getMask(whichrow); |
---|
[2591] | 3979 | |
---|
| 3980 | /**** |
---|
| 3981 | ms1TimeEnd = mathutil::gettimeofday_sec(); |
---|
| 3982 | elapse1 = ms1TimeEnd - ms1TimeStart; |
---|
| 3983 | std::cout << "ms1 : " << elapse1 << " (sec.)" << endl; |
---|
| 3984 | ms2TimeStart = mathutil::gettimeofday_sec(); |
---|
| 3985 | ****/ |
---|
| 3986 | |
---|
[2186] | 3987 | uInt maskSize = mask.size(); |
---|
[2410] | 3988 | if (inMask.size() != 0) { |
---|
| 3989 | if (maskSize != inMask.size()) { |
---|
| 3990 | throw(AipsError("mask sizes are not the same.")); |
---|
| 3991 | } |
---|
| 3992 | for (uInt i = 0; i < maskSize; ++i) { |
---|
| 3993 | mask[i] = mask[i] && inMask[i]; |
---|
| 3994 | } |
---|
[2047] | 3995 | } |
---|
| 3996 | |
---|
[2591] | 3997 | /**** |
---|
| 3998 | ms2TimeEnd = mathutil::gettimeofday_sec(); |
---|
| 3999 | elapse2 = ms2TimeEnd - ms2TimeStart; |
---|
| 4000 | std::cout << "ms2 : " << elapse2 << " (sec.)" << endl; |
---|
| 4001 | ****/ |
---|
| 4002 | |
---|
[2186] | 4003 | return mask; |
---|
[2047] | 4004 | } |
---|
| 4005 | |
---|
| 4006 | /* |
---|
| 4007 | std::vector<bool> Scantable::getCompositeChanMask(int whichrow, const std::vector<bool>& inMask, const std::vector<int>& edge, const int minEdgeSize, STLineFinder& lineFinder) |
---|
| 4008 | { |
---|
| 4009 | int edgeSize = edge.size(); |
---|
| 4010 | std::vector<int> currentEdge; |
---|
| 4011 | if (edgeSize >= 2) { |
---|
| 4012 | int idx = 0; |
---|
| 4013 | if (edgeSize > 2) { |
---|
| 4014 | if (edgeSize < minEdgeSize) { |
---|
| 4015 | throw(AipsError("Length of edge element info is less than that of IFs")); |
---|
| 4016 | } |
---|
| 4017 | idx = 2 * getIF(whichrow); |
---|
| 4018 | } |
---|
| 4019 | currentEdge.push_back(edge[idx]); |
---|
| 4020 | currentEdge.push_back(edge[idx+1]); |
---|
| 4021 | } else { |
---|
| 4022 | throw(AipsError("Wrong length of edge element")); |
---|
| 4023 | } |
---|
| 4024 | |
---|
| 4025 | lineFinder.setData(getSpectrum(whichrow)); |
---|
| 4026 | lineFinder.findLines(getCompositeChanMask(whichrow, inMask), currentEdge, whichrow); |
---|
| 4027 | |
---|
| 4028 | return lineFinder.getMask(); |
---|
| 4029 | } |
---|
| 4030 | */ |
---|
| 4031 | |
---|
| 4032 | /* for poly. the variations of outputFittingResult() should be merged into one eventually (2011/3/10 WK) */ |
---|
[2641] | 4033 | void Scantable::outputFittingResult(bool outLogger, bool outTextFile, bool csvFormat, const std::vector<bool>& chanMask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, ofstream& ofs, const casa::String& funcName, Fitter& fitter) |
---|
[2186] | 4034 | { |
---|
[2047] | 4035 | if (outLogger || outTextFile) { |
---|
| 4036 | std::vector<float> params = fitter.getParameters(); |
---|
| 4037 | std::vector<bool> fixed = fitter.getFixedParameters(); |
---|
| 4038 | float rms = getRms(chanMask, whichrow); |
---|
| 4039 | String masklist = getMaskRangeList(chanMask, whichrow, coordInfo, hasSameNchan); |
---|
| 4040 | |
---|
| 4041 | if (outLogger) { |
---|
| 4042 | LogIO ols(LogOrigin("Scantable", funcName, WHERE)); |
---|
[2641] | 4043 | ols << formatBaselineParams(params, fixed, rms, -1, masklist, whichrow, false, csvFormat) << LogIO::POST ; |
---|
[2047] | 4044 | } |
---|
| 4045 | if (outTextFile) { |
---|
[2641] | 4046 | ofs << formatBaselineParams(params, fixed, rms, -1, masklist, whichrow, true, csvFormat) << flush; |
---|
[2047] | 4047 | } |
---|
| 4048 | } |
---|
| 4049 | } |
---|
| 4050 | |
---|
| 4051 | /* for cspline. will be merged once cspline is available in fitter (2011/3/10 WK) */ |
---|
[2641] | 4052 | void Scantable::outputFittingResult(bool outLogger, bool outTextFile, bool csvFormat, const std::vector<bool>& chanMask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, ofstream& ofs, const casa::String& funcName, const std::vector<int>& edge, const std::vector<float>& params, const int nClipped) |
---|
[2186] | 4053 | { |
---|
[2047] | 4054 | if (outLogger || outTextFile) { |
---|
[2591] | 4055 | /**** |
---|
| 4056 | double ms1TimeStart, ms1TimeEnd, ms2TimeStart, ms2TimeEnd; |
---|
| 4057 | double elapse1 = 0.0; |
---|
| 4058 | double elapse2 = 0.0; |
---|
| 4059 | |
---|
| 4060 | ms1TimeStart = mathutil::gettimeofday_sec(); |
---|
| 4061 | ****/ |
---|
| 4062 | |
---|
[2047] | 4063 | float rms = getRms(chanMask, whichrow); |
---|
[2591] | 4064 | |
---|
| 4065 | /**** |
---|
| 4066 | ms1TimeEnd = mathutil::gettimeofday_sec(); |
---|
| 4067 | elapse1 = ms1TimeEnd - ms1TimeStart; |
---|
| 4068 | std::cout << "ot1 : " << elapse1 << " (sec.)" << endl; |
---|
| 4069 | ms2TimeStart = mathutil::gettimeofday_sec(); |
---|
| 4070 | ****/ |
---|
| 4071 | |
---|
[2047] | 4072 | String masklist = getMaskRangeList(chanMask, whichrow, coordInfo, hasSameNchan); |
---|
[2081] | 4073 | std::vector<bool> fixed; |
---|
| 4074 | fixed.clear(); |
---|
[2047] | 4075 | |
---|
| 4076 | if (outLogger) { |
---|
| 4077 | LogIO ols(LogOrigin("Scantable", funcName, WHERE)); |
---|
[2641] | 4078 | ols << formatPiecewiseBaselineParams(edge, params, fixed, rms, nClipped, masklist, whichrow, false, csvFormat) << LogIO::POST ; |
---|
[2047] | 4079 | } |
---|
| 4080 | if (outTextFile) { |
---|
[2641] | 4081 | ofs << formatPiecewiseBaselineParams(edge, params, fixed, rms, nClipped, masklist, whichrow, true, csvFormat) << flush; |
---|
[2047] | 4082 | } |
---|
[2591] | 4083 | |
---|
| 4084 | /**** |
---|
| 4085 | ms2TimeEnd = mathutil::gettimeofday_sec(); |
---|
| 4086 | elapse2 = ms2TimeEnd - ms2TimeStart; |
---|
| 4087 | std::cout << "ot2 : " << elapse2 << " (sec.)" << endl; |
---|
| 4088 | ****/ |
---|
| 4089 | |
---|
[2047] | 4090 | } |
---|
| 4091 | } |
---|
| 4092 | |
---|
[2645] | 4093 | /* for chebyshev/sinusoid. will be merged once chebyshev/sinusoid is available in fitter (2011/3/10 WK) */ |
---|
[2641] | 4094 | void Scantable::outputFittingResult(bool outLogger, bool outTextFile, bool csvFormat, const std::vector<bool>& chanMask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, ofstream& ofs, const casa::String& funcName, const std::vector<float>& params, const int nClipped) |
---|
[2186] | 4095 | { |
---|
[2047] | 4096 | if (outLogger || outTextFile) { |
---|
| 4097 | float rms = getRms(chanMask, whichrow); |
---|
| 4098 | String masklist = getMaskRangeList(chanMask, whichrow, coordInfo, hasSameNchan); |
---|
[2081] | 4099 | std::vector<bool> fixed; |
---|
| 4100 | fixed.clear(); |
---|
[2047] | 4101 | |
---|
| 4102 | if (outLogger) { |
---|
| 4103 | LogIO ols(LogOrigin("Scantable", funcName, WHERE)); |
---|
[2641] | 4104 | ols << formatBaselineParams(params, fixed, rms, nClipped, masklist, whichrow, false, csvFormat) << LogIO::POST ; |
---|
[2047] | 4105 | } |
---|
| 4106 | if (outTextFile) { |
---|
[2641] | 4107 | ofs << formatBaselineParams(params, fixed, rms, nClipped, masklist, whichrow, true, csvFormat) << flush; |
---|
[2047] | 4108 | } |
---|
| 4109 | } |
---|
| 4110 | } |
---|
| 4111 | |
---|
[2189] | 4112 | void Scantable::parseProgressInfo(const std::string& progressInfo, bool& showProgress, int& minNRow) |
---|
[2186] | 4113 | { |
---|
[2189] | 4114 | int idxDelimiter = progressInfo.find(","); |
---|
| 4115 | if (idxDelimiter < 0) { |
---|
| 4116 | throw(AipsError("wrong value in 'showprogress' parameter")) ; |
---|
| 4117 | } |
---|
| 4118 | showProgress = (progressInfo.substr(0, idxDelimiter) == "true"); |
---|
| 4119 | std::istringstream is(progressInfo.substr(idxDelimiter+1)); |
---|
| 4120 | is >> minNRow; |
---|
| 4121 | } |
---|
| 4122 | |
---|
| 4123 | void Scantable::showProgressOnTerminal(const int nProcessed, const int nTotal, const bool showProgress, const int nTotalThreshold) |
---|
| 4124 | { |
---|
| 4125 | if (showProgress && (nTotal >= nTotalThreshold)) { |
---|
[2186] | 4126 | int nInterval = int(floor(double(nTotal)/100.0)); |
---|
| 4127 | if (nInterval == 0) nInterval++; |
---|
| 4128 | |
---|
[2193] | 4129 | if (nProcessed % nInterval == 0) { |
---|
[2189] | 4130 | printf("\r"); //go to the head of line |
---|
[2186] | 4131 | printf("\x1b[31m\x1b[1m"); //set red color, highlighted |
---|
[2189] | 4132 | printf("[%3d%%]", (int)(100.0*(double(nProcessed+1))/(double(nTotal))) ); |
---|
| 4133 | printf("\x1b[39m\x1b[0m"); //set default attributes |
---|
[2186] | 4134 | fflush(NULL); |
---|
| 4135 | } |
---|
[2193] | 4136 | |
---|
[2186] | 4137 | if (nProcessed == nTotal - 1) { |
---|
| 4138 | printf("\r\x1b[K"); //clear |
---|
| 4139 | fflush(NULL); |
---|
| 4140 | } |
---|
[2193] | 4141 | |
---|
[2186] | 4142 | } |
---|
| 4143 | } |
---|
| 4144 | |
---|
| 4145 | std::vector<float> Scantable::execFFT(const int whichrow, const std::vector<bool>& inMask, bool getRealImag, bool getAmplitudeOnly) |
---|
| 4146 | { |
---|
| 4147 | std::vector<bool> mask = getMask(whichrow); |
---|
| 4148 | |
---|
| 4149 | if (inMask.size() > 0) { |
---|
| 4150 | uInt maskSize = mask.size(); |
---|
| 4151 | if (maskSize != inMask.size()) { |
---|
| 4152 | throw(AipsError("mask sizes are not the same.")); |
---|
| 4153 | } |
---|
| 4154 | for (uInt i = 0; i < maskSize; ++i) { |
---|
| 4155 | mask[i] = mask[i] && inMask[i]; |
---|
| 4156 | } |
---|
| 4157 | } |
---|
| 4158 | |
---|
| 4159 | Vector<Float> spec = getSpectrum(whichrow); |
---|
| 4160 | mathutil::doZeroOrderInterpolation(spec, mask); |
---|
| 4161 | |
---|
| 4162 | FFTServer<Float,Complex> ffts; |
---|
| 4163 | Vector<Complex> fftres; |
---|
| 4164 | ffts.fft0(fftres, spec); |
---|
| 4165 | |
---|
| 4166 | std::vector<float> res; |
---|
| 4167 | float norm = float(2.0/double(spec.size())); |
---|
| 4168 | |
---|
| 4169 | if (getRealImag) { |
---|
| 4170 | for (uInt i = 0; i < fftres.size(); ++i) { |
---|
| 4171 | res.push_back(real(fftres[i])*norm); |
---|
| 4172 | res.push_back(imag(fftres[i])*norm); |
---|
| 4173 | } |
---|
| 4174 | } else { |
---|
| 4175 | for (uInt i = 0; i < fftres.size(); ++i) { |
---|
| 4176 | res.push_back(abs(fftres[i])*norm); |
---|
| 4177 | if (!getAmplitudeOnly) res.push_back(arg(fftres[i])); |
---|
| 4178 | } |
---|
| 4179 | } |
---|
| 4180 | |
---|
| 4181 | return res; |
---|
| 4182 | } |
---|
| 4183 | |
---|
| 4184 | |
---|
| 4185 | float Scantable::getRms(const std::vector<bool>& mask, int whichrow) |
---|
| 4186 | { |
---|
[2591] | 4187 | /**** |
---|
| 4188 | double ms1TimeStart, ms1TimeEnd, ms2TimeStart, ms2TimeEnd; |
---|
| 4189 | double elapse1 = 0.0; |
---|
| 4190 | double elapse2 = 0.0; |
---|
| 4191 | |
---|
| 4192 | ms1TimeStart = mathutil::gettimeofday_sec(); |
---|
| 4193 | ****/ |
---|
| 4194 | |
---|
[2012] | 4195 | Vector<Float> spec; |
---|
[2591] | 4196 | |
---|
[2012] | 4197 | specCol_.get(whichrow, spec); |
---|
| 4198 | |
---|
[2591] | 4199 | /**** |
---|
| 4200 | ms1TimeEnd = mathutil::gettimeofday_sec(); |
---|
| 4201 | elapse1 = ms1TimeEnd - ms1TimeStart; |
---|
| 4202 | std::cout << "rm1 : " << elapse1 << " (sec.)" << endl; |
---|
| 4203 | ms2TimeStart = mathutil::gettimeofday_sec(); |
---|
| 4204 | ****/ |
---|
| 4205 | |
---|
[2012] | 4206 | float mean = 0.0; |
---|
| 4207 | float smean = 0.0; |
---|
| 4208 | int n = 0; |
---|
[2047] | 4209 | for (uInt i = 0; i < spec.nelements(); ++i) { |
---|
[2012] | 4210 | if (mask[i]) { |
---|
| 4211 | mean += spec[i]; |
---|
| 4212 | smean += spec[i]*spec[i]; |
---|
| 4213 | n++; |
---|
| 4214 | } |
---|
| 4215 | } |
---|
| 4216 | |
---|
| 4217 | mean /= (float)n; |
---|
| 4218 | smean /= (float)n; |
---|
| 4219 | |
---|
[2591] | 4220 | /**** |
---|
| 4221 | ms2TimeEnd = mathutil::gettimeofday_sec(); |
---|
| 4222 | elapse2 = ms2TimeEnd - ms2TimeStart; |
---|
| 4223 | std::cout << "rm2 : " << elapse2 << " (sec.)" << endl; |
---|
| 4224 | ****/ |
---|
| 4225 | |
---|
[2012] | 4226 | return sqrt(smean - mean*mean); |
---|
| 4227 | } |
---|
| 4228 | |
---|
| 4229 | |
---|
[2641] | 4230 | std::string Scantable::formatBaselineParamsHeader(int whichrow, const std::string& masklist, bool verbose, bool csvformat) const |
---|
[2012] | 4231 | { |
---|
[2641] | 4232 | if (verbose) { |
---|
| 4233 | ostringstream oss; |
---|
[2012] | 4234 | |
---|
[2641] | 4235 | if (csvformat) { |
---|
| 4236 | oss << getScan(whichrow) << ","; |
---|
| 4237 | oss << getBeam(whichrow) << ","; |
---|
| 4238 | oss << getIF(whichrow) << ","; |
---|
| 4239 | oss << getPol(whichrow) << ","; |
---|
| 4240 | oss << getCycle(whichrow) << ","; |
---|
| 4241 | String commaReplacedMasklist = masklist; |
---|
| 4242 | string::size_type pos = 0; |
---|
| 4243 | while (pos = commaReplacedMasklist.find(","), pos != string::npos) { |
---|
| 4244 | commaReplacedMasklist.replace(pos, 1, ";"); |
---|
| 4245 | pos++; |
---|
| 4246 | } |
---|
| 4247 | oss << commaReplacedMasklist << ","; |
---|
| 4248 | } else { |
---|
| 4249 | oss << " Scan[" << getScan(whichrow) << "]"; |
---|
| 4250 | oss << " Beam[" << getBeam(whichrow) << "]"; |
---|
| 4251 | oss << " IF[" << getIF(whichrow) << "]"; |
---|
| 4252 | oss << " Pol[" << getPol(whichrow) << "]"; |
---|
| 4253 | oss << " Cycle[" << getCycle(whichrow) << "]: " << endl; |
---|
| 4254 | oss << "Fitter range = " << masklist << endl; |
---|
| 4255 | oss << "Baseline parameters" << endl; |
---|
| 4256 | } |
---|
[2012] | 4257 | oss << flush; |
---|
[2641] | 4258 | |
---|
| 4259 | return String(oss); |
---|
[2012] | 4260 | } |
---|
| 4261 | |
---|
[2641] | 4262 | return ""; |
---|
[2012] | 4263 | } |
---|
| 4264 | |
---|
[2641] | 4265 | std::string Scantable::formatBaselineParamsFooter(float rms, int nClipped, bool verbose, bool csvformat) const |
---|
[2012] | 4266 | { |
---|
[2641] | 4267 | if (verbose) { |
---|
| 4268 | ostringstream oss; |
---|
[2012] | 4269 | |
---|
[2641] | 4270 | if (csvformat) { |
---|
| 4271 | oss << rms << ","; |
---|
| 4272 | if (nClipped >= 0) { |
---|
| 4273 | oss << nClipped; |
---|
| 4274 | } |
---|
| 4275 | } else { |
---|
| 4276 | oss << "Results of baseline fit" << endl; |
---|
| 4277 | oss << " rms = " << setprecision(6) << rms << endl; |
---|
| 4278 | if (nClipped >= 0) { |
---|
| 4279 | oss << " Number of clipped channels = " << nClipped << endl; |
---|
| 4280 | } |
---|
| 4281 | for (int i = 0; i < 60; ++i) { |
---|
| 4282 | oss << "-"; |
---|
| 4283 | } |
---|
[2193] | 4284 | } |
---|
[2131] | 4285 | oss << endl; |
---|
[2094] | 4286 | oss << flush; |
---|
[2641] | 4287 | |
---|
| 4288 | return String(oss); |
---|
[2012] | 4289 | } |
---|
| 4290 | |
---|
[2641] | 4291 | return ""; |
---|
[2012] | 4292 | } |
---|
| 4293 | |
---|
[2186] | 4294 | std::string Scantable::formatBaselineParams(const std::vector<float>& params, |
---|
| 4295 | const std::vector<bool>& fixed, |
---|
| 4296 | float rms, |
---|
[2193] | 4297 | int nClipped, |
---|
[2186] | 4298 | const std::string& masklist, |
---|
| 4299 | int whichrow, |
---|
| 4300 | bool verbose, |
---|
[2641] | 4301 | bool csvformat, |
---|
[2186] | 4302 | int start, int count, |
---|
| 4303 | bool resetparamid) const |
---|
[2047] | 4304 | { |
---|
[2064] | 4305 | int nParam = (int)(params.size()); |
---|
[2047] | 4306 | |
---|
[2064] | 4307 | if (nParam < 1) { |
---|
| 4308 | return(" Not fitted"); |
---|
| 4309 | } else { |
---|
| 4310 | |
---|
| 4311 | ostringstream oss; |
---|
[2641] | 4312 | oss << formatBaselineParamsHeader(whichrow, masklist, verbose, csvformat); |
---|
[2064] | 4313 | |
---|
| 4314 | if (start < 0) start = 0; |
---|
| 4315 | if (count < 0) count = nParam; |
---|
| 4316 | int end = start + count; |
---|
| 4317 | if (end > nParam) end = nParam; |
---|
| 4318 | int paramidoffset = (resetparamid) ? (-start) : 0; |
---|
| 4319 | |
---|
| 4320 | for (int i = start; i < end; ++i) { |
---|
| 4321 | if (i > start) { |
---|
[2047] | 4322 | oss << ","; |
---|
| 4323 | } |
---|
[2064] | 4324 | std::string sFix = ((fixed.size() > 0) && (fixed[i]) && verbose) ? "(fixed)" : ""; |
---|
[2641] | 4325 | if (csvformat) { |
---|
| 4326 | oss << params[i] << sFix; |
---|
| 4327 | } else { |
---|
| 4328 | oss << " p" << (i+paramidoffset) << sFix << "= " << right << setw(13) << setprecision(6) << params[i]; |
---|
| 4329 | } |
---|
[2047] | 4330 | } |
---|
[2064] | 4331 | |
---|
[2641] | 4332 | if (csvformat) { |
---|
| 4333 | oss << ","; |
---|
[2644] | 4334 | } else { |
---|
| 4335 | oss << endl; |
---|
[2641] | 4336 | } |
---|
| 4337 | oss << formatBaselineParamsFooter(rms, nClipped, verbose, csvformat); |
---|
[2064] | 4338 | |
---|
| 4339 | return String(oss); |
---|
[2047] | 4340 | } |
---|
| 4341 | |
---|
| 4342 | } |
---|
| 4343 | |
---|
[2641] | 4344 | std::string Scantable::formatPiecewiseBaselineParams(const std::vector<int>& ranges, const std::vector<float>& params, const std::vector<bool>& fixed, float rms, int nClipped, const std::string& masklist, int whichrow, bool verbose, bool csvformat) const |
---|
[2012] | 4345 | { |
---|
[2064] | 4346 | int nOutParam = (int)(params.size()); |
---|
| 4347 | int nPiece = (int)(ranges.size()) - 1; |
---|
[2012] | 4348 | |
---|
[2064] | 4349 | if (nOutParam < 1) { |
---|
| 4350 | return(" Not fitted"); |
---|
| 4351 | } else if (nPiece < 0) { |
---|
[2641] | 4352 | return formatBaselineParams(params, fixed, rms, nClipped, masklist, whichrow, verbose, csvformat); |
---|
[2064] | 4353 | } else if (nPiece < 1) { |
---|
| 4354 | return(" Bad count of the piece edge info"); |
---|
| 4355 | } else if (nOutParam % nPiece != 0) { |
---|
| 4356 | return(" Bad count of the output baseline parameters"); |
---|
| 4357 | } else { |
---|
| 4358 | |
---|
| 4359 | int nParam = nOutParam / nPiece; |
---|
| 4360 | |
---|
| 4361 | ostringstream oss; |
---|
[2641] | 4362 | oss << formatBaselineParamsHeader(whichrow, masklist, verbose, csvformat); |
---|
[2064] | 4363 | |
---|
[2641] | 4364 | if (csvformat) { |
---|
| 4365 | for (int i = 0; i < nPiece; ++i) { |
---|
| 4366 | oss << ranges[i] << "," << (ranges[i+1]-1) << ","; |
---|
| 4367 | oss << formatBaselineParams(params, fixed, rms, 0, masklist, whichrow, false, csvformat, i*nParam, nParam, true); |
---|
| 4368 | } |
---|
| 4369 | } else { |
---|
| 4370 | stringstream ss; |
---|
| 4371 | ss << ranges[nPiece] << flush; |
---|
| 4372 | int wRange = ss.str().size() * 2 + 5; |
---|
[2064] | 4373 | |
---|
[2641] | 4374 | for (int i = 0; i < nPiece; ++i) { |
---|
| 4375 | ss.str(""); |
---|
| 4376 | ss << " [" << ranges[i] << "," << (ranges[i+1]-1) << "]"; |
---|
| 4377 | oss << left << setw(wRange) << ss.str(); |
---|
| 4378 | oss << formatBaselineParams(params, fixed, rms, 0, masklist, whichrow, false, csvformat, i*nParam, nParam, true); |
---|
[2644] | 4379 | //oss << endl; |
---|
[2641] | 4380 | } |
---|
[2012] | 4381 | } |
---|
[2064] | 4382 | |
---|
[2641] | 4383 | oss << formatBaselineParamsFooter(rms, nClipped, verbose, csvformat); |
---|
[2064] | 4384 | |
---|
| 4385 | return String(oss); |
---|
[2012] | 4386 | } |
---|
| 4387 | |
---|
| 4388 | } |
---|
| 4389 | |
---|
[2047] | 4390 | bool Scantable::hasSameNchanOverIFs() |
---|
[2012] | 4391 | { |
---|
[2047] | 4392 | int nIF = nif(-1); |
---|
| 4393 | int nCh; |
---|
| 4394 | int totalPositiveNChan = 0; |
---|
| 4395 | int nPositiveNChan = 0; |
---|
[2012] | 4396 | |
---|
[2047] | 4397 | for (int i = 0; i < nIF; ++i) { |
---|
| 4398 | nCh = nchan(i); |
---|
| 4399 | if (nCh > 0) { |
---|
| 4400 | totalPositiveNChan += nCh; |
---|
| 4401 | nPositiveNChan++; |
---|
[2012] | 4402 | } |
---|
| 4403 | } |
---|
| 4404 | |
---|
[2047] | 4405 | return (totalPositiveNChan == (nPositiveNChan * nchan(0))); |
---|
[2012] | 4406 | } |
---|
| 4407 | |
---|
[2047] | 4408 | std::string Scantable::getMaskRangeList(const std::vector<bool>& mask, int whichrow, const casa::String& coordInfo, bool hasSameNchan, bool verbose) |
---|
[2012] | 4409 | { |
---|
[2427] | 4410 | if (mask.size() <= 0) { |
---|
| 4411 | throw(AipsError("The mask elements should be > 0")); |
---|
[2012] | 4412 | } |
---|
[2047] | 4413 | int IF = getIF(whichrow); |
---|
| 4414 | if (mask.size() != (uInt)nchan(IF)) { |
---|
[2012] | 4415 | throw(AipsError("Number of channels in scantable != number of mask elements")); |
---|
| 4416 | } |
---|
| 4417 | |
---|
[2047] | 4418 | if (verbose) { |
---|
[2012] | 4419 | LogIO logOs(LogOrigin("Scantable", "getMaskRangeList()", WHERE)); |
---|
| 4420 | logOs << LogIO::WARN << "The current mask window unit is " << coordInfo; |
---|
| 4421 | if (!hasSameNchan) { |
---|
[2047] | 4422 | logOs << endl << "This mask is only valid for IF=" << IF; |
---|
[2012] | 4423 | } |
---|
| 4424 | logOs << LogIO::POST; |
---|
| 4425 | } |
---|
| 4426 | |
---|
| 4427 | std::vector<double> abcissa = getAbcissa(whichrow); |
---|
[2047] | 4428 | std::vector<int> edge = getMaskEdgeIndices(mask); |
---|
| 4429 | |
---|
[2012] | 4430 | ostringstream oss; |
---|
| 4431 | oss.setf(ios::fixed); |
---|
| 4432 | oss << setprecision(1) << "["; |
---|
[2047] | 4433 | for (uInt i = 0; i < edge.size(); i+=2) { |
---|
[2012] | 4434 | if (i > 0) oss << ","; |
---|
[2047] | 4435 | oss << "[" << (float)abcissa[edge[i]] << "," << (float)abcissa[edge[i+1]] << "]"; |
---|
[2012] | 4436 | } |
---|
| 4437 | oss << "]" << flush; |
---|
| 4438 | |
---|
| 4439 | return String(oss); |
---|
| 4440 | } |
---|
| 4441 | |
---|
[2047] | 4442 | std::vector<int> Scantable::getMaskEdgeIndices(const std::vector<bool>& mask) |
---|
[2012] | 4443 | { |
---|
[2427] | 4444 | if (mask.size() <= 0) { |
---|
| 4445 | throw(AipsError("The mask elements should be > 0")); |
---|
[2012] | 4446 | } |
---|
| 4447 | |
---|
[2047] | 4448 | std::vector<int> out, startIndices, endIndices; |
---|
| 4449 | int maskSize = mask.size(); |
---|
[2012] | 4450 | |
---|
[2047] | 4451 | startIndices.clear(); |
---|
| 4452 | endIndices.clear(); |
---|
| 4453 | |
---|
| 4454 | if (mask[0]) { |
---|
| 4455 | startIndices.push_back(0); |
---|
[2012] | 4456 | } |
---|
[2047] | 4457 | for (int i = 1; i < maskSize; ++i) { |
---|
| 4458 | if ((!mask[i-1]) && mask[i]) { |
---|
| 4459 | startIndices.push_back(i); |
---|
| 4460 | } else if (mask[i-1] && (!mask[i])) { |
---|
| 4461 | endIndices.push_back(i-1); |
---|
| 4462 | } |
---|
[2012] | 4463 | } |
---|
[2047] | 4464 | if (mask[maskSize-1]) { |
---|
| 4465 | endIndices.push_back(maskSize-1); |
---|
| 4466 | } |
---|
[2012] | 4467 | |
---|
[2047] | 4468 | if (startIndices.size() != endIndices.size()) { |
---|
| 4469 | throw(AipsError("Inconsistent Mask Size: bad data?")); |
---|
| 4470 | } |
---|
| 4471 | for (uInt i = 0; i < startIndices.size(); ++i) { |
---|
| 4472 | if (startIndices[i] > endIndices[i]) { |
---|
| 4473 | throw(AipsError("Mask start index > mask end index")); |
---|
[2012] | 4474 | } |
---|
| 4475 | } |
---|
| 4476 | |
---|
[2047] | 4477 | out.clear(); |
---|
| 4478 | for (uInt i = 0; i < startIndices.size(); ++i) { |
---|
| 4479 | out.push_back(startIndices[i]); |
---|
| 4480 | out.push_back(endIndices[i]); |
---|
| 4481 | } |
---|
| 4482 | |
---|
[2012] | 4483 | return out; |
---|
| 4484 | } |
---|
| 4485 | |
---|
[2161] | 4486 | vector<float> Scantable::getTsysSpectrum( int whichrow ) const |
---|
| 4487 | { |
---|
| 4488 | Vector<Float> tsys( tsysCol_(whichrow) ) ; |
---|
| 4489 | vector<float> stlTsys ; |
---|
| 4490 | tsys.tovector( stlTsys ) ; |
---|
| 4491 | return stlTsys ; |
---|
| 4492 | } |
---|
[2012] | 4493 | |
---|
[2591] | 4494 | vector<uint> Scantable::getMoleculeIdColumnData() const |
---|
| 4495 | { |
---|
| 4496 | Vector<uInt> molIds(mmolidCol_.getColumn()); |
---|
| 4497 | vector<uint> res; |
---|
| 4498 | molIds.tovector(res); |
---|
| 4499 | return res; |
---|
| 4500 | } |
---|
[2012] | 4501 | |
---|
[2591] | 4502 | void Scantable::setMoleculeIdColumnData(const std::vector<uint>& molids) |
---|
| 4503 | { |
---|
| 4504 | Vector<uInt> molIds(molids); |
---|
| 4505 | Vector<uInt> arr(mmolidCol_.getColumn()); |
---|
| 4506 | if ( molIds.nelements() != arr.nelements() ) |
---|
| 4507 | throw AipsError("The input data size must be the number of rows."); |
---|
| 4508 | mmolidCol_.putColumn(molIds); |
---|
[1907] | 4509 | } |
---|
[2591] | 4510 | |
---|
| 4511 | |
---|
| 4512 | } |
---|
[1819] | 4513 | //namespace asap |
---|