source: trunk/src/SDMemTable.cc@ 439

Last change on this file since 439 was 439, checked in by kil064, 20 years ago

make stokesCOl_ read only
add toStokes arg. to function rowAsMaskedArry

  • Property svn:eol-style set to native
  • Property svn:keywords set to Author Date Id Revision
File size: 46.3 KB
RevLine 
[2]1//#---------------------------------------------------------------------------
2//# SDMemTable.cc: A MemoryTable container for single dish integrations
3//#---------------------------------------------------------------------------
4//# Copyright (C) 2004
[125]5//# ATNF
[2]6//#
7//# This program is free software; you can redistribute it and/or modify it
8//# under the terms of the GNU General Public License as published by the Free
9//# Software Foundation; either version 2 of the License, or (at your option)
10//# any later version.
11//#
12//# This program is distributed in the hope that it will be useful, but
13//# WITHOUT ANY WARRANTY; without even the implied warranty of
14//# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General
15//# Public License for more details.
16//#
17//# You should have received a copy of the GNU General Public License along
18//# with this program; if not, write to the Free Software Foundation, Inc.,
19//# 675 Massachusetts Ave, Cambridge, MA 02139, USA.
20//#
21//# Correspondence concerning this software should be addressed as follows:
22//# Internet email: Malte.Marquarding@csiro.au
23//# Postal address: Malte Marquarding,
24//# Australia Telescope National Facility,
25//# P.O. Box 76,
26//# Epping, NSW, 2121,
27//# AUSTRALIA
28//#
29//# $Id:
30//#---------------------------------------------------------------------------
31
[206]32#include <map>
33
[125]34#include <casa/aips.h>
[80]35#include <casa/iostream.h>
36#include <casa/iomanip.h>
37#include <casa/Arrays/Array.h>
38#include <casa/Arrays/ArrayMath.h>
39#include <casa/Arrays/MaskArrMath.h>
40#include <casa/Arrays/ArrayLogical.h>
41#include <casa/Arrays/ArrayAccessor.h>
[206]42#include <casa/Arrays/Vector.h>
[418]43#include <casa/BasicMath/Math.h>
[286]44#include <casa/Quanta/MVAngle.h>
[2]45
[80]46#include <tables/Tables/TableParse.h>
47#include <tables/Tables/TableDesc.h>
48#include <tables/Tables/SetupNewTab.h>
49#include <tables/Tables/ScaColDesc.h>
50#include <tables/Tables/ArrColDesc.h>
[2]51
[80]52#include <tables/Tables/ExprNode.h>
53#include <tables/Tables/TableRecord.h>
54#include <measures/Measures/MFrequency.h>
55#include <measures/Measures/MeasTable.h>
[105]56#include <coordinates/Coordinates/CoordinateUtil.h>
[80]57#include <casa/Quanta/MVTime.h>
[281]58#include <casa/Quanta/MVAngle.h>
[2]59
[215]60#include "SDDefs.h"
[2]61#include "SDMemTable.h"
62#include "SDContainer.h"
[365]63#include "MathUtils.h"
[418]64#include "SDPol.h"
[2]65
[206]66
[125]67using namespace casa;
[83]68using namespace asap;
[2]69
[18]70SDMemTable::SDMemTable() :
71 IFSel_(0),
72 beamSel_(0),
[206]73 polSel_(0)
74{
[18]75 setup();
[322]76 attach();
[18]77}
[206]78
[2]79SDMemTable::SDMemTable(const std::string& name) :
80 IFSel_(0),
81 beamSel_(0),
[206]82 polSel_(0)
83{
[50]84 Table tab(name);
[22]85 table_ = tab.copyToMemoryTable("dummy");
[206]86 //cerr << "hello from C SDMemTable @ " << this << endl;
[329]87 attach();
[2]88}
89
[206]90SDMemTable::SDMemTable(const SDMemTable& other, Bool clear)
91{
[148]92 IFSel_= other.IFSel_;
93 beamSel_= other.beamSel_;
94 polSel_= other.polSel_;
95 chanMask_ = other.chanMask_;
96 table_ = other.table_.copyToMemoryTable(String("dummy"));
[2]97 // clear all rows()
[16]98 if (clear) {
[148]99 table_.removeRow(this->table_.rowNumbers());
[16]100 } else {
[148]101 IFSel_ = other.IFSel_;
102 beamSel_ = other.beamSel_;
103 polSel_ = other.polSel_;
[16]104 }
[322]105//
106 attach();
[206]107 //cerr << "hello from CC SDMemTable @ " << this << endl;
[2]108}
109
[80]110SDMemTable::SDMemTable(const Table& tab, const std::string& exprs) :
[2]111 IFSel_(0),
112 beamSel_(0),
[206]113 polSel_(0)
114{
[380]115 cout << exprs << endl;
[2]116 Table t = tableCommand(exprs,tab);
[89]117 if (t.nrow() == 0)
118 throw(AipsError("Query unsuccessful."));
[22]119 table_ = t.copyToMemoryTable("dummy");
[329]120 attach();
[380]121 renumber();
[2]122}
123
[206]124SDMemTable::~SDMemTable()
125{
[105]126 //cerr << "goodbye from SDMemTable @ " << this << endl;
[2]127}
128
[206]129SDMemTable SDMemTable::getScan(Int scanID) const
130{
[80]131 String cond("SELECT * from $1 WHERE SCANID == ");
132 cond += String::toString(scanID);
133 return SDMemTable(table_, cond);
[2]134}
135
[206]136SDMemTable &SDMemTable::operator=(const SDMemTable& other)
137{
[148]138 if (this != &other) {
139 IFSel_= other.IFSel_;
140 beamSel_= other.beamSel_;
141 polSel_= other.polSel_;
142 chanMask_.resize(0);
143 chanMask_ = other.chanMask_;
144 table_ = other.table_.copyToMemoryTable(String("dummy"));
[322]145 attach();
[206]146 }
147 //cerr << "hello from ASS SDMemTable @ " << this << endl;
[138]148 return *this;
149}
150
[206]151SDMemTable SDMemTable::getSource(const std::string& source) const
152{
[80]153 String cond("SELECT * from $1 WHERE SRCNAME == ");
154 cond += source;
155 return SDMemTable(table_, cond);
156}
157
[206]158void SDMemTable::setup()
159{
[2]160 TableDesc td("", "1", TableDesc::Scratch);
161 td.comment() = "A SDMemTable";
[322]162//
[2]163 td.addColumn(ScalarColumnDesc<Double>("TIME"));
164 td.addColumn(ScalarColumnDesc<String>("SRCNAME"));
165 td.addColumn(ArrayColumnDesc<Float>("SPECTRA"));
166 td.addColumn(ArrayColumnDesc<uChar>("FLAGTRA"));
[89]167 td.addColumn(ArrayColumnDesc<Float>("TSYS"));
[418]168 td.addColumn(ArrayColumnDesc<Float>("STOKES"));
[89]169 td.addColumn(ScalarColumnDesc<Int>("SCANID"));
170 td.addColumn(ScalarColumnDesc<Double>("INTERVAL"));
[39]171 td.addColumn(ArrayColumnDesc<uInt>("FREQID"));
[386]172 td.addColumn(ArrayColumnDesc<uInt>("RESTFREQID"));
[78]173 td.addColumn(ArrayColumnDesc<Double>("DIRECTION"));
[105]174 td.addColumn(ScalarColumnDesc<String>("FIELDNAME"));
175 td.addColumn(ScalarColumnDesc<String>("TCALTIME"));
176 td.addColumn(ArrayColumnDesc<Float>("TCAL"));
177 td.addColumn(ScalarColumnDesc<Float>("AZIMUTH"));
178 td.addColumn(ScalarColumnDesc<Float>("ELEVATION"));
179 td.addColumn(ScalarColumnDesc<Float>("PARANGLE"));
180 td.addColumn(ScalarColumnDesc<Int>("REFBEAM"));
[206]181 td.addColumn(ArrayColumnDesc<String>("HISTORY"));
[105]182
[418]183 // Now create Table SetUp from the description.
[18]184
[22]185 SetupNewTable aNewTab("dummy", td, Table::New);
[418]186
187// Bind the Stokes Virtual machine to the STOKES column
188// Because we don't know how many polarizations will
189// be in the data at this point, we must bind the
190// Virtual Engine regardless. The STOKES column won't
191// be accessed if not appropriate (nPol=4)
192
193 SDStokesEngine stokesEngine(String("STOKES"), String("SPECTRA"));
194 aNewTab.bindColumn ("STOKES", stokesEngine);
195
196// Create Table
197
[89]198 table_ = Table(aNewTab, Table::Memory, 0);
[2]199}
200
[418]201
[380]202void SDMemTable::attach()
[322]203{
204 timeCol_.attach(table_, "TIME");
205 srcnCol_.attach(table_, "SRCNAME");
206 specCol_.attach(table_, "SPECTRA");
207 flagsCol_.attach(table_, "FLAGTRA");
208 tsCol_.attach(table_, "TSYS");
[418]209 stokesCol_.attach(table_, "STOKES");
[322]210 scanCol_.attach(table_, "SCANID");
211 integrCol_.attach(table_, "INTERVAL");
212 freqidCol_.attach(table_, "FREQID");
[386]213 restfreqidCol_.attach(table_, "RESTFREQID");
[322]214 dirCol_.attach(table_, "DIRECTION");
215 fldnCol_.attach(table_, "FIELDNAME");
216 tcaltCol_.attach(table_, "TCALTIME");
217 tcalCol_.attach(table_, "TCAL");
218 azCol_.attach(table_, "AZIMUTH");
219 elCol_.attach(table_, "ELEVATION");
220 paraCol_.attach(table_, "PARANGLE");
221 rbeamCol_.attach(table_, "REFBEAM");
222 histCol_.attach(table_, "HISTORY");
223}
224
225
[206]226std::string SDMemTable::getSourceName(Int whichRow) const
227{
[2]228 String name;
[322]229 srcnCol_.get(whichRow, name);
[2]230 return name;
231}
232
[281]233std::string SDMemTable::getTime(Int whichRow, Bool showDate) const
[206]234{
[2]235 Double tm;
[281]236 if (whichRow > -1) {
[322]237 timeCol_.get(whichRow, tm);
[281]238 } else {
239 table_.keywordSet().get("UTC",tm);
240 }
[50]241 MVTime mvt(tm);
[281]242 if (showDate)
243 mvt.setFormat(MVTime::YMD);
244 else
245 mvt.setFormat(MVTime::TIME);
[50]246 ostringstream oss;
247 oss << mvt;
[281]248 return String(oss);
[2]249}
[281]250
[206]251double SDMemTable::getInterval(Int whichRow) const
252{
[50]253 Double intval;
[322]254 integrCol_.get(whichRow, intval);
[50]255 return intval;
256}
[2]257
[206]258bool SDMemTable::setIF(Int whichIF)
259{
[50]260 if ( whichIF >= 0 && whichIF < nIF()) {
[2]261 IFSel_ = whichIF;
262 return true;
[50]263 }
264 return false;
[2]265}
[50]266
[206]267bool SDMemTable::setBeam(Int whichBeam)
268{
[50]269 if ( whichBeam >= 0 && whichBeam < nBeam()) {
[2]270 beamSel_ = whichBeam;
271 return true;
[50]272 }
273 return false;
274}
[2]275
[206]276bool SDMemTable::setPol(Int whichPol)
277{
[50]278 if ( whichPol >= 0 && whichPol < nPol()) {
[2]279 polSel_ = whichPol;
280 return true;
[50]281 }
282 return false;
[2]283}
284
[380]285void SDMemTable::resetCursor()
[303]286{
287 polSel_ = 0;
288 IFSel_ = 0;
289 beamSel_ = 0;
290}
291
[206]292bool SDMemTable::setMask(std::vector<int> whichChans)
293{
[16]294 std::vector<int>::iterator it;
[322]295 uInt n = flagsCol_.shape(0)(3);
[105]296 if (whichChans.empty()) {
297 chanMask_ = std::vector<bool>(n,true);
298 return true;
299 }
[16]300 chanMask_.resize(n,true);
[39]301 for (it = whichChans.begin(); it != whichChans.end(); ++it) {
[105]302 if (*it < n) {
[16]303 chanMask_[*it] = false;
[105]304 }
[16]305 }
[2]306 return true;
307}
308
[16]309std::vector<bool> SDMemTable::getMask(Int whichRow) const {
310 std::vector<bool> mask;
311 Array<uChar> arr;
[322]312 flagsCol_.get(whichRow, arr);
[206]313 ArrayAccessor<uChar, Axis<asap::BeamAxis> > aa0(arr);
[16]314 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
[206]315 ArrayAccessor<uChar, Axis<asap::IFAxis> > aa1(aa0);
[16]316 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
[206]317 ArrayAccessor<uChar, Axis<asap::PolAxis> > aa2(aa1);
[16]318 aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
319
320 Bool useUserMask = ( chanMask_.size() == arr.shape()(3) );
321
322 std::vector<bool> tmp;
323 tmp = chanMask_; // WHY the fxxx do I have to make a copy here
324 std::vector<bool>::iterator miter;
325 miter = tmp.begin();
326
[206]327 for (ArrayAccessor<uChar, Axis<asap::ChanAxis> > i(aa2); i != i.end(); ++i) {
[16]328 bool out =!static_cast<bool>(*i);
329 if (useUserMask) {
330 out = out && (*miter);
331 miter++;
332 }
333 mask.push_back(out);
[89]334 }
[16]335 return mask;
[2]336}
[418]337
338
339
[206]340std::vector<float> SDMemTable::getSpectrum(Int whichRow) const
341{
[430]342
[2]343 Array<Float> arr;
[322]344 specCol_.get(whichRow, arr);
[418]345 return getFloatSpectrum (arr);
346}
347
[426]348std::vector<float> SDMemTable::getStokesSpectrum(Int whichRow, Bool doPol, Float paOffset) const
[418]349//
350// Gets
351// doPol=False : I,Q,U,V
352// doPol=True : I,P,PA,V ; P = sqrt(Q**2+U**2), PA = 0.5*atan2(Q,U)
353//
354{
[430]355 AlwaysAssert(asap::nAxes==4,AipsError);
[428]356 if (nPol()!=1 && nPol()!=2 && nPol()!=4) {
357 throw (AipsError("You must have 1,2 or 4 polarizations to get the Stokes parameters"));
[418]358 }
359 Array<Float> arr;
360 stokesCol_.get(whichRow, arr);
361//
[430]362 if (doPol && (polSel_==1 || polSel_==2)) { // Q,U --> P, P.A.
363
364// Set current cursor location
365
[418]366 const IPosition& shape = arr.shape();
[430]367 IPosition start, end;
368 setCursorSlice (start, end, shape);
369
370// Get Q and U slices
371
372 Array<Float> Q = SDPolUtil::getStokesSlice (arr,start,end,"Q");
373 Array<Float> U = SDPolUtil::getStokesSlice (arr,start,end,"U");
374
375// Compute output
376
[418]377 Array<Float> out;
378 if (polSel_==1) { // P
379 out = SDPolUtil::polarizedIntensity(Q,U);
380 } else if (polSel_==2) { // P.A.
[426]381 out = SDPolUtil::positionAngle(Q,U) + paOffset;
[418]382 }
[430]383
384// Copy to output
385
[418]386 IPosition vecShape(1,shape(asap::ChanAxis));
387 Vector<Float> outV = out.reform(vecShape);
[430]388 return convertVector(outV);
[418]389 } else {
[430]390
391// Selects at the cursor location
392
393 return getFloatSpectrum (arr);
[418]394 }
395}
396
[430]397std::vector<float> SDMemTable::getCircularSpectrum(Int whichRow, Bool doRR) const
398//
399// Gets
400// RR = I + V
401// LL = I - V
402//
403{
404 AlwaysAssert(asap::nAxes==4,AipsError);
405 if (nPol()!=4) {
406 throw (AipsError("You must have 4 polarizations to get RR or LL"));
407 }
408 Array<Float> arr;
409 stokesCol_.get(whichRow, arr);
410
411// Set current cursor location
412
413 const IPosition& shape = arr.shape();
414 IPosition start, end;
415 setCursorSlice (start, end, shape);
416
417// Get I and V slices
418
419 Array<Float> I = SDPolUtil::getStokesSlice (arr,start,end,"I");
420 Array<Float> V = SDPolUtil::getStokesSlice (arr,start,end,"V");
421
422// Compute output
423
424 Array<Float> out = SDPolUtil::circularPolarizationFromStokes (I, V, doRR);
425
426// Copy to output
427
428 IPosition vecShape(1,shape(asap::ChanAxis));
429 Vector<Float> outV = out.reform(vecShape);
430 return convertVector(outV);
431}
432
[418]433std::vector<float> SDMemTable::getFloatSpectrum (const Array<Float>& arr) const
[430]434//
435// Get spectrum at cursor location
436//
[418]437{
438
439// Iterate and extract
440
[206]441 ArrayAccessor<Float, Axis<asap::BeamAxis> > aa0(arr);
[2]442 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
[206]443 ArrayAccessor<Float, Axis<asap::IFAxis> > aa1(aa0);
[2]444 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
[206]445 ArrayAccessor<Float, Axis<asap::PolAxis> > aa2(aa1);
[16]446 aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
[418]447//
448 std::vector<float> spectrum;
[206]449 for (ArrayAccessor<Float, Axis<asap::ChanAxis> > i(aa2); i != i.end(); ++i) {
[16]450 spectrum.push_back(*i);
[2]451 }
452 return spectrum;
453}
[418]454
455
[206]456std::vector<string> SDMemTable::getCoordInfo() const
457{
[105]458 String un;
459 Table t = table_.keywordSet().asTable("FREQUENCIES");
460 String sunit;
461 t.keywordSet().get("UNIT",sunit);
462 String dpl;
463 t.keywordSet().get("DOPPLER",dpl);
464 if (dpl == "") dpl = "RADIO";
465 String rfrm;
466 t.keywordSet().get("REFFRAME",rfrm);
467 std::vector<string> inf;
468 inf.push_back(sunit);
469 inf.push_back(rfrm);
470 inf.push_back(dpl);
[263]471 t.keywordSet().get("BASEREFFRAME",rfrm);
472 inf.push_back(rfrm);
[105]473 return inf;
474}
[39]475
[206]476void SDMemTable::setCoordInfo(std::vector<string> theinfo)
477{
[105]478 std::vector<string>::iterator it;
[306]479 String un,rfrm, brfrm,dpl;
480 un = theinfo[0]; // Abcissa unit
481 rfrm = theinfo[1]; // Active (or conversion) frame
482 dpl = theinfo[2]; // Doppler
483 brfrm = theinfo[3]; // Base frame
484//
[105]485 Table t = table_.rwKeywordSet().asTable("FREQUENCIES");
[306]486//
[105]487 Vector<Double> rstf;
488 t.keywordSet().get("RESTFREQS",rstf);
[306]489//
[105]490 Bool canDo = True;
491 Unit u1("km/s");Unit u2("Hz");
492 if (Unit(un) == u1) {
493 Vector<Double> rstf;
494 t.keywordSet().get("RESTFREQS",rstf);
495 if (rstf.nelements() == 0) {
496 throw(AipsError("Can't set unit to km/s if no restfrequencies are specified"));
497 }
498 } else if (Unit(un) != u2 && un != "") {
499 throw(AipsError("Unit not conformant with Spectral Coordinates"));
500 }
501 t.rwKeywordSet().define("UNIT", un);
[275]502//
[105]503 MFrequency::Types mdr;
504 if (!MFrequency::getType(mdr, rfrm)) {
505
506 Int a,b;const uInt* c;
507 const String* valid = MFrequency::allMyTypes(a, b, c);
508 String pfix = "Please specify a legal frame type. Types are\n";
509 throw(AipsError(pfix+(*valid)));
510 } else {
511 t.rwKeywordSet().define("REFFRAME",rfrm);
512 }
[275]513//
514 MDoppler::Types dtype;
515 dpl.upcase();
516 if (!MDoppler::getType(dtype, dpl)) {
517 throw(AipsError("Doppler type unknown"));
518 } else {
519 t.rwKeywordSet().define("DOPPLER",dpl);
520 }
[306]521//
522 if (!MFrequency::getType(mdr, brfrm)) {
523 Int a,b;const uInt* c;
524 const String* valid = MFrequency::allMyTypes(a, b, c);
525 String pfix = "Please specify a legal frame type. Types are\n";
526 throw(AipsError(pfix+(*valid)));
527 } else {
528 t.rwKeywordSet().define("BASEREFFRAME",brfrm);
529 }
[105]530}
531
[286]532
[206]533std::vector<double> SDMemTable::getAbcissa(Int whichRow) const
534{
[286]535 std::vector<double> abc(nChan());
[206]536
[286]537// Get header units keyword
[206]538
[286]539 Table t = table_.keywordSet().asTable("FREQUENCIES");
[105]540 String sunit;
541 t.keywordSet().get("UNIT",sunit);
542 if (sunit == "") sunit = "pixel";
543 Unit u(sunit);
[286]544
545// Easy if just wanting pixels
546
547 if (sunit==String("pixel")) {
548 // assume channels/pixels
549 std::vector<double>::iterator it;
550 uInt i=0;
551 for (it = abc.begin(); it != abc.end(); ++it) {
552 (*it) = Double(i++);
553 }
554//
555 return abc;
[78]556 }
557
[386]558// Continue with km/s or Hz. Get FreqIDs
[286]559
[347]560 Vector<uInt> freqIDs;
561 freqidCol_.get(whichRow, freqIDs);
562 uInt freqID = freqIDs(IFSel_);
[386]563 restfreqidCol_.get(whichRow, freqIDs);
564 uInt restFreqID = freqIDs(IFSel_);
[286]565
566// Get SpectralCoordinate, set reference frame conversion,
567// velocity conversion, and rest freq state
568
[386]569 SpectralCoordinate spc = getSpectralCoordinate(freqID, restFreqID, whichRow);
[286]570 Vector<Double> pixel(nChan());
571 indgen(pixel);
572//
573 if (u == Unit("km/s")) {
574 Vector<Double> world;
575 spc.pixelToVelocity(world,pixel);
576 std::vector<double>::iterator it;
577 uInt i = 0;
578 for (it = abc.begin(); it != abc.end(); ++it) {
579 (*it) = world[i];
580 i++;
581 }
[39]582 } else if (u == Unit("Hz")) {
[286]583
584// Set world axis units
585
[39]586 Vector<String> wau(1); wau = u.getName();
587 spc.setWorldAxisUnits(wau);
[286]588//
[39]589 std::vector<double>::iterator it;
590 Double tmp;
591 uInt i = 0;
[286]592 for (it = abc.begin(); it != abc.end(); ++it) {
593 spc.toWorld(tmp,pixel[i]);
[39]594 (*it) = tmp;
595 i++;
596 }
597 }
[286]598 return abc;
[39]599}
600
[164]601std::string SDMemTable::getAbcissaString(Int whichRow) const
[105]602{
603 Table t = table_.keywordSet().asTable("FREQUENCIES");
[286]604//
[105]605 String sunit;
606 t.keywordSet().get("UNIT",sunit);
607 if (sunit == "") sunit = "pixel";
608 Unit u(sunit);
[286]609//
[347]610 Vector<uInt> freqIDs;
611 freqidCol_.get(whichRow, freqIDs);
[386]612 uInt freqID = freqIDs(IFSel_);
613 restfreqidCol_.get(whichRow, freqIDs);
614 uInt restFreqID = freqIDs(IFSel_);
[286]615
616// Get SpectralCoordinate, with frame, velocity, rest freq state set
617
[386]618 SpectralCoordinate spc = getSpectralCoordinate(freqID, restFreqID, whichRow);
[275]619//
[105]620 String s = "Channel";
621 if (u == Unit("km/s")) {
622 s = CoordinateUtil::axisLabel(spc,0,True,True,True);
623 } else if (u == Unit("Hz")) {
624 Vector<String> wau(1);wau = u.getName();
625 spc.setWorldAxisUnits(wau);
[286]626//
627 s = CoordinateUtil::axisLabel(spc,0,True,True,False);
[105]628 }
629 return s;
630}
631
[206]632void SDMemTable::setSpectrum(std::vector<float> spectrum, int whichRow)
633{
[89]634 Array<Float> arr;
[322]635 specCol_.get(whichRow, arr);
[89]636 if (spectrum.size() != arr.shape()(3)) {
637 throw(AipsError("Attempting to set spectrum with incorrect length."));
638 }
639
[206]640 ArrayAccessor<Float, Axis<asap::BeamAxis> > aa0(arr);
[89]641 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
[206]642 ArrayAccessor<Float, Axis<asap::IFAxis> > aa1(aa0);
[89]643 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
[206]644 ArrayAccessor<Float, Axis<asap::PolAxis> > aa2(aa1);
[89]645 aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
646
647 std::vector<float>::iterator it = spectrum.begin();
[206]648 for (ArrayAccessor<Float, Axis<asap::ChanAxis> > i(aa2); i != i.end(); ++i) {
[89]649 (*i) = Float(*it);
650 it++;
651 }
[322]652 specCol_.put(whichRow, arr);
[89]653}
654
[206]655void SDMemTable::getSpectrum(Vector<Float>& spectrum, Int whichRow) const
656{
[21]657 Array<Float> arr;
[322]658 specCol_.get(whichRow, arr);
[418]659
660// Iterate and extract
661
[21]662 spectrum.resize(arr.shape()(3));
[206]663 ArrayAccessor<Float, Axis<asap::BeamAxis> > aa0(arr);
[21]664 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
[206]665 ArrayAccessor<Float, Axis<asap::IFAxis> > aa1(aa0);
[21]666 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
[206]667 ArrayAccessor<Float, Axis<asap::PolAxis> > aa2(aa1);
[21]668 aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
[418]669//
[206]670 ArrayAccessor<Float, Axis<asap::BeamAxis> > va(spectrum);
671 for (ArrayAccessor<Float, Axis<asap::ChanAxis> > i(aa2); i != i.end(); ++i) {
[21]672 (*va) = (*i);
673 va++;
674 }
675}
[418]676
677
[89]678/*
[68]679void SDMemTable::getMask(Vector<Bool>& mask, Int whichRow) const {
[21]680 Array<uChar> arr;
[322]681 flagsCol_.get(whichRow, arr);
[21]682 mask.resize(arr.shape()(3));
683
[206]684 ArrayAccessor<uChar, Axis<asap::BeamAxis> > aa0(arr);
[21]685 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
[206]686 ArrayAccessor<uChar, Axis<asap::IFAxis> > aa1(aa0);
[21]687 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
[206]688 ArrayAccessor<uChar, Axis<asap::PolAxis> > aa2(aa1);
[21]689 aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
690
691 Bool useUserMask = ( chanMask_.size() == arr.shape()(3) );
[89]692
[206]693 ArrayAccessor<Bool, Axis<asap::BeamAxis> > va(mask);
[21]694 std::vector<bool> tmp;
695 tmp = chanMask_; // WHY the fxxx do I have to make a copy here. The
[89]696 // iterator should work on chanMask_??
[21]697 std::vector<bool>::iterator miter;
698 miter = tmp.begin();
699
[206]700 for (ArrayAccessor<uChar, Axis<asap::ChanAxis> > i(aa2); i != i.end(); ++i) {
[21]701 bool out =!static_cast<bool>(*i);
702 if (useUserMask) {
703 out = out && (*miter);
704 miter++;
705 }
706 (*va) = out;
707 va++;
[89]708 }
[21]709}
[89]710*/
[439]711MaskedArray<Float> SDMemTable::rowAsMaskedArray(uInt whichRow, Bool useSelection,
712 Bool toStokes) const
[164]713{
[2]714 Array<Float> arr;
715 Array<uChar> farr;
[439]716 if (toStokes) {
717 stokesCol_.get(whichRow, arr);
718 } else {
719 specCol_.get(whichRow, arr);
720 }
[322]721 flagsCol_.get(whichRow, farr);
[418]722 Array<Bool> barr(farr.shape());
723 convertArray(barr, farr);
[2]724 MaskedArray<Float> marr;
[16]725 if (useSelection) {
[206]726 ArrayAccessor<Float, Axis<asap::BeamAxis> > aa0(arr);
[16]727 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
[206]728 ArrayAccessor<Float, Axis<asap::IFAxis> > aa1(aa0);
[16]729 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
[206]730 ArrayAccessor<Float, Axis<asap::PolAxis> > aa2(aa1);
[16]731 aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
[89]732
[206]733 ArrayAccessor<Bool, Axis<asap::BeamAxis> > baa0(barr);
[16]734 baa0.reset(baa0.begin(uInt(beamSel_)));//go to beam
[206]735 ArrayAccessor<Bool, Axis<asap::IFAxis> > baa1(baa0);
[16]736 baa1.reset(baa1.begin(uInt(IFSel_)));// go to IF
[206]737 ArrayAccessor<Bool, Axis<asap::PolAxis> > baa2(baa1);
[16]738 baa2.reset(baa2.begin(uInt(polSel_)));// go to pol
739
740 Vector<Float> a(arr.shape()(3));
741 Vector<Bool> b(barr.shape()(3));
[206]742 ArrayAccessor<Float, Axis<asap::BeamAxis> > a0(a);
743 ArrayAccessor<Bool, Axis<asap::BeamAxis> > b0(b);
[16]744
[206]745 ArrayAccessor<Bool, Axis<asap::ChanAxis> > j(baa2);
746 for (ArrayAccessor<Float, Axis<asap::ChanAxis> > i(aa2);
747 i != i.end(); ++i) {
[16]748 (*a0) = (*i);
749 (*b0) = !(*j);
750 j++;
751 a0++;
752 b0++;
753 }
754 marr.setData(a,b);
755 } else {
756 marr.setData(arr,!barr);
757 }
[2]758 return marr;
759}
760
[206]761Float SDMemTable::getTsys(Int whichRow) const
762{
[2]763 Array<Float> arr;
[322]764 tsCol_.get(whichRow, arr);
[2]765 Float out;
[418]766//
[2]767 IPosition ip(arr.shape());
[418]768 ip(asap::BeamAxis) = beamSel_;
769 ip(asap::IFAxis) = IFSel_;
770 ip(asap::PolAxis) = polSel_;
771 ip(asap::ChanAxis)=0; // First channel only
772//
[2]773 out = arr(ip);
774 return out;
775}
776
[281]777MDirection SDMemTable::getDirection(Int whichRow, Bool refBeam) const
[206]778{
[212]779 MDirection::Types mdr = getDirectionReference();
[206]780 Array<Double> posit;
[322]781 dirCol_.get(whichRow,posit);
[206]782 Vector<Double> wpos(2);
[380]783 Int rb;
784 rbeamCol_.get(whichRow,rb);
[206]785 wpos[0] = posit(IPosition(2,beamSel_,0));
786 wpos[1] = posit(IPosition(2,beamSel_,1));
[380]787 if (refBeam && rb > -1) { // use refBeam instead if it exists
788 wpos[0] = posit(IPosition(2,rb,0));
789 wpos[1] = posit(IPosition(2,rb,1));
790 }
791
[206]792 Quantum<Double> lon(wpos[0],Unit(String("rad")));
793 Quantum<Double> lat(wpos[1],Unit(String("rad")));
[286]794 return MDirection(lon, lat, mdr);
[206]795}
[39]796
[380]797MEpoch SDMemTable::getEpoch(Int whichRow) const
[206]798{
[286]799 MEpoch::Types met = getTimeReference();
800//
801 Double obstime;
[322]802 timeCol_.get(whichRow,obstime);
[286]803 MVEpoch tm2(Quantum<Double>(obstime, Unit(String("d"))));
804 return MEpoch(tm2, met);
805}
806
807MPosition SDMemTable::getAntennaPosition () const
808{
809 Vector<Double> antpos;
810 table_.keywordSet().get("AntennaPosition", antpos);
811 MVPosition mvpos(antpos(0),antpos(1),antpos(2));
812 return MPosition(mvpos);
813}
814
815
[347]816SpectralCoordinate SDMemTable::getSpectralCoordinate(uInt freqID) const
[286]817{
[206]818
[39]819 Table t = table_.keywordSet().asTable("FREQUENCIES");
[347]820 if (freqID> t.nrow() ) {
821 throw(AipsError("SDMemTable::getSpectralCoordinate - freqID out of range"));
[39]822 }
[89]823
[39]824 Double rp,rv,inc;
825 String rf;
826 ROScalarColumn<Double> rpc(t, "REFPIX");
827 ROScalarColumn<Double> rvc(t, "REFVAL");
828 ROScalarColumn<Double> incc(t, "INCREMENT");
[105]829 t.keywordSet().get("BASEREFFRAME",rf);
[89]830
[286]831// Create SpectralCoordinate (units Hz)
832
[39]833 MFrequency::Types mft;
834 if (!MFrequency::getType(mft, rf)) {
835 cerr << "Frequency type unknown assuming TOPO" << endl;
[89]836 mft = MFrequency::TOPO;
837 }
[347]838 rpc.get(freqID, rp);
839 rvc.get(freqID, rv);
840 incc.get(freqID, inc);
[286]841//
[39]842 SpectralCoordinate spec(mft,rv,inc,rp);
[286]843//
844 return spec;
845}
846
847
[386]848SpectralCoordinate SDMemTable::getSpectralCoordinate(uInt freqID, uInt restFreqID,
849 uInt whichRow) const
[286]850{
[385]851
[286]852// Create basic SC
853
[347]854 SpectralCoordinate spec = getSpectralCoordinate (freqID);
[286]855//
856 Table t = table_.keywordSet().asTable("FREQUENCIES");
857
[386]858// Set rest frequency
[286]859
[386]860 Vector<Double> restFreqIDs;
861 t.keywordSet().get("RESTFREQS",restFreqIDs);
862 if (restFreqID < restFreqIDs.nelements()) { // SHould always be true
863 spec.setRestFrequency(restFreqIDs(restFreqID),True);
[286]864 }
865
866// Set up frame conversion layer
867
868 String frm;
869 t.keywordSet().get("REFFRAME",frm);
870 if (frm == "") frm = "TOPO";
871 MFrequency::Types mtype;
872 if (!MFrequency::getType(mtype, frm)) {
[347]873 cerr << "Frequency type unknown assuming TOPO" << endl; // SHould never happen
[286]874 mtype = MFrequency::TOPO;
875 }
876
877// Set reference frame conversion (requires row)
878
[401]879 MDirection dir = getDirection(whichRow);
[286]880 MEpoch epoch = getEpoch(whichRow);
881 MPosition pos = getAntennaPosition();
[401]882//
883 if (!spec.setReferenceConversion(mtype,epoch,pos,dir)) {
[286]884 throw(AipsError("Couldn't convert frequency frame."));
885 }
886
887// Now velocity conversion if appropriate
888
889 String unitStr;
890 t.keywordSet().get("UNIT",unitStr);
891//
892 String dpl;
893 t.keywordSet().get("DOPPLER",dpl);
894 MDoppler::Types dtype;
895 MDoppler::getType(dtype, dpl);
896
897// Only set velocity unit if non-blank and non-Hz
898
899 if (!unitStr.empty()) {
900 Unit unitU(unitStr);
901 if (unitU==Unit("Hz")) {
902 } else {
903 spec.setVelocity(unitStr, dtype);
904 }
905 }
906//
[39]907 return spec;
908}
909
[286]910
[89]911Bool SDMemTable::setCoordinate(const SpectralCoordinate& speccord,
[347]912 uInt freqID) {
[50]913 Table t = table_.rwKeywordSet().asTable("FREQUENCIES");
[347]914 if (freqID > t.nrow() ) {
[89]915 throw(AipsError("SDMemTable::setCoordinate - coord no out of range"));
[50]916 }
917 ScalarColumn<Double> rpc(t, "REFPIX");
918 ScalarColumn<Double> rvc(t, "REFVAL");
919 ScalarColumn<Double> incc(t, "INCREMENT");
[89]920
[347]921 rpc.put(freqID, speccord.referencePixel()[0]);
922 rvc.put(freqID, speccord.referenceValue()[0]);
923 incc.put(freqID, speccord.increment()[0]);
[50]924
925 return True;
926}
927
[89]928Int SDMemTable::nCoordinates() const
929{
930 return table_.keywordSet().asTable("FREQUENCIES").nrow();
931}
[50]932
[89]933
[251]934std::vector<double> SDMemTable::getRestFreqs() const
935{
936 Table t = table_.keywordSet().asTable("FREQUENCIES");
937 Vector<Double> tvec;
938 t.keywordSet().get("RESTFREQS",tvec);
939 std::vector<double> stlout;
940 tvec.tovector(stlout);
941 return stlout;
942}
943
[206]944bool SDMemTable::putSDFreqTable(const SDFrequencyTable& sdft)
945{
[39]946 TableDesc td("", "1", TableDesc::Scratch);
947 td.addColumn(ScalarColumnDesc<Double>("REFPIX"));
948 td.addColumn(ScalarColumnDesc<Double>("REFVAL"));
949 td.addColumn(ScalarColumnDesc<Double>("INCREMENT"));
950 SetupNewTable aNewTab("freqs", td, Table::New);
951 Table aTable (aNewTab, Table::Memory, sdft.length());
952 ScalarColumn<Double> sc0(aTable, "REFPIX");
953 ScalarColumn<Double> sc1(aTable, "REFVAL");
954 ScalarColumn<Double> sc2(aTable, "INCREMENT");
955 for (uInt i=0; i < sdft.length(); ++i) {
956 sc0.put(i,sdft.referencePixel(i));
957 sc1.put(i,sdft.referenceValue(i));
958 sc2.put(i,sdft.increment(i));
959 }
[105]960 String rf = sdft.refFrame();
961 if (rf.contains("TOPO")) rf = "TOPO";
962
963 aTable.rwKeywordSet().define("BASEREFFRAME", rf);
964 aTable.rwKeywordSet().define("REFFRAME", rf);
[39]965 aTable.rwKeywordSet().define("EQUINOX", sdft.equinox());
[105]966 aTable.rwKeywordSet().define("UNIT", String(""));
967 aTable.rwKeywordSet().define("DOPPLER", String("RADIO"));
[89]968 Vector<Double> rfvec;
[206]969 String rfunit;
970 sdft.restFrequencies(rfvec,rfunit);
971 Quantum<Vector<Double> > q(rfvec, rfunit);
972 rfvec.resize();
973 rfvec = q.getValue("Hz");
[89]974 aTable.rwKeywordSet().define("RESTFREQS", rfvec);
[39]975 table_.rwKeywordSet().defineTable ("FREQUENCIES", aTable);
976 return True;
977}
978
[206]979SDFrequencyTable SDMemTable::getSDFreqTable() const
980{
[251]981 const Table& t = table_.keywordSet().asTable("FREQUENCIES");
[39]982 SDFrequencyTable sdft;
[306]983
984// Add refpix/refval/incr. What are the units ? Hz I suppose
985// but it's nowhere described...
986
987 Vector<Double> refPix, refVal, incr;
988 ScalarColumn<Double> refPixCol(t, "REFPIX");
989 ScalarColumn<Double> refValCol(t, "REFVAL");
990 ScalarColumn<Double> incrCol(t, "INCREMENT");
991 refPix = refPixCol.getColumn();
992 refVal = refValCol.getColumn();
993 incr = incrCol.getColumn();
994//
995 uInt n = refPix.nelements();
996 for (uInt i=0; i<n; i++) {
997 sdft.addFrequency(refPix[i], refVal[i], incr[i]);
998 }
999
1000// Frequency reference frame. I don't know if this
1001// is the correct frame. It might be 'REFFRAME'
1002// rather than 'BASEREFFRAME' ?
1003
1004 String baseFrame;
1005 t.keywordSet().get("BASEREFFRAME",baseFrame);
1006 sdft.setRefFrame(baseFrame);
1007
1008// Equinox
1009
1010 Float equinox;
1011 t.keywordSet().get("EQUINOX", equinox);
1012 sdft.setEquinox(equinox);
1013
1014// Rest Frequency
1015
1016 Vector<Double> restFreqs;
1017 t.keywordSet().get("RESTFREQS", restFreqs);
1018 for (uInt i=0; i<restFreqs.nelements(); i++) {
1019 sdft.addRestFrequency(restFreqs[i]);
1020 }
1021 sdft.setRestFrequencyUnit(String("Hz"));
1022//
[39]1023 return sdft;
1024}
1025
[206]1026bool SDMemTable::putSDContainer(const SDContainer& sdc)
1027{
[2]1028 uInt rno = table_.nrow();
1029 table_.addRow();
[386]1030//
[322]1031 timeCol_.put(rno, sdc.timestamp);
1032 srcnCol_.put(rno, sdc.sourcename);
1033 fldnCol_.put(rno, sdc.fieldname);
1034 specCol_.put(rno, sdc.getSpectrum());
1035 flagsCol_.put(rno, sdc.getFlags());
1036 tsCol_.put(rno, sdc.getTsys());
1037 scanCol_.put(rno, sdc.scanid);
1038 integrCol_.put(rno, sdc.interval);
1039 freqidCol_.put(rno, sdc.getFreqMap());
[386]1040 restfreqidCol_.put(rno, sdc.getRestFreqMap());
[322]1041 dirCol_.put(rno, sdc.getDirection());
1042 rbeamCol_.put(rno, sdc.refbeam);
1043 tcalCol_.put(rno, sdc.tcal);
1044 tcaltCol_.put(rno, sdc.tcaltime);
1045 azCol_.put(rno, sdc.azimuth);
1046 elCol_.put(rno, sdc.elevation);
1047 paraCol_.put(rno, sdc.parangle);
1048 histCol_.put(rno, sdc.getHistory());
[386]1049//
[2]1050 return true;
1051}
[18]1052
[206]1053SDContainer SDMemTable::getSDContainer(uInt whichRow) const
1054{
[21]1055 SDContainer sdc(nBeam(),nIF(),nPol(),nChan());
[322]1056 timeCol_.get(whichRow, sdc.timestamp);
1057 srcnCol_.get(whichRow, sdc.sourcename);
1058 integrCol_.get(whichRow, sdc.interval);
1059 scanCol_.get(whichRow, sdc.scanid);
1060 fldnCol_.get(whichRow, sdc.fieldname);
1061 rbeamCol_.get(whichRow, sdc.refbeam);
1062 azCol_.get(whichRow, sdc.azimuth);
1063 elCol_.get(whichRow, sdc.elevation);
1064 paraCol_.get(whichRow, sdc.parangle);
[105]1065 Vector<Float> tc;
[322]1066 tcalCol_.get(whichRow, tc);
[105]1067 sdc.tcal[0] = tc[0];sdc.tcal[1] = tc[1];
[322]1068 tcaltCol_.get(whichRow, sdc.tcaltime);
[386]1069//
[21]1070 Array<Float> spectrum;
1071 Array<Float> tsys;
1072 Array<uChar> flagtrum;
[39]1073 Vector<uInt> fmap;
[78]1074 Array<Double> direction;
[206]1075 Vector<String> histo;
[386]1076//
[322]1077 specCol_.get(whichRow, spectrum);
[21]1078 sdc.putSpectrum(spectrum);
[322]1079 flagsCol_.get(whichRow, flagtrum);
[21]1080 sdc.putFlags(flagtrum);
[322]1081 tsCol_.get(whichRow, tsys);
[21]1082 sdc.putTsys(tsys);
[322]1083 freqidCol_.get(whichRow, fmap);
[39]1084 sdc.putFreqMap(fmap);
[386]1085 restfreqidCol_.get(whichRow, fmap);
1086 sdc.putRestFreqMap(fmap);
[322]1087 dirCol_.get(whichRow, direction);
[78]1088 sdc.putDirection(direction);
[322]1089 histCol_.get(whichRow, histo);
[206]1090 sdc.putHistory(histo);
[21]1091 return sdc;
1092}
[78]1093
[206]1094bool SDMemTable::putSDHeader(const SDHeader& sdh)
1095{
[18]1096 table_.rwKeywordSet().define("nIF", sdh.nif);
1097 table_.rwKeywordSet().define("nBeam", sdh.nbeam);
1098 table_.rwKeywordSet().define("nPol", sdh.npol);
1099 table_.rwKeywordSet().define("nChan", sdh.nchan);
1100 table_.rwKeywordSet().define("Observer", sdh.observer);
1101 table_.rwKeywordSet().define("Project", sdh.project);
1102 table_.rwKeywordSet().define("Obstype", sdh.obstype);
1103 table_.rwKeywordSet().define("AntennaName", sdh.antennaname);
1104 table_.rwKeywordSet().define("AntennaPosition", sdh.antennaposition);
1105 table_.rwKeywordSet().define("Equinox", sdh.equinox);
1106 table_.rwKeywordSet().define("FreqRefFrame", sdh.freqref);
1107 table_.rwKeywordSet().define("FreqRefVal", sdh.reffreq);
1108 table_.rwKeywordSet().define("Bandwidth", sdh.bandwidth);
1109 table_.rwKeywordSet().define("UTC", sdh.utc);
[206]1110 table_.rwKeywordSet().define("FluxUnit", sdh.fluxunit);
1111 table_.rwKeywordSet().define("Epoch", sdh.epoch);
[18]1112 return true;
[50]1113}
[21]1114
[206]1115SDHeader SDMemTable::getSDHeader() const
1116{
[21]1117 SDHeader sdh;
1118 table_.keywordSet().get("nBeam",sdh.nbeam);
1119 table_.keywordSet().get("nIF",sdh.nif);
1120 table_.keywordSet().get("nPol",sdh.npol);
1121 table_.keywordSet().get("nChan",sdh.nchan);
1122 table_.keywordSet().get("Observer", sdh.observer);
1123 table_.keywordSet().get("Project", sdh.project);
1124 table_.keywordSet().get("Obstype", sdh.obstype);
1125 table_.keywordSet().get("AntennaName", sdh.antennaname);
1126 table_.keywordSet().get("AntennaPosition", sdh.antennaposition);
1127 table_.keywordSet().get("Equinox", sdh.equinox);
1128 table_.keywordSet().get("FreqRefFrame", sdh.freqref);
1129 table_.keywordSet().get("FreqRefVal", sdh.reffreq);
1130 table_.keywordSet().get("Bandwidth", sdh.bandwidth);
1131 table_.keywordSet().get("UTC", sdh.utc);
[206]1132 table_.keywordSet().get("FluxUnit", sdh.fluxunit);
1133 table_.keywordSet().get("Epoch", sdh.epoch);
[21]1134 return sdh;
[18]1135}
[206]1136void SDMemTable::makePersistent(const std::string& filename)
1137{
[2]1138 table_.deepCopy(filename,Table::New);
1139}
1140
[89]1141Int SDMemTable::nScan() const {
[50]1142 Int n = 0;
1143 Int previous = -1;Int current=0;
[322]1144 for (uInt i=0; i< scanCol_.nrow();i++) {
1145 scanCol_.getScalar(i,current);
[50]1146 if (previous != current) {
[89]1147 previous = current;
[50]1148 n++;
1149 }
1150 }
1151 return n;
1152}
1153
[260]1154String SDMemTable::formatSec(Double x) const
[206]1155{
[105]1156 Double xcop = x;
1157 MVTime mvt(xcop/24./3600.); // make days
[365]1158
[105]1159 if (x < 59.95)
[281]1160 return String(" ") + mvt.string(MVTime::TIME_CLEAN_NO_HM, 7)+"s";
1161 else if (x < 3599.95)
1162 return String(" ") + mvt.string(MVTime::TIME_CLEAN_NO_H,7)+" ";
1163 else {
1164 ostringstream oss;
1165 oss << setw(2) << std::right << setprecision(1) << mvt.hour();
1166 oss << ":" << mvt.string(MVTime::TIME_CLEAN_NO_H,7) << " ";
1167 return String(oss);
1168 }
[105]1169};
1170
[281]1171String SDMemTable::formatDirection(const MDirection& md) const
1172{
1173 Vector<Double> t = md.getAngle(Unit(String("rad"))).getValue();
1174 Int prec = 7;
1175
1176 MVAngle mvLon(t[0]);
1177 String sLon = mvLon.string(MVAngle::TIME,prec);
1178 MVAngle mvLat(t[1]);
1179 String sLat = mvLat.string(MVAngle::ANGLE+MVAngle::DIG2,prec);
[380]1180 return sLon + String(" ") + sLat;
[281]1181}
1182
1183
[206]1184std::string SDMemTable::getFluxUnit() const
1185{
1186 String tmp;
1187 table_.keywordSet().get("FluxUnit", tmp);
1188 return tmp;
1189}
1190
[218]1191void SDMemTable::setFluxUnit(const std::string& unit)
1192{
1193 String tmp(unit);
1194 Unit tU(tmp);
1195 if (tU==Unit("K") || tU==Unit("Jy")) {
1196 table_.rwKeywordSet().define(String("FluxUnit"), tmp);
1197 } else {
1198 throw AipsError("Illegal unit - must be compatible with Jy or K");
1199 }
1200}
1201
[275]1202
[236]1203void SDMemTable::setInstrument(const std::string& name)
1204{
1205 Bool throwIt = True;
1206 Instrument ins = convertInstrument (name, throwIt);
1207 String nameU(name);
1208 nameU.upcase();
1209 table_.rwKeywordSet().define(String("AntennaName"), nameU);
1210}
1211
[380]1212std::string SDMemTable::summary(bool verbose) const {
[281]1213
[385]1214// Format header info
1215
[89]1216 ostringstream oss;
1217 oss << endl;
[380]1218 oss << "--------------------------------------------------------------------------------" << endl;
[89]1219 oss << " Scan Table Summary" << endl;
[380]1220 oss << "--------------------------------------------------------------------------------" << endl;
[89]1221 oss.flags(std::ios_base::left);
1222 oss << setw(15) << "Beams:" << setw(4) << nBeam() << endl
1223 << setw(15) << "IFs:" << setw(4) << nIF() << endl
1224 << setw(15) << "Polarisations:" << setw(4) << nPol() << endl
1225 << setw(15) << "Channels:" << setw(4) << nChan() << endl;
1226 oss << endl;
1227 String tmp;
1228 table_.keywordSet().get("Observer", tmp);
1229 oss << setw(15) << "Observer:" << tmp << endl;
[281]1230 oss << setw(15) << "Obs Date:" << getTime(-1,True) << endl;
[89]1231 table_.keywordSet().get("Project", tmp);
1232 oss << setw(15) << "Project:" << tmp << endl;
1233 table_.keywordSet().get("Obstype", tmp);
1234 oss << setw(15) << "Obs. Type:" << tmp << endl;
1235 table_.keywordSet().get("AntennaName", tmp);
1236 oss << setw(15) << "Antenna Name:" << tmp << endl;
[206]1237 table_.keywordSet().get("FluxUnit", tmp);
1238 oss << setw(15) << "Flux Unit:" << tmp << endl;
[260]1239 Table t = table_.keywordSet().asTable("FREQUENCIES");
[105]1240 Vector<Double> vec;
1241 t.keywordSet().get("RESTFREQS",vec);
1242 oss << setw(15) << "Rest Freqs:";
1243 if (vec.nelements() > 0) {
1244 oss << setprecision(0) << vec << " [Hz]" << endl;
1245 } else {
1246 oss << "None set" << endl;
1247 }
[158]1248 oss << setw(15) << "Abcissa:" << getAbcissaString() << endl;
[105]1249 oss << setw(15) << "Cursor:" << "Beam[" << getBeam() << "] "
1250 << "IF[" << getIF() << "] " << "Pol[" << getPol() << "]" << endl;
[89]1251 oss << endl;
[365]1252//
[385]1253 String dirtype ="Position ("+ MDirection::showType(getDirectionReference()) + ")";
[380]1254 oss << setw(5) << "Scan"
[281]1255 << setw(15) << "Source"
[380]1256 << setw(24) << dirtype
[281]1257 << setw(10) << "Time"
[365]1258 << setw(18) << "Integration"
[380]1259 << setw(7) << "FreqIDs" << endl;
1260 oss << "--------------------------------------------------------------------------------" << endl;
[281]1261
[385]1262// Generate list of scan start and end integrations
1263
1264 Vector<Int> scanIDs = scanCol_.getColumn();
1265 Vector<uInt> startInt, endInt;
1266 mathutil::scanBoundaries(startInt, endInt, scanIDs);
[365]1267//
[385]1268 const uInt nScans = startInt.nelements();
[365]1269 String name;
1270 Vector<uInt> freqIDs, listFQ;
[385]1271 uInt nInt;
[365]1272//
[385]1273 for (uInt i=0; i<nScans; i++) {
[367]1274
[385]1275// Get things from first integration of scan
[367]1276
[385]1277 String time = getTime(startInt(i),False);
1278 String tInt = formatSec(Double(getInterval(startInt(i))));
1279 String posit = formatDirection(getDirection(startInt(i),True));
1280 srcnCol_.getScalar(startInt(i),name);
1281
1282// Find all the FreqIDs in this scan
1283
1284 listFQ.resize(0);
1285 for (uInt j=startInt(i); j<endInt(i)+1; j++) {
1286 freqidCol_.get(j, freqIDs);
1287 for (uInt k=0; k<freqIDs.nelements(); k++) {
1288 mathutil::addEntry(listFQ, freqIDs(k));
1289 }
[367]1290 }
[385]1291//
1292 nInt = endInt(i) - startInt(i) + 1;
1293 oss << setw(3) << std::right << i << std::left << setw(2) << " "
[365]1294 << setw(15) << name
[380]1295 << setw(24) << posit
[385]1296 << setw(10) << time
[380]1297 << setw(3) << std::right << nInt << setw(3) << " x " << std::left
[385]1298 << setw(6) << tInt
[365]1299 << " " << listFQ << endl;
[2]1300 }
[89]1301 oss << endl;
[385]1302 oss << "Table contains " << table_.nrow() << " integration(s) in " << nScans << " scan(s)." << endl;
[321]1303
1304// Frequency Table
[385]1305
[380]1306 if (verbose) {
1307 std::vector<string> info = getCoordInfo();
1308 SDFrequencyTable sdft = getSDFreqTable();
1309 oss << endl << endl;
1310 oss << "FreqID Frame RefFreq(Hz) RefPix Increment(Hz)" << endl;
1311 oss << "--------------------------------------------------------------------------------" << endl;
1312 for (uInt i=0; i<sdft.length(); i++) {
1313 oss << setw(8) << i << setw(8)
1314 << info[3] << setw(16) << setprecision(8)
1315 << sdft.referenceValue(i) << setw(10)
1316 << sdft.referencePixel(i) << setw(12)
1317 << sdft.increment(i) << endl;
1318 }
1319 oss << "--------------------------------------------------------------------------------" << endl;
[321]1320 }
[89]1321 return String(oss);
[2]1322}
[18]1323
[206]1324Int SDMemTable::nBeam() const
1325{
[18]1326 Int n;
1327 table_.keywordSet().get("nBeam",n);
1328 return n;
1329}
1330Int SDMemTable::nIF() const {
1331 Int n;
1332 table_.keywordSet().get("nIF",n);
1333 return n;
1334}
1335Int SDMemTable::nPol() const {
1336 Int n;
1337 table_.keywordSet().get("nPol",n);
1338 return n;
1339}
1340Int SDMemTable::nChan() const {
1341 Int n;
1342 table_.keywordSet().get("nChan",n);
1343 return n;
1344}
[206]1345bool SDMemTable::appendHistory(const std::string& hist, int whichRow)
1346{
1347 Vector<String> history;
[322]1348 histCol_.get(whichRow, history);
[206]1349 history.resize(history.nelements()+1,True);
1350 history[history.nelements()-1] = hist;
[322]1351 histCol_.put(whichRow, history);
[206]1352}
1353
1354std::vector<std::string> SDMemTable::history(int whichRow) const
1355{
1356 Vector<String> history;
[322]1357 histCol_.get(whichRow, history);
[206]1358 std::vector<std::string> stlout;
1359 // there is no Array<String>.tovector(std::vector<std::string>), so
1360 // do it by hand
1361 for (uInt i=0; i<history.nelements(); ++i) {
1362 stlout.push_back(history[i]);
1363 }
1364 return stlout;
1365}
[16]1366/*
[18]1367void SDMemTable::maskChannels(const std::vector<Int>& whichChans ) {
[89]1368
[16]1369 std::vector<int>::iterator it;
[206]1370 ArrayAccessor<uChar, Axis<asap::PolAxis> > j(flags_);
[16]1371 for (it = whichChans.begin(); it != whichChans.end(); it++) {
1372 j.reset(j.begin(uInt(*it)));
[206]1373 for (ArrayAccessor<uChar, Axis<asap::BeamAxis> > i(j); i != i.end(); ++i) {
1374 for (ArrayAccessor<uChar, Axis<asap::IFAxis> > ii(i); ii != ii.end(); ++ii) {
1375 for (ArrayAccessor<uChar, Axis<asap::ChanAxis> > iii(ii);
[89]1376 iii != iii.end(); ++iii) {
1377 (*iii) =
1378 }
[16]1379 }
1380 }
1381 }
[89]1382
[16]1383}
1384*/
[206]1385void SDMemTable::flag(int whichRow)
1386{
[89]1387 Array<uChar> arr;
[322]1388 flagsCol_.get(whichRow, arr);
[89]1389
[206]1390 ArrayAccessor<uChar, Axis<asap::BeamAxis> > aa0(arr);
[89]1391 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
[206]1392 ArrayAccessor<uChar, Axis<asap::IFAxis> > aa1(aa0);
[89]1393 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
[206]1394 ArrayAccessor<uChar, Axis<asap::PolAxis> > aa2(aa1);
[89]1395 aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
1396
[206]1397 for (ArrayAccessor<uChar, Axis<asap::ChanAxis> > i(aa2); i != i.end(); ++i) {
[89]1398 (*i) = uChar(True);
1399 }
1400
[322]1401 flagsCol_.put(whichRow, arr);
[89]1402}
[212]1403
[281]1404MDirection::Types SDMemTable::getDirectionReference() const
[212]1405{
1406 Float eq;
1407 table_.keywordSet().get("Equinox",eq);
1408 std::map<float,string> mp;
1409 mp[2000.0] = "J2000";
1410 mp[1950.0] = "B1950";
1411 MDirection::Types mdr;
1412 if (!MDirection::getType(mdr, mp[eq])) {
1413 mdr = MDirection::J2000;
1414 cerr << "Unknown equinox using J2000" << endl;
1415 }
1416//
1417 return mdr;
1418}
1419
[380]1420MEpoch::Types SDMemTable::getTimeReference() const
[212]1421{
1422 MEpoch::Types met;
1423 String ep;
1424 table_.keywordSet().get("Epoch",ep);
1425 if (!MEpoch::getType(met, ep)) {
[387]1426 cerr << "Epoch type unknown - using UTC" << endl;
[212]1427 met = MEpoch::UTC;
1428 }
1429//
1430 return met;
1431}
1432
[236]1433
[380]1434Instrument SDMemTable::convertInstrument(const String& instrument,
1435 Bool throwIt)
[236]1436{
1437 String t(instrument);
1438 t.upcase();
[293]1439
1440// The strings are what SDReader returns, after cunning interrogation
1441// of station names... :-(
1442
[236]1443 Instrument inst = asap::UNKNOWN;
[293]1444 if (t==String("DSS-43")) {
[236]1445 inst = TIDBINBILLA;
1446 } else if (t==String("ATPKSMB")) {
[292]1447 inst = ATPKSMB;
1448 } else if (t==String("ATPKSHOH")) {
1449 inst = ATPKSHOH;
1450 } else if (t==String("ATMOPRA")) {
1451 inst = ATMOPRA;
1452 } else if (t==String("CEDUNA")) {
1453 inst = CEDUNA;
1454 } else if (t==String("HOBART")) {
1455 inst = HOBART;
[236]1456 } else {
[380]1457 if (throwIt) {
1458 throw AipsError("Unrecognized instrument - use function scan.set_instrument to set");
1459 }
[236]1460 }
1461 return inst;
1462}
1463
[401]1464Bool SDMemTable::setRestFreqs (const Vector<Double>& restFreqsIn,
1465 const String& sUnit,
1466 const vector<string>& lines,
1467 const String& source,
1468 Int whichIF)
[386]1469{
1470 const Int nIFs = nIF();
1471 if (whichIF>=nIFs) {
1472 throw(AipsError("Illegal IF index"));
1473 }
1474
[401]1475// FInd vector of restfrequencies
1476// Double takes precedence over String
1477
1478 Unit unit;
1479 Vector<Double> restFreqs;
1480 if (restFreqsIn.nelements()>0) {
1481 restFreqs.resize(restFreqsIn.nelements());
1482 restFreqs = restFreqsIn;
1483 unit = Unit(sUnit);
1484 } else if (lines.size()>0) {
1485 const uInt nLines = lines.size();
1486 unit = Unit("Hz");
1487 restFreqs.resize(nLines);
1488 MFrequency lineFreq;
1489 for (uInt i=0; i<nLines; i++) {
1490 String tS(lines[i]);
1491 tS.upcase();
1492 if (MeasTable::Line(lineFreq, tS)) {
1493 restFreqs[i] = lineFreq.getValue().getValue(); // Hz
1494 } else {
1495 String s = String(lines[i]) + String(" is an unrecognized spectral line");
1496 throw(AipsError(s));
1497 }
1498 }
1499 } else {
1500 throw(AipsError("You have not specified any rest frequencies or lines"));
1501 }
1502
[392]1503// If multiple restfreqs, must be length nIF. In this
1504// case we will just replace the rest frequencies
1505//
[386]1506
[392]1507 const uInt nRestFreqs = restFreqs.nelements();
1508 Int idx = -1;
[386]1509 SDFrequencyTable sdft = getSDFreqTable();
1510
[392]1511 if (nRestFreqs>1) {
1512
1513// Replace restFreqs, one per IF
1514
1515 if (nRestFreqs != nIFs) {
1516 throw (AipsError("Number of rest frequencies must be equal to the number of IFs"));
1517 }
[414]1518 cout << "Replacing rest frequencies with given list, one per IF" << endl;
[392]1519//
1520 sdft.deleteRestFrequencies();
1521 for (uInt i=0; i<nRestFreqs; i++) {
1522 Quantum<Double> rf(restFreqs[i], unit);
1523 sdft.addRestFrequency(rf.getValue("Hz"));
1524 }
1525 } else {
1526
1527// Add new rest freq
1528
1529 Quantum<Double> rf(restFreqs[0], unit);
1530 idx = sdft.addRestFrequency(rf.getValue("Hz"));
[414]1531 cout << "Selecting given rest frequency" << endl;
[392]1532 }
1533
[386]1534// Replace
1535
1536 Bool empty = source.empty();
1537 Bool ok = False;
1538 if (putSDFreqTable(sdft)) {
1539 const uInt nRow = table_.nrow();
1540 String srcName;
1541 Vector<uInt> restFreqIDs;
1542 for (uInt i=0; i<nRow; i++) {
1543 srcnCol_.get(i, srcName);
1544 restfreqidCol_.get(i,restFreqIDs);
[392]1545//
1546 if (idx==-1) {
1547
1548// Replace vector of restFreqs; one per IF.
1549// No selection possible
1550
1551 for (uInt i=0; i<nIFs; i++) restFreqIDs[i] = i;
1552 } else {
1553
1554// Set RestFreqID for selected data
1555
1556 if (empty || source==srcName) {
1557 if (whichIF<0) {
1558 restFreqIDs = idx;
1559 } else {
1560 restFreqIDs[whichIF] = idx;
1561 }
[386]1562 }
1563 }
1564//
1565 restfreqidCol_.put(i,restFreqIDs);
1566 }
1567 ok = True;
1568 } else {
1569 ok = False;
1570 }
1571//
1572 return ok;
1573}
1574
[414]1575void SDMemTable::spectralLines() const
[401]1576{
1577 Vector<String> lines = MeasTable::Lines();
1578 MFrequency lineFreq;
1579 Double freq;
1580//
[414]1581 cout.flags(std::ios_base::left);
1582 cout << "Line Frequency (Hz)" << endl;
1583 cout << "-----------------------" << endl;
[401]1584 for (uInt i=0; i<lines.nelements(); i++) {
1585 MeasTable::Line(lineFreq, lines[i]);
1586 freq = lineFreq.getValue().getValue(); // Hz
1587//
[414]1588 cout << setw(11) << lines[i] << setprecision(10) << freq << endl;
[401]1589 }
1590}
[386]1591
[380]1592void SDMemTable::renumber()
1593{
1594 uInt nRow = scanCol_.nrow();
1595 Int newscanid = 0;
1596 Int cIdx;// the current scanid
1597 // get the first scanid
1598 scanCol_.getScalar(0,cIdx);
1599 Int pIdx = cIdx;// the scanid of the previous row
1600 for (uInt i=0; i<nRow;++i) {
1601 scanCol_.getScalar(i,cIdx);
1602 if (pIdx == cIdx) {
1603 // renumber
1604 scanCol_.put(i,newscanid);
1605 } else {
1606 ++newscanid;
1607 pIdx = cIdx; // store scanid
1608 --i; // don't increment next loop
1609 }
1610 }
1611}
[386]1612
[418]1613
[433]1614void SDMemTable::rotateXYPhase (Float value, Bool doAll)
[418]1615//
1616// phase in degrees
[430]1617// Applies to all Beams and IFs
1618// Might want to optionally select on Beam/IF
[418]1619//
1620{
1621 if (nPol() != 4) {
1622 throw(AipsError("You must have 4 polarizations to run this function"));
1623 }
1624//
1625 IPosition start(asap::nAxes,0);
1626 IPosition end(asap::nAxes);
1627//
1628 uInt nRow = specCol_.nrow();
1629 Array<Float> data;
1630 for (uInt i=0; i<nRow;++i) {
1631 specCol_.get(i,data);
[433]1632 IPosition shape = data.shape();
[418]1633
[433]1634// Set slice
1635
1636 if (!doAll) {
1637 setCursorSlice (start, end, shape);
1638 } else {
1639 end = shape-1;
1640 }
1641
[418]1642// Get polarization slice references
1643
1644 start(asap::PolAxis) = 2;
1645 end(asap::PolAxis) = 2;
1646 Array<Float> C3 = data(start,end);
1647//
1648 start(asap::PolAxis) = 3;
1649 end(asap::PolAxis) = 3;
1650 Array<Float> C4 = data(start,end);
1651
1652// Rotate
1653
1654 SDPolUtil::rotateXYPhase(C3, C4, value);
1655
1656// Put
1657
1658 specCol_.put(i,data);
1659 }
1660}
[430]1661
1662
1663void SDMemTable::setCursorSlice (IPosition& start, IPosition& end,
1664 const IPosition& shape) const
1665{
1666 const uInt nDim = shape.nelements();
1667 start.resize(nDim);
1668 end.resize(nDim);
1669//
1670 start(asap::BeamAxis) = beamSel_;
1671 end(asap::BeamAxis) = beamSel_;
1672//
1673 start(asap::IFAxis) = IFSel_;
1674 end(asap::IFAxis) = IFSel_;
1675//
1676 start(asap::PolAxis) = polSel_;
1677 end(asap::PolAxis) = polSel_;
1678//
1679 start(asap::ChanAxis) = 0;
1680 end(asap::ChanAxis) = shape(asap::ChanAxis) - 1;
1681}
1682
1683
1684std::vector<float> SDMemTable::convertVector (const Vector<Float>& in) const
1685{
1686 std::vector<float> out(in.nelements());
1687 for (uInt i=0; i<in.nelements(); i++) {
1688 out[i] = in[i];
1689 }
1690 return out;
1691}
1692
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