source: trunk/src/SDMemTable.cc@ 425

Last change on this file since 425 was 418, checked in by kil064, 20 years ago

First go at handling polarimetric data

  • Add STOKES (virtual) column
  • Add function getStokesSpectrum
  • Add function rotateXYPhase
  • Property svn:eol-style set to native
  • Property svn:keywords set to Author Date Id Revision
File size: 44.4 KB
Line 
1//#---------------------------------------------------------------------------
2//# SDMemTable.cc: A MemoryTable container for single dish integrations
3//#---------------------------------------------------------------------------
4//# Copyright (C) 2004
5//# ATNF
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
32#include <map>
33
34#include <casa/aips.h>
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>
42#include <casa/Arrays/Vector.h>
43#include <casa/BasicMath/Math.h>
44#include <casa/Quanta/MVAngle.h>
45
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>
51
52#include <tables/Tables/ExprNode.h>
53#include <tables/Tables/TableRecord.h>
54#include <measures/Measures/MFrequency.h>
55#include <measures/Measures/MeasTable.h>
56#include <coordinates/Coordinates/CoordinateUtil.h>
57#include <casa/Quanta/MVTime.h>
58#include <casa/Quanta/MVAngle.h>
59
60#include "SDDefs.h"
61#include "SDMemTable.h"
62#include "SDContainer.h"
63#include "MathUtils.h"
64#include "SDPol.h"
65
66
67using namespace casa;
68using namespace asap;
69
70SDMemTable::SDMemTable() :
71 IFSel_(0),
72 beamSel_(0),
73 polSel_(0)
74{
75 setup();
76 attach();
77}
78
79SDMemTable::SDMemTable(const std::string& name) :
80 IFSel_(0),
81 beamSel_(0),
82 polSel_(0)
83{
84 Table tab(name);
85 table_ = tab.copyToMemoryTable("dummy");
86 //cerr << "hello from C SDMemTable @ " << this << endl;
87 attach();
88}
89
90SDMemTable::SDMemTable(const SDMemTable& other, Bool clear)
91{
92 IFSel_= other.IFSel_;
93 beamSel_= other.beamSel_;
94 polSel_= other.polSel_;
95 chanMask_ = other.chanMask_;
96 table_ = other.table_.copyToMemoryTable(String("dummy"));
97 // clear all rows()
98 if (clear) {
99 table_.removeRow(this->table_.rowNumbers());
100 } else {
101 IFSel_ = other.IFSel_;
102 beamSel_ = other.beamSel_;
103 polSel_ = other.polSel_;
104 }
105//
106 attach();
107 //cerr << "hello from CC SDMemTable @ " << this << endl;
108}
109
110SDMemTable::SDMemTable(const Table& tab, const std::string& exprs) :
111 IFSel_(0),
112 beamSel_(0),
113 polSel_(0)
114{
115 cout << exprs << endl;
116 Table t = tableCommand(exprs,tab);
117 if (t.nrow() == 0)
118 throw(AipsError("Query unsuccessful."));
119 table_ = t.copyToMemoryTable("dummy");
120 attach();
121 renumber();
122}
123
124SDMemTable::~SDMemTable()
125{
126 //cerr << "goodbye from SDMemTable @ " << this << endl;
127}
128
129SDMemTable SDMemTable::getScan(Int scanID) const
130{
131 String cond("SELECT * from $1 WHERE SCANID == ");
132 cond += String::toString(scanID);
133 return SDMemTable(table_, cond);
134}
135
136SDMemTable &SDMemTable::operator=(const SDMemTable& other)
137{
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"));
145 attach();
146 }
147 //cerr << "hello from ASS SDMemTable @ " << this << endl;
148 return *this;
149}
150
151SDMemTable SDMemTable::getSource(const std::string& source) const
152{
153 String cond("SELECT * from $1 WHERE SRCNAME == ");
154 cond += source;
155 return SDMemTable(table_, cond);
156}
157
158void SDMemTable::setup()
159{
160 TableDesc td("", "1", TableDesc::Scratch);
161 td.comment() = "A SDMemTable";
162//
163 td.addColumn(ScalarColumnDesc<Double>("TIME"));
164 td.addColumn(ScalarColumnDesc<String>("SRCNAME"));
165 td.addColumn(ArrayColumnDesc<Float>("SPECTRA"));
166 td.addColumn(ArrayColumnDesc<uChar>("FLAGTRA"));
167 td.addColumn(ArrayColumnDesc<Float>("TSYS"));
168 td.addColumn(ArrayColumnDesc<Float>("STOKES"));
169 td.addColumn(ScalarColumnDesc<Int>("SCANID"));
170 td.addColumn(ScalarColumnDesc<Double>("INTERVAL"));
171 td.addColumn(ArrayColumnDesc<uInt>("FREQID"));
172 td.addColumn(ArrayColumnDesc<uInt>("RESTFREQID"));
173 td.addColumn(ArrayColumnDesc<Double>("DIRECTION"));
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"));
181 td.addColumn(ArrayColumnDesc<String>("HISTORY"));
182
183 // Now create Table SetUp from the description.
184
185 SetupNewTable aNewTab("dummy", td, Table::New);
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
198 table_ = Table(aNewTab, Table::Memory, 0);
199}
200
201
202void SDMemTable::attach()
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");
209 stokesCol_.attach(table_, "STOKES");
210 scanCol_.attach(table_, "SCANID");
211 integrCol_.attach(table_, "INTERVAL");
212 freqidCol_.attach(table_, "FREQID");
213 restfreqidCol_.attach(table_, "RESTFREQID");
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
226std::string SDMemTable::getSourceName(Int whichRow) const
227{
228 String name;
229 srcnCol_.get(whichRow, name);
230 return name;
231}
232
233std::string SDMemTable::getTime(Int whichRow, Bool showDate) const
234{
235 Double tm;
236 if (whichRow > -1) {
237 timeCol_.get(whichRow, tm);
238 } else {
239 table_.keywordSet().get("UTC",tm);
240 }
241 MVTime mvt(tm);
242 if (showDate)
243 mvt.setFormat(MVTime::YMD);
244 else
245 mvt.setFormat(MVTime::TIME);
246 ostringstream oss;
247 oss << mvt;
248 return String(oss);
249}
250
251double SDMemTable::getInterval(Int whichRow) const
252{
253 Double intval;
254 integrCol_.get(whichRow, intval);
255 return intval;
256}
257
258bool SDMemTable::setIF(Int whichIF)
259{
260 if ( whichIF >= 0 && whichIF < nIF()) {
261 IFSel_ = whichIF;
262 return true;
263 }
264 return false;
265}
266
267bool SDMemTable::setBeam(Int whichBeam)
268{
269 if ( whichBeam >= 0 && whichBeam < nBeam()) {
270 beamSel_ = whichBeam;
271 return true;
272 }
273 return false;
274}
275
276bool SDMemTable::setPol(Int whichPol)
277{
278 if ( whichPol >= 0 && whichPol < nPol()) {
279 polSel_ = whichPol;
280 return true;
281 }
282 return false;
283}
284
285void SDMemTable::resetCursor()
286{
287 polSel_ = 0;
288 IFSel_ = 0;
289 beamSel_ = 0;
290}
291
292bool SDMemTable::setMask(std::vector<int> whichChans)
293{
294 std::vector<int>::iterator it;
295 uInt n = flagsCol_.shape(0)(3);
296 if (whichChans.empty()) {
297 chanMask_ = std::vector<bool>(n,true);
298 return true;
299 }
300 chanMask_.resize(n,true);
301 for (it = whichChans.begin(); it != whichChans.end(); ++it) {
302 if (*it < n) {
303 chanMask_[*it] = false;
304 }
305 }
306 return true;
307}
308
309std::vector<bool> SDMemTable::getMask(Int whichRow) const {
310 std::vector<bool> mask;
311 Array<uChar> arr;
312 flagsCol_.get(whichRow, arr);
313 ArrayAccessor<uChar, Axis<asap::BeamAxis> > aa0(arr);
314 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
315 ArrayAccessor<uChar, Axis<asap::IFAxis> > aa1(aa0);
316 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
317 ArrayAccessor<uChar, Axis<asap::PolAxis> > aa2(aa1);
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
327 for (ArrayAccessor<uChar, Axis<asap::ChanAxis> > i(aa2); i != i.end(); ++i) {
328 bool out =!static_cast<bool>(*i);
329 if (useUserMask) {
330 out = out && (*miter);
331 miter++;
332 }
333 mask.push_back(out);
334 }
335 return mask;
336}
337
338
339
340std::vector<float> SDMemTable::getSpectrum(Int whichRow) const
341{
342 Array<Float> arr;
343 specCol_.get(whichRow, arr);
344//
345 return getFloatSpectrum (arr);
346}
347
348std::vector<float> SDMemTable::getStokesSpectrum(Int whichRow, Bool doPol) const
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{
355 if (nPol()!=4) {
356 throw (AipsError("You must have 4 polarizations to get the Stokes parameters"));
357 }
358 Array<Float> arr;
359 stokesCol_.get(whichRow, arr);
360//
361 if (doPol && (polSel_==1 || polSel_==2)) {
362 const IPosition& shape = arr.shape();
363 IPosition start(asap::nAxes,0);
364 IPosition end(shape-1);
365//
366 start(asap::PolAxis) = 1; // Q
367 end (asap::PolAxis) = 1;
368 Array<Float> Q = arr(start,end);
369//
370 start(asap::PolAxis) = 2; // U
371 end (asap::PolAxis) = 2;
372 Array<Float> U = arr(start,end);
373//
374 Array<Float> out;
375 if (polSel_==1) { // P
376 out = SDPolUtil::polarizedIntensity(Q,U);
377 } else if (polSel_==2) { // P.A.
378 out = SDPolUtil::positionAngle(Q,U);
379 }
380//
381 IPosition vecShape(1,shape(asap::ChanAxis));
382 Vector<Float> outV = out.reform(vecShape);
383 std::vector<float> spectrum(out.nelements());
384 for (uInt i=0; i<out.nelements(); i++) {
385 spectrum[i] = outV[i];
386 }
387 return spectrum;
388 } else {
389 return getFloatSpectrum (arr);
390 }
391}
392
393std::vector<float> SDMemTable::getFloatSpectrum (const Array<Float>& arr) const
394{
395
396// Iterate and extract
397
398 ArrayAccessor<Float, Axis<asap::BeamAxis> > aa0(arr);
399 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
400 ArrayAccessor<Float, Axis<asap::IFAxis> > aa1(aa0);
401 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
402 ArrayAccessor<Float, Axis<asap::PolAxis> > aa2(aa1);
403 aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
404//
405 std::vector<float> spectrum;
406 for (ArrayAccessor<Float, Axis<asap::ChanAxis> > i(aa2); i != i.end(); ++i) {
407 spectrum.push_back(*i);
408 }
409 return spectrum;
410}
411
412
413std::vector<string> SDMemTable::getCoordInfo() const
414{
415 String un;
416 Table t = table_.keywordSet().asTable("FREQUENCIES");
417 String sunit;
418 t.keywordSet().get("UNIT",sunit);
419 String dpl;
420 t.keywordSet().get("DOPPLER",dpl);
421 if (dpl == "") dpl = "RADIO";
422 String rfrm;
423 t.keywordSet().get("REFFRAME",rfrm);
424 std::vector<string> inf;
425 inf.push_back(sunit);
426 inf.push_back(rfrm);
427 inf.push_back(dpl);
428 t.keywordSet().get("BASEREFFRAME",rfrm);
429 inf.push_back(rfrm);
430 return inf;
431}
432
433void SDMemTable::setCoordInfo(std::vector<string> theinfo)
434{
435 std::vector<string>::iterator it;
436 String un,rfrm, brfrm,dpl;
437 un = theinfo[0]; // Abcissa unit
438 rfrm = theinfo[1]; // Active (or conversion) frame
439 dpl = theinfo[2]; // Doppler
440 brfrm = theinfo[3]; // Base frame
441//
442 Table t = table_.rwKeywordSet().asTable("FREQUENCIES");
443//
444 Vector<Double> rstf;
445 t.keywordSet().get("RESTFREQS",rstf);
446//
447 Bool canDo = True;
448 Unit u1("km/s");Unit u2("Hz");
449 if (Unit(un) == u1) {
450 Vector<Double> rstf;
451 t.keywordSet().get("RESTFREQS",rstf);
452 if (rstf.nelements() == 0) {
453 throw(AipsError("Can't set unit to km/s if no restfrequencies are specified"));
454 }
455 } else if (Unit(un) != u2 && un != "") {
456 throw(AipsError("Unit not conformant with Spectral Coordinates"));
457 }
458 t.rwKeywordSet().define("UNIT", un);
459//
460 MFrequency::Types mdr;
461 if (!MFrequency::getType(mdr, rfrm)) {
462
463 Int a,b;const uInt* c;
464 const String* valid = MFrequency::allMyTypes(a, b, c);
465 String pfix = "Please specify a legal frame type. Types are\n";
466 throw(AipsError(pfix+(*valid)));
467 } else {
468 t.rwKeywordSet().define("REFFRAME",rfrm);
469 }
470//
471 MDoppler::Types dtype;
472 dpl.upcase();
473 if (!MDoppler::getType(dtype, dpl)) {
474 throw(AipsError("Doppler type unknown"));
475 } else {
476 t.rwKeywordSet().define("DOPPLER",dpl);
477 }
478//
479 if (!MFrequency::getType(mdr, brfrm)) {
480 Int a,b;const uInt* c;
481 const String* valid = MFrequency::allMyTypes(a, b, c);
482 String pfix = "Please specify a legal frame type. Types are\n";
483 throw(AipsError(pfix+(*valid)));
484 } else {
485 t.rwKeywordSet().define("BASEREFFRAME",brfrm);
486 }
487}
488
489
490std::vector<double> SDMemTable::getAbcissa(Int whichRow) const
491{
492 std::vector<double> abc(nChan());
493
494// Get header units keyword
495
496 Table t = table_.keywordSet().asTable("FREQUENCIES");
497 String sunit;
498 t.keywordSet().get("UNIT",sunit);
499 if (sunit == "") sunit = "pixel";
500 Unit u(sunit);
501
502// Easy if just wanting pixels
503
504 if (sunit==String("pixel")) {
505 // assume channels/pixels
506 std::vector<double>::iterator it;
507 uInt i=0;
508 for (it = abc.begin(); it != abc.end(); ++it) {
509 (*it) = Double(i++);
510 }
511//
512 return abc;
513 }
514
515// Continue with km/s or Hz. Get FreqIDs
516
517 Vector<uInt> freqIDs;
518 freqidCol_.get(whichRow, freqIDs);
519 uInt freqID = freqIDs(IFSel_);
520 restfreqidCol_.get(whichRow, freqIDs);
521 uInt restFreqID = freqIDs(IFSel_);
522
523// Get SpectralCoordinate, set reference frame conversion,
524// velocity conversion, and rest freq state
525
526 SpectralCoordinate spc = getSpectralCoordinate(freqID, restFreqID, whichRow);
527 Vector<Double> pixel(nChan());
528 indgen(pixel);
529//
530 if (u == Unit("km/s")) {
531 Vector<Double> world;
532 spc.pixelToVelocity(world,pixel);
533 std::vector<double>::iterator it;
534 uInt i = 0;
535 for (it = abc.begin(); it != abc.end(); ++it) {
536 (*it) = world[i];
537 i++;
538 }
539 } else if (u == Unit("Hz")) {
540
541// Set world axis units
542
543 Vector<String> wau(1); wau = u.getName();
544 spc.setWorldAxisUnits(wau);
545//
546 std::vector<double>::iterator it;
547 Double tmp;
548 uInt i = 0;
549 for (it = abc.begin(); it != abc.end(); ++it) {
550 spc.toWorld(tmp,pixel[i]);
551 (*it) = tmp;
552 i++;
553 }
554 }
555 return abc;
556}
557
558std::string SDMemTable::getAbcissaString(Int whichRow) const
559{
560 Table t = table_.keywordSet().asTable("FREQUENCIES");
561//
562 String sunit;
563 t.keywordSet().get("UNIT",sunit);
564 if (sunit == "") sunit = "pixel";
565 Unit u(sunit);
566//
567 Vector<uInt> freqIDs;
568 freqidCol_.get(whichRow, freqIDs);
569 uInt freqID = freqIDs(IFSel_);
570 restfreqidCol_.get(whichRow, freqIDs);
571 uInt restFreqID = freqIDs(IFSel_);
572
573// Get SpectralCoordinate, with frame, velocity, rest freq state set
574
575 SpectralCoordinate spc = getSpectralCoordinate(freqID, restFreqID, whichRow);
576//
577 String s = "Channel";
578 if (u == Unit("km/s")) {
579 s = CoordinateUtil::axisLabel(spc,0,True,True,True);
580 } else if (u == Unit("Hz")) {
581 Vector<String> wau(1);wau = u.getName();
582 spc.setWorldAxisUnits(wau);
583//
584 s = CoordinateUtil::axisLabel(spc,0,True,True,False);
585 }
586 return s;
587}
588
589void SDMemTable::setSpectrum(std::vector<float> spectrum, int whichRow)
590{
591 Array<Float> arr;
592 specCol_.get(whichRow, arr);
593 if (spectrum.size() != arr.shape()(3)) {
594 throw(AipsError("Attempting to set spectrum with incorrect length."));
595 }
596
597 ArrayAccessor<Float, Axis<asap::BeamAxis> > aa0(arr);
598 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
599 ArrayAccessor<Float, Axis<asap::IFAxis> > aa1(aa0);
600 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
601 ArrayAccessor<Float, Axis<asap::PolAxis> > aa2(aa1);
602 aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
603
604 std::vector<float>::iterator it = spectrum.begin();
605 for (ArrayAccessor<Float, Axis<asap::ChanAxis> > i(aa2); i != i.end(); ++i) {
606 (*i) = Float(*it);
607 it++;
608 }
609 specCol_.put(whichRow, arr);
610}
611
612void SDMemTable::getSpectrum(Vector<Float>& spectrum, Int whichRow) const
613{
614 Array<Float> arr;
615 specCol_.get(whichRow, arr);
616
617// Iterate and extract
618
619 spectrum.resize(arr.shape()(3));
620 ArrayAccessor<Float, Axis<asap::BeamAxis> > aa0(arr);
621 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
622 ArrayAccessor<Float, Axis<asap::IFAxis> > aa1(aa0);
623 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
624 ArrayAccessor<Float, Axis<asap::PolAxis> > aa2(aa1);
625 aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
626//
627 ArrayAccessor<Float, Axis<asap::BeamAxis> > va(spectrum);
628 for (ArrayAccessor<Float, Axis<asap::ChanAxis> > i(aa2); i != i.end(); ++i) {
629 (*va) = (*i);
630 va++;
631 }
632}
633
634
635/*
636void SDMemTable::getMask(Vector<Bool>& mask, Int whichRow) const {
637 Array<uChar> arr;
638 flagsCol_.get(whichRow, arr);
639 mask.resize(arr.shape()(3));
640
641 ArrayAccessor<uChar, Axis<asap::BeamAxis> > aa0(arr);
642 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
643 ArrayAccessor<uChar, Axis<asap::IFAxis> > aa1(aa0);
644 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
645 ArrayAccessor<uChar, Axis<asap::PolAxis> > aa2(aa1);
646 aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
647
648 Bool useUserMask = ( chanMask_.size() == arr.shape()(3) );
649
650 ArrayAccessor<Bool, Axis<asap::BeamAxis> > va(mask);
651 std::vector<bool> tmp;
652 tmp = chanMask_; // WHY the fxxx do I have to make a copy here. The
653 // iterator should work on chanMask_??
654 std::vector<bool>::iterator miter;
655 miter = tmp.begin();
656
657 for (ArrayAccessor<uChar, Axis<asap::ChanAxis> > i(aa2); i != i.end(); ++i) {
658 bool out =!static_cast<bool>(*i);
659 if (useUserMask) {
660 out = out && (*miter);
661 miter++;
662 }
663 (*va) = out;
664 va++;
665 }
666}
667*/
668MaskedArray<Float> SDMemTable::rowAsMaskedArray(uInt whichRow,
669 Bool useSelection) const
670{
671 Array<Float> arr;
672 Array<uChar> farr;
673 specCol_.get(whichRow, arr);
674 flagsCol_.get(whichRow, farr);
675 Array<Bool> barr(farr.shape());
676 convertArray(barr, farr);
677 MaskedArray<Float> marr;
678 if (useSelection) {
679 ArrayAccessor<Float, Axis<asap::BeamAxis> > aa0(arr);
680 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
681 ArrayAccessor<Float, Axis<asap::IFAxis> > aa1(aa0);
682 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
683 ArrayAccessor<Float, Axis<asap::PolAxis> > aa2(aa1);
684 aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
685
686 ArrayAccessor<Bool, Axis<asap::BeamAxis> > baa0(barr);
687 baa0.reset(baa0.begin(uInt(beamSel_)));//go to beam
688 ArrayAccessor<Bool, Axis<asap::IFAxis> > baa1(baa0);
689 baa1.reset(baa1.begin(uInt(IFSel_)));// go to IF
690 ArrayAccessor<Bool, Axis<asap::PolAxis> > baa2(baa1);
691 baa2.reset(baa2.begin(uInt(polSel_)));// go to pol
692
693 Vector<Float> a(arr.shape()(3));
694 Vector<Bool> b(barr.shape()(3));
695 ArrayAccessor<Float, Axis<asap::BeamAxis> > a0(a);
696 ArrayAccessor<Bool, Axis<asap::BeamAxis> > b0(b);
697
698 ArrayAccessor<Bool, Axis<asap::ChanAxis> > j(baa2);
699 for (ArrayAccessor<Float, Axis<asap::ChanAxis> > i(aa2);
700 i != i.end(); ++i) {
701 (*a0) = (*i);
702 (*b0) = !(*j);
703 j++;
704 a0++;
705 b0++;
706 }
707 marr.setData(a,b);
708 } else {
709 marr.setData(arr,!barr);
710 }
711 return marr;
712}
713
714Float SDMemTable::getTsys(Int whichRow) const
715{
716 Array<Float> arr;
717 tsCol_.get(whichRow, arr);
718 Float out;
719//
720 IPosition ip(arr.shape());
721 ip(asap::BeamAxis) = beamSel_;
722 ip(asap::IFAxis) = IFSel_;
723 ip(asap::PolAxis) = polSel_;
724 ip(asap::ChanAxis)=0; // First channel only
725//
726 out = arr(ip);
727 return out;
728}
729
730MDirection SDMemTable::getDirection(Int whichRow, Bool refBeam) const
731{
732 MDirection::Types mdr = getDirectionReference();
733 Array<Double> posit;
734 dirCol_.get(whichRow,posit);
735 Vector<Double> wpos(2);
736 Int rb;
737 rbeamCol_.get(whichRow,rb);
738 wpos[0] = posit(IPosition(2,beamSel_,0));
739 wpos[1] = posit(IPosition(2,beamSel_,1));
740 if (refBeam && rb > -1) { // use refBeam instead if it exists
741 wpos[0] = posit(IPosition(2,rb,0));
742 wpos[1] = posit(IPosition(2,rb,1));
743 }
744
745 Quantum<Double> lon(wpos[0],Unit(String("rad")));
746 Quantum<Double> lat(wpos[1],Unit(String("rad")));
747 return MDirection(lon, lat, mdr);
748}
749
750MEpoch SDMemTable::getEpoch(Int whichRow) const
751{
752 MEpoch::Types met = getTimeReference();
753//
754 Double obstime;
755 timeCol_.get(whichRow,obstime);
756 MVEpoch tm2(Quantum<Double>(obstime, Unit(String("d"))));
757 return MEpoch(tm2, met);
758}
759
760MPosition SDMemTable::getAntennaPosition () const
761{
762 Vector<Double> antpos;
763 table_.keywordSet().get("AntennaPosition", antpos);
764 MVPosition mvpos(antpos(0),antpos(1),antpos(2));
765 return MPosition(mvpos);
766}
767
768
769SpectralCoordinate SDMemTable::getSpectralCoordinate(uInt freqID) const
770{
771
772 Table t = table_.keywordSet().asTable("FREQUENCIES");
773 if (freqID> t.nrow() ) {
774 throw(AipsError("SDMemTable::getSpectralCoordinate - freqID out of range"));
775 }
776
777 Double rp,rv,inc;
778 String rf;
779 ROScalarColumn<Double> rpc(t, "REFPIX");
780 ROScalarColumn<Double> rvc(t, "REFVAL");
781 ROScalarColumn<Double> incc(t, "INCREMENT");
782 t.keywordSet().get("BASEREFFRAME",rf);
783
784// Create SpectralCoordinate (units Hz)
785
786 MFrequency::Types mft;
787 if (!MFrequency::getType(mft, rf)) {
788 cerr << "Frequency type unknown assuming TOPO" << endl;
789 mft = MFrequency::TOPO;
790 }
791 rpc.get(freqID, rp);
792 rvc.get(freqID, rv);
793 incc.get(freqID, inc);
794//
795 SpectralCoordinate spec(mft,rv,inc,rp);
796//
797 return spec;
798}
799
800
801SpectralCoordinate SDMemTable::getSpectralCoordinate(uInt freqID, uInt restFreqID,
802 uInt whichRow) const
803{
804
805// Create basic SC
806
807 SpectralCoordinate spec = getSpectralCoordinate (freqID);
808//
809 Table t = table_.keywordSet().asTable("FREQUENCIES");
810
811// Set rest frequency
812
813 Vector<Double> restFreqIDs;
814 t.keywordSet().get("RESTFREQS",restFreqIDs);
815 if (restFreqID < restFreqIDs.nelements()) { // SHould always be true
816 spec.setRestFrequency(restFreqIDs(restFreqID),True);
817 }
818
819// Set up frame conversion layer
820
821 String frm;
822 t.keywordSet().get("REFFRAME",frm);
823 if (frm == "") frm = "TOPO";
824 MFrequency::Types mtype;
825 if (!MFrequency::getType(mtype, frm)) {
826 cerr << "Frequency type unknown assuming TOPO" << endl; // SHould never happen
827 mtype = MFrequency::TOPO;
828 }
829
830// Set reference frame conversion (requires row)
831
832 MDirection dir = getDirection(whichRow);
833 MEpoch epoch = getEpoch(whichRow);
834 MPosition pos = getAntennaPosition();
835//
836 if (!spec.setReferenceConversion(mtype,epoch,pos,dir)) {
837 throw(AipsError("Couldn't convert frequency frame."));
838 }
839
840// Now velocity conversion if appropriate
841
842 String unitStr;
843 t.keywordSet().get("UNIT",unitStr);
844//
845 String dpl;
846 t.keywordSet().get("DOPPLER",dpl);
847 MDoppler::Types dtype;
848 MDoppler::getType(dtype, dpl);
849
850// Only set velocity unit if non-blank and non-Hz
851
852 if (!unitStr.empty()) {
853 Unit unitU(unitStr);
854 if (unitU==Unit("Hz")) {
855 } else {
856 spec.setVelocity(unitStr, dtype);
857 }
858 }
859//
860 return spec;
861}
862
863
864Bool SDMemTable::setCoordinate(const SpectralCoordinate& speccord,
865 uInt freqID) {
866 Table t = table_.rwKeywordSet().asTable("FREQUENCIES");
867 if (freqID > t.nrow() ) {
868 throw(AipsError("SDMemTable::setCoordinate - coord no out of range"));
869 }
870 ScalarColumn<Double> rpc(t, "REFPIX");
871 ScalarColumn<Double> rvc(t, "REFVAL");
872 ScalarColumn<Double> incc(t, "INCREMENT");
873
874 rpc.put(freqID, speccord.referencePixel()[0]);
875 rvc.put(freqID, speccord.referenceValue()[0]);
876 incc.put(freqID, speccord.increment()[0]);
877
878 return True;
879}
880
881Int SDMemTable::nCoordinates() const
882{
883 return table_.keywordSet().asTable("FREQUENCIES").nrow();
884}
885
886
887std::vector<double> SDMemTable::getRestFreqs() const
888{
889 Table t = table_.keywordSet().asTable("FREQUENCIES");
890 Vector<Double> tvec;
891 t.keywordSet().get("RESTFREQS",tvec);
892 std::vector<double> stlout;
893 tvec.tovector(stlout);
894 return stlout;
895}
896
897bool SDMemTable::putSDFreqTable(const SDFrequencyTable& sdft)
898{
899 TableDesc td("", "1", TableDesc::Scratch);
900 td.addColumn(ScalarColumnDesc<Double>("REFPIX"));
901 td.addColumn(ScalarColumnDesc<Double>("REFVAL"));
902 td.addColumn(ScalarColumnDesc<Double>("INCREMENT"));
903 SetupNewTable aNewTab("freqs", td, Table::New);
904 Table aTable (aNewTab, Table::Memory, sdft.length());
905 ScalarColumn<Double> sc0(aTable, "REFPIX");
906 ScalarColumn<Double> sc1(aTable, "REFVAL");
907 ScalarColumn<Double> sc2(aTable, "INCREMENT");
908 for (uInt i=0; i < sdft.length(); ++i) {
909 sc0.put(i,sdft.referencePixel(i));
910 sc1.put(i,sdft.referenceValue(i));
911 sc2.put(i,sdft.increment(i));
912 }
913 String rf = sdft.refFrame();
914 if (rf.contains("TOPO")) rf = "TOPO";
915
916 aTable.rwKeywordSet().define("BASEREFFRAME", rf);
917 aTable.rwKeywordSet().define("REFFRAME", rf);
918 aTable.rwKeywordSet().define("EQUINOX", sdft.equinox());
919 aTable.rwKeywordSet().define("UNIT", String(""));
920 aTable.rwKeywordSet().define("DOPPLER", String("RADIO"));
921 Vector<Double> rfvec;
922 String rfunit;
923 sdft.restFrequencies(rfvec,rfunit);
924 Quantum<Vector<Double> > q(rfvec, rfunit);
925 rfvec.resize();
926 rfvec = q.getValue("Hz");
927 aTable.rwKeywordSet().define("RESTFREQS", rfvec);
928 table_.rwKeywordSet().defineTable ("FREQUENCIES", aTable);
929 return True;
930}
931
932SDFrequencyTable SDMemTable::getSDFreqTable() const
933{
934 const Table& t = table_.keywordSet().asTable("FREQUENCIES");
935 SDFrequencyTable sdft;
936
937// Add refpix/refval/incr. What are the units ? Hz I suppose
938// but it's nowhere described...
939
940 Vector<Double> refPix, refVal, incr;
941 ScalarColumn<Double> refPixCol(t, "REFPIX");
942 ScalarColumn<Double> refValCol(t, "REFVAL");
943 ScalarColumn<Double> incrCol(t, "INCREMENT");
944 refPix = refPixCol.getColumn();
945 refVal = refValCol.getColumn();
946 incr = incrCol.getColumn();
947//
948 uInt n = refPix.nelements();
949 for (uInt i=0; i<n; i++) {
950 sdft.addFrequency(refPix[i], refVal[i], incr[i]);
951 }
952
953// Frequency reference frame. I don't know if this
954// is the correct frame. It might be 'REFFRAME'
955// rather than 'BASEREFFRAME' ?
956
957 String baseFrame;
958 t.keywordSet().get("BASEREFFRAME",baseFrame);
959 sdft.setRefFrame(baseFrame);
960
961// Equinox
962
963 Float equinox;
964 t.keywordSet().get("EQUINOX", equinox);
965 sdft.setEquinox(equinox);
966
967// Rest Frequency
968
969 Vector<Double> restFreqs;
970 t.keywordSet().get("RESTFREQS", restFreqs);
971 for (uInt i=0; i<restFreqs.nelements(); i++) {
972 sdft.addRestFrequency(restFreqs[i]);
973 }
974 sdft.setRestFrequencyUnit(String("Hz"));
975//
976 return sdft;
977}
978
979bool SDMemTable::putSDContainer(const SDContainer& sdc)
980{
981 uInt rno = table_.nrow();
982 table_.addRow();
983//
984 timeCol_.put(rno, sdc.timestamp);
985 srcnCol_.put(rno, sdc.sourcename);
986 fldnCol_.put(rno, sdc.fieldname);
987 specCol_.put(rno, sdc.getSpectrum());
988 flagsCol_.put(rno, sdc.getFlags());
989 tsCol_.put(rno, sdc.getTsys());
990 scanCol_.put(rno, sdc.scanid);
991 integrCol_.put(rno, sdc.interval);
992 freqidCol_.put(rno, sdc.getFreqMap());
993 restfreqidCol_.put(rno, sdc.getRestFreqMap());
994 dirCol_.put(rno, sdc.getDirection());
995 rbeamCol_.put(rno, sdc.refbeam);
996 tcalCol_.put(rno, sdc.tcal);
997 tcaltCol_.put(rno, sdc.tcaltime);
998 azCol_.put(rno, sdc.azimuth);
999 elCol_.put(rno, sdc.elevation);
1000 paraCol_.put(rno, sdc.parangle);
1001 histCol_.put(rno, sdc.getHistory());
1002//
1003 return true;
1004}
1005
1006SDContainer SDMemTable::getSDContainer(uInt whichRow) const
1007{
1008 SDContainer sdc(nBeam(),nIF(),nPol(),nChan());
1009 timeCol_.get(whichRow, sdc.timestamp);
1010 srcnCol_.get(whichRow, sdc.sourcename);
1011 integrCol_.get(whichRow, sdc.interval);
1012 scanCol_.get(whichRow, sdc.scanid);
1013 fldnCol_.get(whichRow, sdc.fieldname);
1014 rbeamCol_.get(whichRow, sdc.refbeam);
1015 azCol_.get(whichRow, sdc.azimuth);
1016 elCol_.get(whichRow, sdc.elevation);
1017 paraCol_.get(whichRow, sdc.parangle);
1018 Vector<Float> tc;
1019 tcalCol_.get(whichRow, tc);
1020 sdc.tcal[0] = tc[0];sdc.tcal[1] = tc[1];
1021 tcaltCol_.get(whichRow, sdc.tcaltime);
1022//
1023 Array<Float> spectrum;
1024 Array<Float> tsys;
1025 Array<uChar> flagtrum;
1026 Vector<uInt> fmap;
1027 Array<Double> direction;
1028 Vector<String> histo;
1029//
1030 specCol_.get(whichRow, spectrum);
1031 sdc.putSpectrum(spectrum);
1032 flagsCol_.get(whichRow, flagtrum);
1033 sdc.putFlags(flagtrum);
1034 tsCol_.get(whichRow, tsys);
1035 sdc.putTsys(tsys);
1036 freqidCol_.get(whichRow, fmap);
1037 sdc.putFreqMap(fmap);
1038 restfreqidCol_.get(whichRow, fmap);
1039 sdc.putRestFreqMap(fmap);
1040 dirCol_.get(whichRow, direction);
1041 sdc.putDirection(direction);
1042 histCol_.get(whichRow, histo);
1043 sdc.putHistory(histo);
1044 return sdc;
1045}
1046
1047bool SDMemTable::putSDHeader(const SDHeader& sdh)
1048{
1049 table_.rwKeywordSet().define("nIF", sdh.nif);
1050 table_.rwKeywordSet().define("nBeam", sdh.nbeam);
1051 table_.rwKeywordSet().define("nPol", sdh.npol);
1052 table_.rwKeywordSet().define("nChan", sdh.nchan);
1053 table_.rwKeywordSet().define("Observer", sdh.observer);
1054 table_.rwKeywordSet().define("Project", sdh.project);
1055 table_.rwKeywordSet().define("Obstype", sdh.obstype);
1056 table_.rwKeywordSet().define("AntennaName", sdh.antennaname);
1057 table_.rwKeywordSet().define("AntennaPosition", sdh.antennaposition);
1058 table_.rwKeywordSet().define("Equinox", sdh.equinox);
1059 table_.rwKeywordSet().define("FreqRefFrame", sdh.freqref);
1060 table_.rwKeywordSet().define("FreqRefVal", sdh.reffreq);
1061 table_.rwKeywordSet().define("Bandwidth", sdh.bandwidth);
1062 table_.rwKeywordSet().define("UTC", sdh.utc);
1063 table_.rwKeywordSet().define("FluxUnit", sdh.fluxunit);
1064 table_.rwKeywordSet().define("Epoch", sdh.epoch);
1065 return true;
1066}
1067
1068SDHeader SDMemTable::getSDHeader() const
1069{
1070 SDHeader sdh;
1071 table_.keywordSet().get("nBeam",sdh.nbeam);
1072 table_.keywordSet().get("nIF",sdh.nif);
1073 table_.keywordSet().get("nPol",sdh.npol);
1074 table_.keywordSet().get("nChan",sdh.nchan);
1075 table_.keywordSet().get("Observer", sdh.observer);
1076 table_.keywordSet().get("Project", sdh.project);
1077 table_.keywordSet().get("Obstype", sdh.obstype);
1078 table_.keywordSet().get("AntennaName", sdh.antennaname);
1079 table_.keywordSet().get("AntennaPosition", sdh.antennaposition);
1080 table_.keywordSet().get("Equinox", sdh.equinox);
1081 table_.keywordSet().get("FreqRefFrame", sdh.freqref);
1082 table_.keywordSet().get("FreqRefVal", sdh.reffreq);
1083 table_.keywordSet().get("Bandwidth", sdh.bandwidth);
1084 table_.keywordSet().get("UTC", sdh.utc);
1085 table_.keywordSet().get("FluxUnit", sdh.fluxunit);
1086 table_.keywordSet().get("Epoch", sdh.epoch);
1087 return sdh;
1088}
1089void SDMemTable::makePersistent(const std::string& filename)
1090{
1091 table_.deepCopy(filename,Table::New);
1092}
1093
1094Int SDMemTable::nScan() const {
1095 Int n = 0;
1096 Int previous = -1;Int current=0;
1097 for (uInt i=0; i< scanCol_.nrow();i++) {
1098 scanCol_.getScalar(i,current);
1099 if (previous != current) {
1100 previous = current;
1101 n++;
1102 }
1103 }
1104 return n;
1105}
1106
1107String SDMemTable::formatSec(Double x) const
1108{
1109 Double xcop = x;
1110 MVTime mvt(xcop/24./3600.); // make days
1111
1112 if (x < 59.95)
1113 return String(" ") + mvt.string(MVTime::TIME_CLEAN_NO_HM, 7)+"s";
1114 else if (x < 3599.95)
1115 return String(" ") + mvt.string(MVTime::TIME_CLEAN_NO_H,7)+" ";
1116 else {
1117 ostringstream oss;
1118 oss << setw(2) << std::right << setprecision(1) << mvt.hour();
1119 oss << ":" << mvt.string(MVTime::TIME_CLEAN_NO_H,7) << " ";
1120 return String(oss);
1121 }
1122};
1123
1124String SDMemTable::formatDirection(const MDirection& md) const
1125{
1126 Vector<Double> t = md.getAngle(Unit(String("rad"))).getValue();
1127 Int prec = 7;
1128
1129 MVAngle mvLon(t[0]);
1130 String sLon = mvLon.string(MVAngle::TIME,prec);
1131 MVAngle mvLat(t[1]);
1132 String sLat = mvLat.string(MVAngle::ANGLE+MVAngle::DIG2,prec);
1133 return sLon + String(" ") + sLat;
1134}
1135
1136
1137std::string SDMemTable::getFluxUnit() const
1138{
1139 String tmp;
1140 table_.keywordSet().get("FluxUnit", tmp);
1141 return tmp;
1142}
1143
1144void SDMemTable::setFluxUnit(const std::string& unit)
1145{
1146 String tmp(unit);
1147 Unit tU(tmp);
1148 if (tU==Unit("K") || tU==Unit("Jy")) {
1149 table_.rwKeywordSet().define(String("FluxUnit"), tmp);
1150 } else {
1151 throw AipsError("Illegal unit - must be compatible with Jy or K");
1152 }
1153}
1154
1155
1156void SDMemTable::setInstrument(const std::string& name)
1157{
1158 Bool throwIt = True;
1159 Instrument ins = convertInstrument (name, throwIt);
1160 String nameU(name);
1161 nameU.upcase();
1162 table_.rwKeywordSet().define(String("AntennaName"), nameU);
1163}
1164
1165std::string SDMemTable::summary(bool verbose) const {
1166
1167// Format header info
1168
1169 ostringstream oss;
1170 oss << endl;
1171 oss << "--------------------------------------------------------------------------------" << endl;
1172 oss << " Scan Table Summary" << endl;
1173 oss << "--------------------------------------------------------------------------------" << endl;
1174 oss.flags(std::ios_base::left);
1175 oss << setw(15) << "Beams:" << setw(4) << nBeam() << endl
1176 << setw(15) << "IFs:" << setw(4) << nIF() << endl
1177 << setw(15) << "Polarisations:" << setw(4) << nPol() << endl
1178 << setw(15) << "Channels:" << setw(4) << nChan() << endl;
1179 oss << endl;
1180 String tmp;
1181 table_.keywordSet().get("Observer", tmp);
1182 oss << setw(15) << "Observer:" << tmp << endl;
1183 oss << setw(15) << "Obs Date:" << getTime(-1,True) << endl;
1184 table_.keywordSet().get("Project", tmp);
1185 oss << setw(15) << "Project:" << tmp << endl;
1186 table_.keywordSet().get("Obstype", tmp);
1187 oss << setw(15) << "Obs. Type:" << tmp << endl;
1188 table_.keywordSet().get("AntennaName", tmp);
1189 oss << setw(15) << "Antenna Name:" << tmp << endl;
1190 table_.keywordSet().get("FluxUnit", tmp);
1191 oss << setw(15) << "Flux Unit:" << tmp << endl;
1192 Table t = table_.keywordSet().asTable("FREQUENCIES");
1193 Vector<Double> vec;
1194 t.keywordSet().get("RESTFREQS",vec);
1195 oss << setw(15) << "Rest Freqs:";
1196 if (vec.nelements() > 0) {
1197 oss << setprecision(0) << vec << " [Hz]" << endl;
1198 } else {
1199 oss << "None set" << endl;
1200 }
1201 oss << setw(15) << "Abcissa:" << getAbcissaString() << endl;
1202 oss << setw(15) << "Cursor:" << "Beam[" << getBeam() << "] "
1203 << "IF[" << getIF() << "] " << "Pol[" << getPol() << "]" << endl;
1204 oss << endl;
1205//
1206 String dirtype ="Position ("+ MDirection::showType(getDirectionReference()) + ")";
1207 oss << setw(5) << "Scan"
1208 << setw(15) << "Source"
1209 << setw(24) << dirtype
1210 << setw(10) << "Time"
1211 << setw(18) << "Integration"
1212 << setw(7) << "FreqIDs" << endl;
1213 oss << "--------------------------------------------------------------------------------" << endl;
1214
1215// Generate list of scan start and end integrations
1216
1217 Vector<Int> scanIDs = scanCol_.getColumn();
1218 Vector<uInt> startInt, endInt;
1219 mathutil::scanBoundaries(startInt, endInt, scanIDs);
1220//
1221 const uInt nScans = startInt.nelements();
1222 String name;
1223 Vector<uInt> freqIDs, listFQ;
1224 uInt nInt;
1225//
1226 for (uInt i=0; i<nScans; i++) {
1227
1228// Get things from first integration of scan
1229
1230 String time = getTime(startInt(i),False);
1231 String tInt = formatSec(Double(getInterval(startInt(i))));
1232 String posit = formatDirection(getDirection(startInt(i),True));
1233 srcnCol_.getScalar(startInt(i),name);
1234
1235// Find all the FreqIDs in this scan
1236
1237 listFQ.resize(0);
1238 for (uInt j=startInt(i); j<endInt(i)+1; j++) {
1239 freqidCol_.get(j, freqIDs);
1240 for (uInt k=0; k<freqIDs.nelements(); k++) {
1241 mathutil::addEntry(listFQ, freqIDs(k));
1242 }
1243 }
1244//
1245 nInt = endInt(i) - startInt(i) + 1;
1246 oss << setw(3) << std::right << i << std::left << setw(2) << " "
1247 << setw(15) << name
1248 << setw(24) << posit
1249 << setw(10) << time
1250 << setw(3) << std::right << nInt << setw(3) << " x " << std::left
1251 << setw(6) << tInt
1252 << " " << listFQ << endl;
1253 }
1254 oss << endl;
1255 oss << "Table contains " << table_.nrow() << " integration(s) in " << nScans << " scan(s)." << endl;
1256
1257// Frequency Table
1258
1259 if (verbose) {
1260 std::vector<string> info = getCoordInfo();
1261 SDFrequencyTable sdft = getSDFreqTable();
1262 oss << endl << endl;
1263 oss << "FreqID Frame RefFreq(Hz) RefPix Increment(Hz)" << endl;
1264 oss << "--------------------------------------------------------------------------------" << endl;
1265 for (uInt i=0; i<sdft.length(); i++) {
1266 oss << setw(8) << i << setw(8)
1267 << info[3] << setw(16) << setprecision(8)
1268 << sdft.referenceValue(i) << setw(10)
1269 << sdft.referencePixel(i) << setw(12)
1270 << sdft.increment(i) << endl;
1271 }
1272 oss << "--------------------------------------------------------------------------------" << endl;
1273 }
1274 return String(oss);
1275}
1276
1277Int SDMemTable::nBeam() const
1278{
1279 Int n;
1280 table_.keywordSet().get("nBeam",n);
1281 return n;
1282}
1283Int SDMemTable::nIF() const {
1284 Int n;
1285 table_.keywordSet().get("nIF",n);
1286 return n;
1287}
1288Int SDMemTable::nPol() const {
1289 Int n;
1290 table_.keywordSet().get("nPol",n);
1291 return n;
1292}
1293Int SDMemTable::nChan() const {
1294 Int n;
1295 table_.keywordSet().get("nChan",n);
1296 return n;
1297}
1298bool SDMemTable::appendHistory(const std::string& hist, int whichRow)
1299{
1300 Vector<String> history;
1301 histCol_.get(whichRow, history);
1302 history.resize(history.nelements()+1,True);
1303 history[history.nelements()-1] = hist;
1304 histCol_.put(whichRow, history);
1305}
1306
1307std::vector<std::string> SDMemTable::history(int whichRow) const
1308{
1309 Vector<String> history;
1310 histCol_.get(whichRow, history);
1311 std::vector<std::string> stlout;
1312 // there is no Array<String>.tovector(std::vector<std::string>), so
1313 // do it by hand
1314 for (uInt i=0; i<history.nelements(); ++i) {
1315 stlout.push_back(history[i]);
1316 }
1317 return stlout;
1318}
1319/*
1320void SDMemTable::maskChannels(const std::vector<Int>& whichChans ) {
1321
1322 std::vector<int>::iterator it;
1323 ArrayAccessor<uChar, Axis<asap::PolAxis> > j(flags_);
1324 for (it = whichChans.begin(); it != whichChans.end(); it++) {
1325 j.reset(j.begin(uInt(*it)));
1326 for (ArrayAccessor<uChar, Axis<asap::BeamAxis> > i(j); i != i.end(); ++i) {
1327 for (ArrayAccessor<uChar, Axis<asap::IFAxis> > ii(i); ii != ii.end(); ++ii) {
1328 for (ArrayAccessor<uChar, Axis<asap::ChanAxis> > iii(ii);
1329 iii != iii.end(); ++iii) {
1330 (*iii) =
1331 }
1332 }
1333 }
1334 }
1335
1336}
1337*/
1338void SDMemTable::flag(int whichRow)
1339{
1340 Array<uChar> arr;
1341 flagsCol_.get(whichRow, arr);
1342
1343 ArrayAccessor<uChar, Axis<asap::BeamAxis> > aa0(arr);
1344 aa0.reset(aa0.begin(uInt(beamSel_)));//go to beam
1345 ArrayAccessor<uChar, Axis<asap::IFAxis> > aa1(aa0);
1346 aa1.reset(aa1.begin(uInt(IFSel_)));// go to IF
1347 ArrayAccessor<uChar, Axis<asap::PolAxis> > aa2(aa1);
1348 aa2.reset(aa2.begin(uInt(polSel_)));// go to pol
1349
1350 for (ArrayAccessor<uChar, Axis<asap::ChanAxis> > i(aa2); i != i.end(); ++i) {
1351 (*i) = uChar(True);
1352 }
1353
1354 flagsCol_.put(whichRow, arr);
1355}
1356
1357MDirection::Types SDMemTable::getDirectionReference() const
1358{
1359 Float eq;
1360 table_.keywordSet().get("Equinox",eq);
1361 std::map<float,string> mp;
1362 mp[2000.0] = "J2000";
1363 mp[1950.0] = "B1950";
1364 MDirection::Types mdr;
1365 if (!MDirection::getType(mdr, mp[eq])) {
1366 mdr = MDirection::J2000;
1367 cerr << "Unknown equinox using J2000" << endl;
1368 }
1369//
1370 return mdr;
1371}
1372
1373MEpoch::Types SDMemTable::getTimeReference() const
1374{
1375 MEpoch::Types met;
1376 String ep;
1377 table_.keywordSet().get("Epoch",ep);
1378 if (!MEpoch::getType(met, ep)) {
1379 cerr << "Epoch type unknown - using UTC" << endl;
1380 met = MEpoch::UTC;
1381 }
1382//
1383 return met;
1384}
1385
1386
1387Instrument SDMemTable::convertInstrument(const String& instrument,
1388 Bool throwIt)
1389{
1390 String t(instrument);
1391 t.upcase();
1392
1393// The strings are what SDReader returns, after cunning interrogation
1394// of station names... :-(
1395
1396 Instrument inst = asap::UNKNOWN;
1397 if (t==String("DSS-43")) {
1398 inst = TIDBINBILLA;
1399 } else if (t==String("ATPKSMB")) {
1400 inst = ATPKSMB;
1401 } else if (t==String("ATPKSHOH")) {
1402 inst = ATPKSHOH;
1403 } else if (t==String("ATMOPRA")) {
1404 inst = ATMOPRA;
1405 } else if (t==String("CEDUNA")) {
1406 inst = CEDUNA;
1407 } else if (t==String("HOBART")) {
1408 inst = HOBART;
1409 } else {
1410 if (throwIt) {
1411 throw AipsError("Unrecognized instrument - use function scan.set_instrument to set");
1412 }
1413 }
1414 return inst;
1415}
1416
1417Bool SDMemTable::setRestFreqs (const Vector<Double>& restFreqsIn,
1418 const String& sUnit,
1419 const vector<string>& lines,
1420 const String& source,
1421 Int whichIF)
1422{
1423 const Int nIFs = nIF();
1424 if (whichIF>=nIFs) {
1425 throw(AipsError("Illegal IF index"));
1426 }
1427
1428// FInd vector of restfrequencies
1429// Double takes precedence over String
1430
1431 Unit unit;
1432 Vector<Double> restFreqs;
1433 if (restFreqsIn.nelements()>0) {
1434 restFreqs.resize(restFreqsIn.nelements());
1435 restFreqs = restFreqsIn;
1436 unit = Unit(sUnit);
1437 } else if (lines.size()>0) {
1438 const uInt nLines = lines.size();
1439 unit = Unit("Hz");
1440 restFreqs.resize(nLines);
1441 MFrequency lineFreq;
1442 for (uInt i=0; i<nLines; i++) {
1443 String tS(lines[i]);
1444 tS.upcase();
1445 if (MeasTable::Line(lineFreq, tS)) {
1446 restFreqs[i] = lineFreq.getValue().getValue(); // Hz
1447 } else {
1448 String s = String(lines[i]) + String(" is an unrecognized spectral line");
1449 throw(AipsError(s));
1450 }
1451 }
1452 } else {
1453 throw(AipsError("You have not specified any rest frequencies or lines"));
1454 }
1455
1456// If multiple restfreqs, must be length nIF. In this
1457// case we will just replace the rest frequencies
1458//
1459
1460 const uInt nRestFreqs = restFreqs.nelements();
1461 Int idx = -1;
1462 SDFrequencyTable sdft = getSDFreqTable();
1463
1464 if (nRestFreqs>1) {
1465
1466// Replace restFreqs, one per IF
1467
1468 if (nRestFreqs != nIFs) {
1469 throw (AipsError("Number of rest frequencies must be equal to the number of IFs"));
1470 }
1471 cout << "Replacing rest frequencies with given list, one per IF" << endl;
1472//
1473 sdft.deleteRestFrequencies();
1474 for (uInt i=0; i<nRestFreqs; i++) {
1475 Quantum<Double> rf(restFreqs[i], unit);
1476 sdft.addRestFrequency(rf.getValue("Hz"));
1477 }
1478 } else {
1479
1480// Add new rest freq
1481
1482 Quantum<Double> rf(restFreqs[0], unit);
1483 idx = sdft.addRestFrequency(rf.getValue("Hz"));
1484 cout << "Selecting given rest frequency" << endl;
1485 }
1486
1487// Replace
1488
1489 Bool empty = source.empty();
1490 Bool ok = False;
1491 if (putSDFreqTable(sdft)) {
1492 const uInt nRow = table_.nrow();
1493 String srcName;
1494 Vector<uInt> restFreqIDs;
1495 for (uInt i=0; i<nRow; i++) {
1496 srcnCol_.get(i, srcName);
1497 restfreqidCol_.get(i,restFreqIDs);
1498//
1499 if (idx==-1) {
1500
1501// Replace vector of restFreqs; one per IF.
1502// No selection possible
1503
1504 for (uInt i=0; i<nIFs; i++) restFreqIDs[i] = i;
1505 } else {
1506
1507// Set RestFreqID for selected data
1508
1509 if (empty || source==srcName) {
1510 if (whichIF<0) {
1511 restFreqIDs = idx;
1512 } else {
1513 restFreqIDs[whichIF] = idx;
1514 }
1515 }
1516 }
1517//
1518 restfreqidCol_.put(i,restFreqIDs);
1519 }
1520 ok = True;
1521 } else {
1522 ok = False;
1523 }
1524//
1525 return ok;
1526}
1527
1528void SDMemTable::spectralLines() const
1529{
1530 Vector<String> lines = MeasTable::Lines();
1531 MFrequency lineFreq;
1532 Double freq;
1533//
1534 cout.flags(std::ios_base::left);
1535 cout << "Line Frequency (Hz)" << endl;
1536 cout << "-----------------------" << endl;
1537 for (uInt i=0; i<lines.nelements(); i++) {
1538 MeasTable::Line(lineFreq, lines[i]);
1539 freq = lineFreq.getValue().getValue(); // Hz
1540//
1541 cout << setw(11) << lines[i] << setprecision(10) << freq << endl;
1542 }
1543}
1544
1545void SDMemTable::renumber()
1546{
1547 uInt nRow = scanCol_.nrow();
1548 Int newscanid = 0;
1549 Int cIdx;// the current scanid
1550 // get the first scanid
1551 scanCol_.getScalar(0,cIdx);
1552 Int pIdx = cIdx;// the scanid of the previous row
1553 for (uInt i=0; i<nRow;++i) {
1554 scanCol_.getScalar(i,cIdx);
1555 if (pIdx == cIdx) {
1556 // renumber
1557 scanCol_.put(i,newscanid);
1558 } else {
1559 ++newscanid;
1560 pIdx = cIdx; // store scanid
1561 --i; // don't increment next loop
1562 }
1563 }
1564}
1565
1566
1567void SDMemTable::rotateXYPhase (Float value)
1568//
1569// phase in degrees
1570//
1571{
1572 if (nPol() != 4) {
1573 throw(AipsError("You must have 4 polarizations to run this function"));
1574 }
1575//
1576 IPosition start(asap::nAxes,0);
1577 IPosition end(asap::nAxes);
1578//
1579 uInt nRow = specCol_.nrow();
1580 Array<Float> data;
1581 for (uInt i=0; i<nRow;++i) {
1582 specCol_.get(i,data);
1583 end = data.shape()-1;
1584
1585// Get polarization slice references
1586
1587 start(asap::PolAxis) = 2;
1588 end(asap::PolAxis) = 2;
1589 Array<Float> C3 = data(start,end);
1590//
1591 start(asap::PolAxis) = 3;
1592 end(asap::PolAxis) = 3;
1593 Array<Float> C4 = data(start,end);
1594
1595// Rotate
1596
1597 SDPolUtil::rotateXYPhase(C3, C4, value);
1598
1599// Put
1600
1601 specCol_.put(i,data);
1602 }
1603}
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