source: trunk/src/STSideBandSep.cpp@ 3099

Last change on this file since 3099 was 3092, checked in by Kana Sugimoto, 9 years ago

New Development: No

JIRA Issue: No

Ready for Test: Yes

Interface Changes: No

What Interface Changed: Please list interface changes

Test Programs: List test programs

Put in Release Notes: No

Module(s): sbseparator

Description: A fix suggested by Ville. Added the name space, std, to the call to tolower.
File size: 51.0 KB
Line 
1// C++ Interface: STSideBandSep
2//
3// Description:
4// A class to invoke sideband separation of Scantable
5//
6// Author: Kana Sugimoto <kana.sugi@nao.ac.jp>, (C) 2012
7//
8// Copyright: See COPYING file that comes with this distribution
9//
10//
11
12// asap
13#include "STGrid.h"
14#include "STMath.h"
15#include "MathUtils.h"
16#include "STSideBandSep.h"
17
18// STL
19#include <ctype.h>
20
21// cascore
22#include <casa/OS/File.h>
23#include <casa/Logging/LogIO.h>
24#include <casa/Quanta/QuantumHolder.h>
25
26#include <measures/Measures/MFrequency.h>
27#include <measures/Measures/MCFrequency.h>
28
29#include <tables/Tables/TableRow.h>
30#include <tables/Tables/TableRecord.h>
31#include <tables/Tables/TableVector.h>
32
33using namespace std ;
34using namespace casa ;
35using namespace asap ;
36
37// #ifndef KS_DEBUG
38// #define KS_DEBUG
39// #endif
40
41namespace asap {
42
43// constructors
44STSideBandSep::STSideBandSep(const vector<string> &names)
45{
46 LogIO os(LogOrigin("STSideBandSep","STSideBandSep()", WHERE));
47 os << "Setting scantable names to process." << LogIO::POST ;
48 // Set file names
49 ntable_ = names.size();
50 infileList_.resize(ntable_);
51 for (unsigned int i = 0; i < ntable_; i++){
52 if (!checkFile(names[i], "d"))
53 throw( AipsError("File does not exist") );
54 infileList_[i] = names[i];
55 }
56 intabList_.resize(0);
57
58 init();
59
60 {// Summary
61 os << ntable_ << " files are set: [";
62 for (unsigned int i = 0; i < ntable_; i++) {
63 os << " '" << infileList_[i] << "' ";
64 if (i != ntable_-1) os << ",";
65 }
66 os << "] " << LogIO::POST;
67 }
68};
69
70STSideBandSep::STSideBandSep(const vector<ScantableWrapper> &tables)
71{
72 LogIO os(LogOrigin("STSideBandSep","STSideBandSep()", WHERE));
73 os << "Setting list of scantables to process." << LogIO::POST ;
74 // Set file names
75 ntable_ = tables.size();
76 intabList_.resize(ntable_);
77 for (unsigned int i = 0; i < ntable_; i++){
78 intabList_[i] = tables[i].getCP();
79 }
80 infileList_.resize(0);
81
82 init();
83 tp_ = intabList_[0]->table().tableType();
84
85 os << ntable_ << " tables are set." << LogIO::POST;
86};
87
88STSideBandSep::~STSideBandSep()
89{
90};
91
92void STSideBandSep::init()
93{
94 // frequency setup
95 sigIfno_= -1;
96 ftol_ = -1;
97 solFrame_ = MFrequency::N_Types;
98 // shifts
99 initshift();
100 // direction tolerance
101 xtol_ = ytol_ = 9.69627e-6; // 2arcsec
102 // solution parameters
103 otherside_ = false;
104 doboth_ = false;
105 rejlimit_ = 0.2;
106 // LO1 values
107 lo1Freq_ = -1;
108 loTime_ = -1;
109 loDir_ = "";
110 // Default LO frame is TOPO
111 loFrame_ = MFrequency::TOPO;
112 // scantable storage
113 tp_ = Table::Memory;
114};
115
116void STSideBandSep::initshift()
117{
118 // shifts
119 nshift_ = 0;
120 nchan_ = 0;
121 sigShift_.resize(0);
122 imgShift_.resize(0);
123 tableList_.resize(0);
124};
125
126void STSideBandSep::setFrequency(const int ifno,
127 const string freqtol,
128 const string frame)
129{
130 LogIO os(LogOrigin("STSideBandSep","setFrequency()", WHERE));
131
132 initshift();
133
134 // IFNO
135 sigIfno_ = ifno;
136
137 // Frequency tolerance
138 Quantum<Double> qftol;
139 readQuantity(qftol, String(freqtol));
140 if (!qftol.getUnit().empty()){
141 // make sure the quantity is frequency
142 if (qftol.getFullUnit().getValue() != Unit("Hz").getValue())
143 throw( AipsError("Invalid quantity for frequency tolerance.") );
144 qftol.convert("Hz");
145 }
146 ftol_ = qftol;
147
148 // Frequency Frame
149 if (!frame.empty()){
150 MFrequency::Types mft;
151 if (!MFrequency::getType(mft, frame))
152 throw( AipsError("Invalid frame type.") );
153 solFrame_ = mft;
154 } else {
155 solFrame_ = MFrequency::N_Types;
156 }
157
158 {// Summary
159 const String sframe = ( (solFrame_ == MFrequency::N_Types) ?
160 "table frame" :
161 MFrequency::showType(solFrame_) );
162 os << "Frequency setup to search IF group: "
163 << "IFNO of table[0] = " << sigIfno_
164 << " , Freq tolerance = " << ftol_.getValue() << " [ "
165 << (ftol_.getUnit().empty() ? "channel" : ftol_.getUnit() )
166 << " ] (in " << sframe <<")" << LogIO::POST;
167 }
168};
169
170
171void STSideBandSep::setDirTolerance(const vector<string> dirtol)
172{
173 LogIO os(LogOrigin("STSideBandSep","setDirTolerance()", WHERE));
174 Quantum<Double> qcell;
175 if ( (dirtol.size() == 1) && !dirtol[0].empty() ) {
176 readQuantity(qcell, String(dirtol[0]));
177 if (qcell.getFullUnit().getValue() == Unit("rad").getValue())
178 xtol_ = ytol_ = qcell.getValue("rad");
179 else
180 throw( AipsError("Invalid unit for direction tolerance.") );
181 }
182 else if (dirtol.size() > 1) {
183 if ( dirtol[0].empty() && dirtol[1].empty() )
184 throw( AipsError("Direction tolerance is empty.") );
185 if ( !dirtol[0].empty() ) {
186 readQuantity(qcell, String(dirtol[0]));
187 if (qcell.getFullUnit().getValue() == Unit("rad").getValue())
188 xtol_ = qcell.getValue("rad");
189 else
190 throw( AipsError("Invalid unit for direction tolerance.") );
191 }
192 if ( !dirtol[1].empty() ) {
193 readQuantity(qcell, String(dirtol[1]));
194 if (qcell.getFullUnit().getValue() == Unit("rad").getValue())
195 ytol_ = qcell.getValue("rad");
196 else
197 throw( AipsError("Invalid unit for direction tolerance.") );
198 }
199 else {
200 ytol_ = xtol_;
201 }
202 }
203 else throw( AipsError("Invalid direction tolerance.") );
204
205 os << "Direction tolerance: ( "
206 << xtol_ << " , " << ytol_ << " ) [rad]" << LogIO::POST;
207};
208
209void STSideBandSep::setShift(const vector<double> &shift)
210{
211 LogIO os(LogOrigin("STSideBandSep","setShift()", WHERE));
212 imgShift_.resize(shift.size());
213 for (unsigned int i = 0; i < shift.size(); i++)
214 imgShift_[i] = shift[i];
215
216 if (imgShift_.size() == 0) {
217 os << "Channel shifts are cleared." << LogIO::POST;
218 } else {
219 os << "Channel shifts of image sideband are set: ( ";
220 for (unsigned int i = 0; i < imgShift_.size(); i++) {
221 os << imgShift_[i];
222 if (i != imgShift_.size()-1) os << " , ";
223 }
224 os << " ) [channels]" << LogIO::POST;
225 }
226};
227
228void STSideBandSep::setThreshold(const double limit)
229{
230 LogIO os(LogOrigin("STSideBandSep","setThreshold()", WHERE));
231 if (limit < 0)
232 throw( AipsError("Rejection limit should be a positive number.") );
233
234 rejlimit_ = limit;
235 os << "Rejection limit is set to " << rejlimit_ << LogIO::POST;
236};
237
238void STSideBandSep::separate(string outname)
239{
240 LogIO os(LogOrigin("STSideBandSep","separate()", WHERE));
241 if (outname.empty())
242 outname = "sbseparated.asap";
243
244 // Set up a goup of IFNOs in the list of scantables within
245 // the frequency tolerance and make them a list.
246 nshift_ = setupShift();
247 if (nshift_ < 2)
248 throw( AipsError("At least 2 IFs are necessary for convolution.") );
249 // Grid scantable and generate output tables
250 ScantableWrapper gridst = gridTable();
251 sigTab_p = gridst.getCP();
252 if (doboth_)
253 imgTab_p = gridst.copy().getCP();
254 vector<unsigned int> remRowIds;
255 remRowIds.resize(0);
256 Matrix<float> specMat(nchan_, nshift_);
257 Matrix<bool> flagMat(nchan_, nshift_);
258 vector<float> sigSpec(nchan_), imgSpec(nchan_);
259 Vector<bool> flagVec(nchan_);
260 vector<uInt> tabIdvec;
261
262 //Generate FFTServer
263 fftsf.resize(IPosition(1, nchan_), FFTEnums::REALTOCOMPLEX);
264 fftsi.resize(IPosition(1, nchan_), FFTEnums::COMPLEXTOREAL);
265
266 /// Loop over sigTab_p and separate sideband
267 for (int irow = 0; irow < sigTab_p->nrow(); irow++){
268 tabIdvec.resize(0);
269 const int polId = sigTab_p->getPol(irow);
270 const int beamId = sigTab_p->getBeam(irow);
271 const vector<double> dir = sigTab_p->getDirectionVector(irow);
272 // Get a set of spectra to solve
273 if (!getSpectraToSolve(polId, beamId, dir[0], dir[1],
274 specMat, flagMat, tabIdvec)){
275 remRowIds.push_back(irow);
276#ifdef KS_DEBUG
277 cout << "no matching row found. skipping row = " << irow << endl;
278#endif
279 continue;
280 }
281 // Solve signal sideband
282 sigSpec = solve(specMat, tabIdvec, true);
283 sigTab_p->setSpectrum(sigSpec, irow);
284 if (sigTab_p->isAllChannelsFlagged(irow)){
285 // unflag the spectrum since there should be some valid data
286 sigTab_p->flagRow(vector<uInt>(irow), true);
287 // need to unflag whole channels anyway
288 sigTab_p->flag(irow, vector<bool>(), true);
289 }
290 // apply channel flag
291 flagVec = collapseFlag(flagMat, tabIdvec, true);
292 //boolVec = !boolVec; // flag
293 vector<bool> tmpflag;
294 flagVec.tovector(tmpflag);
295 sigTab_p->flag(irow, tmpflag, false);
296
297 // Solve image sideband
298 if (doboth_) {
299 imgSpec = solve(specMat, tabIdvec, false);
300 imgTab_p->setSpectrum(imgSpec, irow);
301 if (imgTab_p->isAllChannelsFlagged(irow)){
302 // unflag the spectrum since there should be some valid data
303 imgTab_p->flagRow(vector<uInt>(irow), true);
304 // need to unflag whole channels anyway
305 imgTab_p->flag(irow, vector<bool>(), true);
306 }
307 // apply channel flag
308 flagVec = collapseFlag(flagMat, tabIdvec, false);
309 //boolVec = !boolVec; // flag
310 flagVec.tovector(tmpflag);
311 imgTab_p->flag(irow, tmpflag, false);
312 }
313 } // end of row loop
314
315 // Remove or flag rows without relevant data from gridded tables
316 if (remRowIds.size() > 0) {
317 const size_t nrem = remRowIds.size();
318 if ( sigTab_p->table().canRemoveRow() ) {
319 sigTab_p->table().removeRow(remRowIds);
320 os << "Removing " << nrem << " rows from the signal band table"
321 << LogIO::POST;
322 } else {
323 sigTab_p->flagRow(remRowIds, false);
324 os << "Cannot remove rows from the signal band table. Flagging "
325 << nrem << " rows" << LogIO::POST;
326 }
327
328 if (doboth_) {
329 if ( imgTab_p->table().canRemoveRow() ) {
330 imgTab_p->table().removeRow(remRowIds);
331 os << "Removing " << nrem << " rows from the image band table"
332 << LogIO::POST;
333 } else {
334 imgTab_p->flagRow(remRowIds, false);
335 os << "Cannot remove rows from the image band table. Flagging "
336 << nrem << " rows" << LogIO::POST;
337 }
338 }
339 }
340
341 // Finally, save tables on disk
342 if (outname.size() ==0)
343 outname = "sbseparated.asap";
344 const string sigName = outname + ".signalband";
345 os << "Saving SIGNAL sideband table: " << sigName << LogIO::POST;
346 sigTab_p->makePersistent(sigName);
347 if (doboth_) {
348 solveImageFrequency();
349 const string imgName = outname + ".imageband";
350 os << "Saving IMAGE sideband table: " << sigName << LogIO::POST;
351 imgTab_p->makePersistent(imgName);
352 }
353
354};
355
356unsigned int STSideBandSep::setupShift()
357{
358 LogIO os(LogOrigin("STSideBandSep","setupShift()", WHERE));
359 if (infileList_.size() == 0 && intabList_.size() == 0)
360 throw( AipsError("No scantable has been set. Set a list of scantables first.") );
361
362 const bool byname = (intabList_.size() == 0);
363 // Make sure sigIfno_ exists in the first table.
364 CountedPtr<Scantable> stab;
365 vector<string> coordsav;
366 vector<string> coordtmp(3);
367 os << "Checking IFNO in the first table." << LogIO::POST;
368 if (byname) {
369 if (!checkFile(infileList_[0], "d"))
370 os << LogIO::SEVERE << "Could not find scantable '" << infileList_[0]
371 << "'" << LogIO::EXCEPTION;
372 stab = CountedPtr<Scantable>(new Scantable(infileList_[0]));
373 } else {
374 stab = intabList_[0];
375 }
376 if (sigIfno_ < 0) {
377 sigIfno_ = (int) stab->getIF(0);
378 os << "IFNO to process has not been set. Using the first IF = "
379 << sigIfno_ << LogIO::POST;
380 }
381
382 unsigned int basench;
383 double basech0, baseinc, ftolval, inctolval;
384 coordsav = stab->getCoordInfo();
385 const string stfframe = coordsav[1];
386 coordtmp[0] = "Hz";
387 coordtmp[1] = ( (solFrame_ == MFrequency::N_Types) ?
388 stfframe :
389 MFrequency::showType(solFrame_) );
390 coordtmp[2] = coordsav[2];
391 stab->setCoordInfo(coordtmp);
392 if (!getFreqInfo(stab, (unsigned int) sigIfno_, basech0, baseinc, basench)) {
393 os << LogIO::SEVERE << "No data with IFNO=" << sigIfno_
394 << " found in the first table." << LogIO::EXCEPTION;
395 }
396 else {
397 os << "Found IFNO = " << sigIfno_
398 << " in the first table." << LogIO::POST;
399#ifdef KS_DEBUG
400 cout << "Frequencies in the first table: freq0 = " << basech0 << ", incr = " << baseinc << ", nch = " << basench << endl;
401#endif
402 }
403 if (ftol_.getUnit().empty()) {
404 // tolerance in unit of channels
405 ftolval = abs(ftol_.getValue() * baseinc);
406 }
407 else {
408 ftolval = abs(ftol_.getValue("Hz"));
409 }
410 inctolval = abs(baseinc/(double) basench);
411 const string poltype0 = stab->getPolType();
412#ifdef KS_DEBUG
413 cout << "Looking for pairs that satisfies freqtol = " << ftolval << ", inctol = " << inctolval << endl;
414#endif
415
416 // Initialize shift values
417 initshift();
418
419// const bool setImg = ( doboth_ && (imgShift_.size() == 0) );
420 const bool setImg = (imgShift_.size() == 0);
421 // Select IFs
422 for (unsigned int itab = 0; itab < ntable_; itab++ ){
423 os << "Table " << itab << LogIO::POST;
424 if (itab > 0) {
425 if (byname) {
426 if (!checkFile(infileList_[itab], "d"))
427 os << LogIO::SEVERE << "Could not find scantable '"
428 << infileList_[itab] << "'" << LogIO::EXCEPTION;
429 stab = CountedPtr<Scantable>(new Scantable(infileList_[itab]));
430 } else {
431 stab = intabList_[itab];
432 }
433 //POLTYPE should be the same.
434 if (stab->getPolType() != poltype0 ) {
435 os << LogIO::WARN << "POLTYPE differs from the first table."
436 << " Skipping the table" << LogIO::POST;
437 continue;
438 }
439 // Multi beam data may not handled properly
440 if (stab->nbeam() > 1)
441 os << LogIO::WARN << "Table contains multiple beams. "
442 << "It may not be handled properly." << LogIO::POST;
443
444 coordsav = stab->getCoordInfo();
445 coordtmp[2] = coordsav[2];
446 stab->setCoordInfo(coordtmp);
447 }
448 bool selected = false;
449 vector<uint> ifnos = stab->getIFNos();
450 vector<uint>::iterator iter;
451 const STSelector& basesel = stab->getSelection();
452 for (iter = ifnos.begin(); iter != ifnos.end(); iter++){
453 unsigned int nch;
454 double freq0, incr;
455 if ( getFreqInfo(stab, *iter, freq0, incr, nch) ){
456#ifdef KS_DEBUG
457 cout << "Checking IF=" << *iter << " int Table " << itab <<": freq0 = " << freq0 << ", incr = " << incr << ", nch = " << nch << endl;
458 cout << "- number of channels: " << nch << endl;
459 cout << "- chan0 difference: " << abs(freq0-basech0) << " (threshold: " << ftolval << ")" << endl;
460 cout << "- inc difference: " << abs(incr-baseinc) << " (threshold: " << inctolval << ")" << endl;
461#endif
462 if ( (nch == basench) && (abs(freq0-basech0) < ftolval)
463 && (abs(incr-baseinc) < inctolval) ){
464 //Found
465 STSelector sel(basesel);
466 sel.setIFs(vector<int>(1,(int) *iter));
467 stab->setSelection(sel);
468 CountedPtr<Scantable> seltab = ( new Scantable(*stab, false) );
469 stab->setSelection(basesel);
470 seltab->setCoordInfo(coordsav);
471 const double chShift = (freq0 - basech0) / baseinc;
472 tableList_.push_back(seltab);
473 sigShift_.push_back(-chShift);
474 if (setImg)
475 imgShift_.push_back(chShift);
476
477 selected = true;
478 os << "- IF" << *iter << " selected: sideband shift = "
479 << chShift << " channels" << LogIO::POST;
480 }
481 }
482 } // ifno loop
483 stab->setCoordInfo(coordsav);
484 if (!selected)
485 os << LogIO::WARN << "No data selected in Table "
486 << itab << LogIO::POST;
487 } // table loop
488 nchan_ = basench;
489
490 os << "Total number of IFs selected = " << tableList_.size()
491 << LogIO::POST;
492 if ( setImg && (sigShift_.size() != imgShift_.size()) ){
493 os << LogIO::SEVERE
494 << "User defined channel shift of image sideband has "
495 << imgShift_.size()
496 << " elements, while selected IFNOs are " << sigShift_.size()
497 << "\nThe frequency tolerance (freqtol) may be too small."
498 << LogIO::EXCEPTION;
499 }
500
501 return tableList_.size();
502};
503
504bool STSideBandSep::getFreqInfo(const CountedPtr<Scantable> &stab,
505 const unsigned int &ifno,
506 double &freq0, double &incr,
507 unsigned int &nchan)
508{
509 vector<uint> ifnos = stab->getIFNos();
510 bool found = false;
511 vector<uint>::iterator iter;
512 for (iter = ifnos.begin(); iter != ifnos.end(); iter++){
513 if (*iter == ifno) {
514 found = true;
515 break;
516 }
517 }
518 if (!found)
519 return false;
520
521 const STSelector& basesel = stab->getSelection();
522 STSelector sel(basesel);
523 sel.setIFs(vector<int>(1,(int) ifno));
524 stab->setSelection(sel);
525 vector<double> freqs;
526 freqs = stab->getAbcissa(0);
527 freq0 = freqs[0];
528 incr = freqs[1] - freqs[0];
529 nchan = freqs.size();
530 stab->setSelection(basesel);
531 return true;
532};
533
534ScantableWrapper STSideBandSep::gridTable()
535{
536 LogIO os(LogOrigin("STSideBandSep","gridTable()", WHERE));
537 if (tableList_.size() == 0)
538 throw( AipsError("Internal error. No scantable has been set to grid.") );
539 Double xmin, xmax, ymin, ymax;
540 mapExtent(tableList_, xmin, xmax, ymin, ymax);
541 const Double centx = 0.5 * (xmin + xmax);
542 const Double centy = 0.5 * (ymin + ymax);
543 const int nx = max(1, (int) ceil( (xmax - xmin) * cos(centy) /xtol_ ) );
544 const int ny = max(1, (int) ceil( (ymax - ymin) / ytol_ ) );
545
546 string scellx, scelly;
547 {
548 ostringstream oss;
549 oss << xtol_ << "rad" ;
550 scellx = oss.str();
551 }
552 {
553 ostringstream oss;
554 oss << ytol_ << "rad" ;
555 scelly = oss.str();
556 }
557
558 ScantableWrapper stab0;
559 if (intabList_.size() > 0)
560 stab0 = ScantableWrapper(intabList_[0]);
561 else
562 stab0 = ScantableWrapper(infileList_[0]);
563
564 string scenter;
565 {
566 ostringstream oss;
567 oss << stab0.getCP()->getDirectionRefString() << " "
568 << centx << "rad" << " " << centy << "rad";
569 scenter = oss.str();
570 }
571
572 STGrid2 gridder = STGrid2(stab0);
573 gridder.setIF(sigIfno_);
574 gridder.defineImage(nx, ny, scellx, scelly, scenter);
575 // gridder.setFunc("box", 1); // convsupport=1 fails
576 gridder.setFunc("box");
577 gridder.setWeight("uniform");
578#ifdef KS_DEBUG
579 cout << "Grid parameter summary: " << endl;
580 cout << "- IF = " << sigIfno_ << endl;
581 cout << "- center = " << scenter << "\n"
582 << "- npix = (" << nx << ", " << ny << ")\n"
583 << "- cell = (" << scellx << ", " << scelly << ")" << endl;
584#endif
585 gridder.grid();
586 const int itp = (tp_ == Table::Memory ? 0 : 1);
587 ScantableWrapper gtab = gridder.getResultAsScantable(itp);
588 // WORKAROUND : Shift TIME for proper pointing resolution in future imaging.
589 shiftTimeInGriddedST(gtab.getCP());
590 return gtab;
591};
592
593void STSideBandSep::mapExtent(vector< CountedPtr<Scantable> > &tablist,
594 Double &xmin, Double &xmax,
595 Double &ymin, Double &ymax)
596{
597 ROArrayColumn<Double> dirCol_;
598 dirCol_.attach( tablist[0]->table(), "DIRECTION" );
599 Matrix<Double> direction = dirCol_.getColumn();
600 Vector<Double> ra( direction.row(0) );
601 mathutil::rotateRA(ra);
602 minMax( xmin, xmax, ra );
603 minMax( ymin, ymax, direction.row(1) );
604 Double amin, amax, bmin, bmax;
605 const uInt ntab = tablist.size();
606 for ( uInt i = 1 ; i < ntab ; i++ ) {
607 dirCol_.attach( tablist[i]->table(), "DIRECTION" );
608 direction.assign( dirCol_.getColumn() );
609 ra.assign( direction.row(0) );
610 mathutil::rotateRA(ra);
611 minMax( amin, amax, ra );
612 minMax( bmin, bmax, direction.row(1) );
613 xmin = min(xmin, amin);
614 xmax = max(xmax, amax);
615 ymin = min(ymin, bmin);
616 ymax = max(ymax, bmax);
617 }
618};
619
620// STGrid sets the identical time for all rows in scantable
621// which is reasonable thing to do in position based averaging.
622// However, this prevents CASA from finding proper pointing
623// per spectra once the gridded scantable is converted to
624// measurement set (MS). It is because MS does not
625// have ability to store per spectra pointing information.
626// MS stores pointing information in a subtable, POINTING,
627// with corresponding TIME when an antenna pointed the direction.
628// The pointing direction corresponding to a spectra is resolved
629// in MS by interpolating DIRECTION in POINTING subtable in TIME
630// the spectra is observed. If there are multiple match,
631// the first match is adopted. Therefore, gridded table (whose TIME
632// is set to a single value) is misunderstood in MS that all data
633// come from a single pointing.
634// The function workarounds this defect by artificially shifting
635// TIME by INTERVAL in each row.
636void STSideBandSep::shiftTimeInGriddedST(const CountedPtr<Scantable> &stab)
637{
638 LogIO os(LogOrigin("STSideBandSep", "shiftTimeInGriddedST()", WHERE));
639 // Gridded table usually has an IF and a BEAM.
640 {
641 std::vector<uint> bmnos = stab->getBeamNos();
642 if (bmnos.size() > 1)
643 throw( AipsError("Multiple BEAMNOs found in the scantable. This may not a gridded table") );
644 std::vector<uint> ifnos = stab->getIFNos();
645 if (ifnos.size() > 1)
646 throw( AipsError("Multiple IFNOs found in the scantable. This may not a gridded table") );
647 }
648 // Rows in gridded table usually sorted by DIRECTION
649 const Table& tab = stab->table();
650 ScalarColumn<Double> mjdCol( tab, "TIME");
651 ROScalarColumn<Double> intCol( tab, "INTERVAL");
652 ROArrayColumn<Double> dirCol( tab, "DIRECTION");
653 Matrix<Double> direction = dirCol.getColumn();
654 Vector<Double> ra( direction.row(0) );
655 Vector<Double> dec( direction.row(1) );
656 Double prevTime, prevInt, prevRA(ra[0]), prevDec(dec[0]);
657 mjdCol.get(0, prevTime);
658 intCol.get(0, prevInt);
659 Double currInt, currRA, currDec;
660 Double dx(xtol_*0.95), dy(ytol_*0.95);
661 Double secToDay(1./24./3600.);
662 for (int irow = 0; irow < stab->nrow(); ++irow){
663 currRA = ra[irow];
664 currDec = dec[irow];
665 if ((prevRA+dx-currRA)*(currRA-prevRA+dx)>=0 &&
666 (prevDec+dy-currDec)*(currDec-prevDec+dy)>=0) {
667 // the same time stamp as the previous row
668 mjdCol.put(irow, prevTime);
669 // remember the longest interval
670 intCol.get(irow, currInt);
671 if (currInt > prevInt) prevInt = currInt;
672 } else {
673 // a new direction. need to set new time stamp.
674 prevTime += prevInt*secToDay;
675 mjdCol.put(irow, prevTime);
676 // new interval and direction
677 intCol.get(irow, prevInt);
678 prevRA = currRA;
679 prevDec = currDec;
680 }
681 }
682};
683
684// bool STSideBandSep::getSpectraToSolve(const int polId, const int beamId,
685// const double dirX, const double dirY,
686// Matrix<float> &specMat, vector<uInt> &tabIdvec)
687bool STSideBandSep::getSpectraToSolve(const int polId, const int beamId,
688 const double dirX, const double dirY,
689 Matrix<float> &specMat,
690 Matrix<bool> &flagMat,
691 vector<uInt> &tabIdvec)
692{
693 LogIO os(LogOrigin("STSideBandSep","getSpectraToSolve()", WHERE));
694
695 tabIdvec.resize(0);
696 specMat.resize(nchan_, nshift_);
697 Vector<float> spec;
698 Vector<bool> boolVec;
699 uInt nspec = 0;
700 STMath stm(false); // insitu has no effect for average.
701 for (uInt itab = 0 ; itab < nshift_ ; itab++) {
702 CountedPtr<Scantable> currtab_p = tableList_[itab];
703 // Selection by POLNO and BEAMNO
704 const STSelector& basesel = currtab_p->getSelection();
705 STSelector sel(basesel);
706 sel.setPolarizations(vector<int>(1, polId));
707 sel.setBeams(vector<int>(1, beamId));
708 try {
709 currtab_p->setSelection(sel);
710 } catch (...) {
711#ifdef KS_DEBUG
712 cout << "Table " << itab << " - No spectrum found. skipping the table."
713 << endl;
714#endif
715 continue;
716 }
717 // Selection by direction;
718 vector<int> selrow(0);
719 vector<double> currDir(2, 0.);
720 const int nselrow = currtab_p->nrow();
721 for (int irow = 0 ; irow < nselrow ; irow++) {
722 currDir = currtab_p->getDirectionVector(irow);
723 if ( (abs(currDir[0]-dirX) > xtol_) ||
724 (abs(currDir[1]-dirY) > ytol_) )
725 continue;
726 // within direction tolerance
727 selrow.push_back(irow);
728 } // end of row loop
729
730 if (selrow.size() < 1) {
731 currtab_p->setSelection(basesel);
732
733#ifdef KS_DEBUG
734 cout << "Table " << itab << " - No spectrum found. skipping the table."
735 << endl;
736#endif
737
738 continue;
739 }
740
741 // At least a spectrum is selected in this table
742 CountedPtr<Scantable> seltab_p = ( new Scantable(*currtab_p, false) );
743 currtab_p->setSelection(basesel);
744 STSelector sel2(seltab_p->getSelection());
745 sel2.setRows(selrow);
746 seltab_p->setSelection(sel2);
747 CountedPtr<Scantable> avetab_p;
748 if (seltab_p->nrow() > 1) {
749 // STMath::average also merges FLAGTRA and FLAGROW
750 avetab_p = stm.average(vector< CountedPtr<Scantable> >(1, seltab_p),
751 vector<bool>(), "TINTSYS", "NONE");
752#ifdef KS_DEBUG
753 cout << "Table " << itab << " - more than a spectrum is selected. averaging rows..."
754 << endl;
755#endif
756 if (avetab_p->nrow() > 1)
757 throw( AipsError("Averaged table has more than a row. Somethigs went wrong.") );
758 } else {
759 avetab_p = seltab_p;
760 }
761 // Check FLAGTRA and FLAGROW if there's any valid channel in the spectrum
762 if (avetab_p->getFlagRow(0) || avetab_p->isAllChannelsFlagged(0)) {
763#ifdef KS_DEBUG
764 cout << "Table " << itab << " - All data are flagged. skipping the table."
765 << endl;
766#endif
767 continue;
768 }
769 // Interpolate flagged channels of the spectrum.
770 Vector<Float> tmpSpec = avetab_p->getSpectrum(0);
771 // Mask is true if the data is valid (!flag)
772 vector<bool> mask = avetab_p->getMask(0);
773 mathutil::doZeroOrderInterpolation(tmpSpec, mask);
774 spec.reference(specMat.column(nspec));
775 spec = tmpSpec;
776 boolVec.reference(flagMat.column(nspec));
777 boolVec = mask; // cast std::vector to casa::Vector
778 boolVec = !boolVec;
779 tabIdvec.push_back((uInt) itab);
780 nspec++;
781 //Liberate from reference
782 spec.unique();
783 boolVec.unique();
784 } // end of table loop
785 // Check the number of selected spectra and resize matrix.
786 if (nspec != nshift_){
787 //shiftSpecmat.resize(nchan_, nspec, true);
788 specMat.resize(nchan_, nspec, true);
789 flagMat.resize(nchan_, nspec, true);
790#ifdef KS_DEBUG
791 cout << "Could not find corresponding rows in some tables."
792 << endl;
793 cout << "Number of spectra selected = " << nspec << endl;
794#endif
795 }
796 if (nspec < 2) {
797#ifdef KS_DEBUG
798 cout << "At least 2 spectra are necessary for convolution"
799 << endl;
800#endif
801 return false;
802 }
803 return true;
804};
805
806
807Vector<bool> STSideBandSep::collapseFlag(const Matrix<bool> &flagMat,
808 const vector<uInt> &tabIdvec,
809 const bool signal)
810{
811 LogIO os(LogOrigin("STSideBandSep","collapseFlag()", WHERE));
812 if (tabIdvec.size() == 0)
813 throw(AipsError("Internal error. Table index is not defined."));
814 if (flagMat.ncolumn() != tabIdvec.size())
815 throw(AipsError("Internal error. The row number of input matrix is not conformant."));
816 if (flagMat.nrow() != nchan_)
817 throw(AipsError("Internal error. The channel size of input matrix is not conformant."));
818
819 const size_t nspec = tabIdvec.size();
820 vector<double> *thisShift;
821 if (signal == otherside_) {
822 // (solve signal && solveother = T) OR (solve image && solveother = F)
823 thisShift = &imgShift_;
824 } else {
825 // (solve signal && solveother = F) OR (solve image && solveother = T)
826 thisShift = &sigShift_;
827 }
828
829 Vector<bool> outflag(nchan_, false);
830 double tempshift;
831 Vector<bool> shiftvec(nchan_, false);
832 Vector<bool> accflag(nchan_, false);
833 uInt shiftId;
834 for (uInt i = 0 ; i < nspec; ++i) {
835 shiftId = tabIdvec[i];
836 tempshift = - thisShift->at(shiftId);
837 shiftFlag(flagMat.column(i), tempshift, shiftvec);
838 // Now accumulate Flag
839 for (uInt j = 0 ; j < nchan_ ; ++j)
840 accflag[j] |= shiftvec[j];
841 }
842 outflag = accflag;
843 // Shift back Flag
844 //cout << "Shifting FLAG back to " << thisShift->at(0) << " channels" << endl;
845 //shiftFlag(accflag, thisShift->at(0), outflag);
846
847 return outflag;
848}
849
850
851vector<float> STSideBandSep::solve(const Matrix<float> &specmat,
852 const vector<uInt> &tabIdvec,
853 const bool signal)
854{
855 LogIO os(LogOrigin("STSideBandSep","solve()", WHERE));
856 if (tabIdvec.size() == 0)
857 throw(AipsError("Internal error. Table index is not defined."));
858 if (specmat.ncolumn() != tabIdvec.size())
859 throw(AipsError("Internal error. The row number of input matrix is not conformant."));
860 if (specmat.nrow() != nchan_)
861 throw(AipsError("Internal error. The channel size of input matrix is not conformant."));
862
863
864#ifdef KS_DEBUG
865 cout << "Solving " << (signal ? "SIGNAL" : "IMAGE") << " sideband."
866 << endl;
867#endif
868
869 const size_t nspec = tabIdvec.size();
870 vector<double> *thisShift, *otherShift;
871 if (signal == otherside_) {
872 // (solve signal && solveother = T) OR (solve image && solveother = F)
873 thisShift = &imgShift_;
874 otherShift = &sigShift_;
875#ifdef KS_DEBUG
876 cout << "Image sideband will be deconvolved." << endl;
877#endif
878 } else {
879 // (solve signal && solveother = F) OR (solve image && solveother = T)
880 thisShift = &sigShift_;
881 otherShift = &imgShift_;
882#ifdef KS_DEBUG
883 cout << "Signal sideband will be deconvolved." << endl;
884#endif
885 }
886
887 vector<double> spshift(nspec);
888 Matrix<float> shiftSpecmat(nchan_, nspec, 0.);
889 double tempshift;
890 Vector<float> shiftspvec;
891 uInt shiftId;
892 for (uInt i = 0 ; i < nspec; i++) {
893 shiftId = tabIdvec[i];
894 spshift[i] = otherShift->at(shiftId) - thisShift->at(shiftId);
895 tempshift = - thisShift->at(shiftId);
896 shiftspvec.reference(shiftSpecmat.column(i));
897 shiftSpectrum(specmat.column(i), tempshift, shiftspvec);
898 }
899
900 Matrix<float> convmat(nchan_, nspec*(nspec-1)/2, 0.);
901 vector<float> thisvec(nchan_, 0.);
902
903 float minval, maxval;
904 minMax(minval, maxval, shiftSpecmat);
905#ifdef KS_DEBUG
906 cout << "Max/Min of input Matrix = (max: " << maxval << ", min: " << minval << ")" << endl;
907#endif
908
909#ifdef KS_DEBUG
910 cout << "starting deconvolution" << endl;
911#endif
912 deconvolve(shiftSpecmat, spshift, rejlimit_, convmat);
913#ifdef KS_DEBUG
914 cout << "finished deconvolution" << endl;
915#endif
916
917 minMax(minval, maxval, convmat);
918#ifdef KS_DEBUG
919 cout << "Max/Min of output Matrix = (max: " << maxval << ", min: " << minval << ")" << endl;
920#endif
921
922 aggregateMat(convmat, thisvec);
923
924 if (!otherside_) return thisvec;
925
926 // subtract from the other side band.
927 vector<float> othervec(nchan_, 0.);
928 subtractFromOther(shiftSpecmat, thisvec, spshift, othervec);
929 return othervec;
930};
931
932
933void STSideBandSep::shiftSpectrum(const Vector<float> &invec,
934 double shift,
935 Vector<float> &outvec)
936{
937 LogIO os(LogOrigin("STSideBandSep","shiftSpectrum()", WHERE));
938 if (invec.size() != nchan_)
939 throw(AipsError("Internal error. The length of input vector differs from nchan_"));
940 if (outvec.size() != nchan_)
941 throw(AipsError("Internal error. The length of output vector differs from nchan_"));
942
943#ifdef KS_DEBUG
944 cout << "Start shifting spectrum for " << shift << " channels" << endl;
945#endif
946
947 // tweak shift to be in 0 ~ nchan_-1
948 if ( fabs(shift) > nchan_ ) shift = fmod(shift, nchan_);
949 if (shift < 0.) shift += nchan_;
950 double rweight = fmod(shift, 1.);
951 if (rweight < 0.) rweight += 1.;
952 double lweight = 1. - rweight;
953 uInt lchan, rchan;
954
955 outvec = 0;
956 for (uInt i = 0 ; i < nchan_ ; i++) {
957 lchan = uInt( floor( fmod( (i + shift), nchan_ ) ) );
958 if (lchan < 0.) lchan += nchan_;
959 rchan = ( (lchan + 1) % nchan_ );
960 outvec(lchan) += invec(i) * lweight;
961 outvec(rchan) += invec(i) * rweight;
962#ifdef KS_DEBUG
963 if (i == 2350 || i== 2930) {
964 cout << "Channel= " << i << " of input vector: " << endl;
965 cout << "L channel = " << lchan << endl;
966 cout << "R channel = " << rchan << endl;
967 cout << "L weight = " << lweight << endl;
968 cout << "R weight = " << rweight << endl;
969 }
970#endif
971 }
972};
973
974
975void STSideBandSep::shiftFlag(const Vector<bool> &invec,
976 double shift,
977 Vector<bool> &outvec)
978{
979 LogIO os(LogOrigin("STSideBandSep","shiftFlag()", WHERE));
980 if (invec.size() != nchan_)
981 throw(AipsError("Internal error. The length of input vector differs from nchan_"));
982 if (outvec.size() != nchan_)
983 throw(AipsError("Internal error. The length of output vector differs from nchan_"));
984
985#ifdef KS_DEBUG
986 cout << "Start shifting flag for " << shift << "channels" << endl;
987#endif
988
989 // shift is almost integer think it as int.
990 // tolerance should be in 0 - 1
991 double tolerance = 0.01;
992 // tweak shift to be in 0 ~ nchan_-1
993 if ( fabs(shift) > nchan_ ) shift = fmod(shift, nchan_);
994 if (shift < 0.) shift += nchan_;
995 double rweight = fmod(shift, 1.);
996 bool ruse(true), luse(true);
997 if (rweight < 0.) rweight += 1.;
998 if (rweight < tolerance){
999 // the shift is almost lchan
1000 ruse = false;
1001 luse = true;
1002 }
1003 if (rweight > 1-tolerance){
1004 // the shift is almost rchan
1005 ruse = true;
1006 luse = false;
1007 }
1008 uInt lchan, rchan;
1009
1010 outvec = false;
1011 for (uInt i = 0 ; i < nchan_ ; i++) {
1012 lchan = uInt( floor( fmod( (i + shift), nchan_ ) ) );
1013 if (lchan < 0.) lchan += nchan_;
1014 rchan = ( (lchan + 1) % nchan_ );
1015 outvec(lchan) |= (invec(i) && luse);
1016 outvec(rchan) |= (invec(i) && ruse);
1017#ifdef KS_DEBUG
1018 if (i == 2350 || i == 2930) {
1019 cout << "Channel= " << i << " of input vector: " << endl;
1020 cout << "L channel = " << lchan << endl;
1021 cout << "R channel = " << rchan << endl;
1022 cout << "L channel will be " << (luse ? "used" : "ignored") << endl;
1023 cout << "R channel will be " << (ruse ? "used" : "ignored") << endl;
1024 }
1025#endif
1026 }
1027};
1028
1029
1030void STSideBandSep::deconvolve(Matrix<float> &specmat,
1031 const vector<double> shiftvec,
1032 const double threshold,
1033 Matrix<float> &outmat)
1034{
1035 LogIO os(LogOrigin("STSideBandSep","deconvolve()", WHERE));
1036 if (specmat.nrow() != nchan_)
1037 throw(AipsError("Internal error. The length of input matrix differs from nchan_"));
1038 if (specmat.ncolumn() != shiftvec.size())
1039 throw(AipsError("Internal error. The number of input shifts and spectrum differs."));
1040
1041#ifdef KS_DEBUG
1042 float minval, maxval;
1043#endif
1044#ifdef KS_DEBUG
1045 minMax(minval, maxval, specmat);
1046 cout << "Max/Min of input Matrix = (max: " << maxval << ", min: " << minval << ")" << endl;
1047#endif
1048
1049 uInt ninsp = shiftvec.size();
1050 outmat.resize(nchan_, ninsp*(ninsp-1)/2, 0.);
1051 Matrix<Complex> fftspmat(nchan_/2+1, ninsp, 0.);
1052 Vector<float> rvecref(nchan_, 0.);
1053 Vector<Complex> cvecref(nchan_/2+1, 0.);
1054 uInt icol = 0;
1055 unsigned int nreject = 0;
1056
1057#ifdef KS_DEBUG
1058 cout << "Starting initial FFT. The number of input spectra = " << ninsp << endl;
1059 cout << "out matrix has ncolumn = " << outmat.ncolumn() << endl;
1060#endif
1061
1062 for (uInt isp = 0 ; isp < ninsp ; isp++) {
1063 rvecref.reference( specmat.column(isp) );
1064 cvecref.reference( fftspmat.column(isp) );
1065
1066#ifdef KS_DEBUG
1067 minMax(minval, maxval, rvecref);
1068 cout << "Max/Min of inv FFTed Matrix = (max: " << maxval << ", min: " << minval << ")" << endl;
1069#endif
1070
1071 fftsf.fft0(cvecref, rvecref, true);
1072
1073#ifdef KS_DEBUG
1074 double maxr=cvecref[0].real(), minr=cvecref[0].real(),
1075 maxi=cvecref[0].imag(), mini=cvecref[0].imag();
1076 for (uInt i = 1; i<cvecref.size();i++){
1077 maxr = max(maxr, cvecref[i].real());
1078 maxi = max(maxi, cvecref[i].imag());
1079 minr = min(minr, cvecref[i].real());
1080 mini = min(mini, cvecref[i].imag());
1081 }
1082 cout << "Max/Min of inv FFTed Matrix (size=" << cvecref.size() << ") = (max: " << maxr << " + " << maxi << "j , min: " << minr << " + " << mini << "j)" << endl;
1083#endif
1084 }
1085
1086 //Liberate from reference
1087 rvecref.unique();
1088
1089 Vector<Complex> cspec(nchan_/2+1, 0.);
1090 const double PI = 6.0 * asin(0.5);
1091 const double nchani = 1. / (float) nchan_;
1092 const Complex trans(0., 1.);
1093#ifdef KS_DEBUG
1094 cout << "starting actual deconvolution" << endl;
1095#endif
1096 for (uInt j = 0 ; j < ninsp ; j++) {
1097 for (uInt k = j+1 ; k < ninsp ; k++) {
1098 const double dx = (shiftvec[k] - shiftvec[j]) * 2. * PI * nchani;
1099
1100#ifdef KS_DEBUG
1101 cout << "icol = " << icol << endl;
1102#endif
1103
1104 for (uInt ichan = 0 ; ichan < cspec.size() ; ichan++){
1105 cspec[ichan] = ( fftspmat(ichan, j) + fftspmat(ichan, k) )*0.5;
1106 double phase = dx*ichan;
1107 if ( fabs( sin(phase) ) > threshold){
1108 cspec[ichan] += ( fftspmat(ichan, j) - fftspmat(ichan, k) ) * 0.5
1109 * trans * sin(phase) / ( 1. - cos(phase) );
1110 } else {
1111 nreject++;
1112 }
1113 } // end of channel loop
1114
1115#ifdef KS_DEBUG
1116 cout << "done calculation of cspec" << endl;
1117#endif
1118
1119 Vector<Float> rspec;
1120 rspec.reference( outmat.column(icol) );
1121
1122#ifdef KS_DEBUG
1123 cout << "Starting inverse FFT. icol = " << icol << endl;
1124 //cout << "- size of complex vector = " << cspec.size() << endl;
1125 double maxr=cspec[0].real(), minr=cspec[0].real(),
1126 maxi=cspec[0].imag(), mini=cspec[0].imag();
1127 for (uInt i = 1; i<cspec.size();i++){
1128 maxr = max(maxr, cspec[i].real());
1129 maxi = max(maxi, cspec[i].imag());
1130 minr = min(minr, cspec[i].real());
1131 mini = min(mini, cspec[i].imag());
1132 }
1133 cout << "Max/Min of conv vector (size=" << cspec.size() << ") = (max: " << maxr << " + " << maxi << "j , min: " << minr << " + " << mini << "j)" << endl;
1134#endif
1135
1136 fftsi.fft0(rspec, cspec, false);
1137
1138#ifdef KS_DEBUG
1139 //cout << "- size of inversed real vector = " << rspec.size() << endl;
1140 minMax(minval, maxval, rspec);
1141 cout << "Max/Min of inv FFTed Vector (size=" << rspec.size() << ") = (max: " << maxval << ", min: " << minval << ")" << endl;
1142 //cout << "Done inverse FFT. icol = " << icol << endl;
1143#endif
1144
1145 icol++;
1146 }
1147 }
1148
1149#ifdef KS_DEBUG
1150 minMax(minval, maxval, outmat);
1151 cout << "Max/Min of inv FFTed Matrix = (max: " << maxval << ", min: " << minval << ")" << endl;
1152#endif
1153
1154 os << "Threshold = " << threshold << ", Rejected channels = " << nreject << endl;
1155};
1156
1157
1158void STSideBandSep::aggregateMat(Matrix<float> &inmat,
1159 vector<float> &outvec)
1160{
1161 LogIO os(LogOrigin("STSideBandSep","aggregateMat()", WHERE));
1162 if (inmat.nrow() != nchan_)
1163 throw(AipsError("Internal error. The row numbers of input matrix differs from nchan_"));
1164// if (outvec.size() != nchan_)
1165// throw(AipsError("Internal error. The size of output vector should be equal to nchan_"));
1166
1167 os << "Averaging " << inmat.ncolumn() << " spectra in the input matrix."
1168 << LogIO::POST;
1169
1170 const uInt nspec = inmat.ncolumn();
1171 const double scale = 1./( (double) nspec );
1172 // initialize values with 0
1173 outvec.assign(nchan_, 0);
1174 for (uInt isp = 0 ; isp < nspec ; isp++) {
1175 for (uInt ich = 0 ; ich < nchan_ ; ich++) {
1176 outvec[ich] += inmat(ich, isp);
1177 }
1178 }
1179
1180 vector<float>::iterator iter;
1181 for (iter = outvec.begin(); iter != outvec.end(); iter++){
1182 *iter *= scale;
1183 }
1184};
1185
1186void STSideBandSep::subtractFromOther(const Matrix<float> &shiftmat,
1187 const vector<float> &invec,
1188 const vector<double> &shift,
1189 vector<float> &outvec)
1190{
1191 LogIO os(LogOrigin("STSideBandSep","subtractFromOther()", WHERE));
1192 if (shiftmat.nrow() != nchan_)
1193 throw(AipsError("Internal error. The row numbers of input matrix differs from nchan_"));
1194 if (invec.size() != nchan_)
1195 throw(AipsError("Internal error. The length of input vector should be nchan_"));
1196 if (shift.size() != shiftmat.ncolumn())
1197 throw(AipsError("Internal error. The column numbers of input matrix != the number of elements in shift"));
1198
1199 const uInt nspec = shiftmat.ncolumn();
1200 Vector<float> subsp(nchan_, 0.), shiftsub;
1201 Matrix<float> submat(nchan_, nspec, 0.);
1202 vector<float>::iterator iter;
1203 for (uInt isp = 0 ; isp < nspec ; isp++) {
1204 for (uInt ich = 0; ich < nchan_ ; ich++) {
1205 subsp(ich) = shiftmat(ich, isp) - invec[ich];
1206 }
1207 shiftsub.reference(submat.column(isp));
1208 shiftSpectrum(subsp, shift[isp], shiftsub);
1209 }
1210
1211 aggregateMat(submat, outvec);
1212};
1213
1214
1215void STSideBandSep::setLO1(const string lo1, const string frame,
1216 const double reftime, const string refdir)
1217{
1218 Quantum<Double> qfreq;
1219 readQuantity(qfreq, String(lo1));
1220 lo1Freq_ = qfreq.getValue("Hz");
1221 MFrequency::getType(loFrame_, frame);
1222 loTime_ = reftime;
1223 loDir_ = refdir;
1224
1225#ifdef KS_DEBUG
1226 cout << "STSideBandSep::setLO1" << endl;
1227 if (lo1Freq_ > 0.)
1228 cout << "lo1 = " << lo1Freq_ << " [Hz] (" << frame << ")" << endl;
1229 if (loTime_ > 0.)
1230 cout << "ref time = " << loTime_ << " [day]" << endl;
1231 if (!loDir_.empty())
1232 cout << "ref direction = " << loDir_ << " [day]" << endl;
1233#endif
1234};
1235
1236void STSideBandSep::setLO1Root(string name)
1237{
1238 LogIO os(LogOrigin("STSideBandSep","setLO1Root()", WHERE));
1239 os << "Searching for '" << name << "'..." << LogIO::POST;
1240 // Check for existance of the file
1241 if (!checkFile(name)) {
1242 throw(AipsError("File does not exist"));
1243 }
1244 if (name[(name.size()-1)] == '/')
1245 name = name.substr(0,(name.size()-2));
1246
1247 if (checkFile(name+"/Receiver.xml", "file") &&
1248 checkFile(name+"/SpectralWindow.xml", "file")){
1249 os << "Found '" << name << "/Receiver.xml' ... got an ASDM name." << LogIO::POST;
1250 asdmName_ = name;
1251 } else if (checkFile(name+"/ASDM_RECEIVER") &&
1252 checkFile(name+"/ASDM_SPECTRALWINDOW")){
1253 os << "Found '" << name << "/ASDM_RECEIVER' ... got a Table name." << LogIO::POST;
1254 asisName_ = name;
1255 } else {
1256 throw(AipsError("Invalid file name. Set an MS or ASDM name."));
1257 }
1258
1259#ifdef KS_DEBUG
1260 cout << "STSideBandSep::setLO1Root" << endl;
1261 if (!asdmName_.empty())
1262 cout << "asdm name = " << asdmName_ << endl;
1263 if (!asisName_.empty())
1264 cout << "MS name = " << asisName_ << endl;
1265#endif
1266};
1267
1268
1269void STSideBandSep::solveImageFrequency()
1270{
1271 LogIO os(LogOrigin("STSideBandSep","solveImageFreqency()", WHERE));
1272 os << "Start calculating frequencies of image side band" << LogIO::POST;
1273
1274 if (imgTab_p.null())
1275 throw AipsError("STSideBandSep::solveImageFreqency - an image side band scantable should be set first");
1276
1277 // Convert frequency REFVAL to the value in frame of LO.
1278 // The code assumes that imgTab_p has only an IF and only a FREQ_ID
1279 // is associated to an IFNO
1280 // TODO: More complete Procedure would be
1281 // 1. Get freq IDs associated to sigIfno_
1282 // 2. Get freq information of the freq IDs
1283 // 3. For each freqIDs, get freq infromation in TOPO and an LO1
1284 // frequency and calculate image band frequencies.
1285 STFrequencies freqTab_ = imgTab_p->frequencies();
1286 // get the base frame of table
1287 const MFrequency::Types tabframe = freqTab_.getFrame(true);
1288 TableVector<uInt> freqIdVec( imgTab_p->table(), "FREQ_ID" );
1289 // assuming single freqID per IFNO
1290 uInt freqid = freqIdVec(0);
1291 int nChan = imgTab_p->nchan(imgTab_p->getIF(0));
1292 double refpix, refval, increment ;
1293 freqTab_.getEntry(refpix, refval, increment, freqid);
1294 //MFrequency sigrefval = MFrequency(MVFrequency(refval),tabframe);
1295 // get freq infromation of sigIfno_ in loFrame_
1296 const MPosition mp = imgTab_p->getAntennaPosition();
1297 MEpoch me;
1298 MDirection md;
1299 if (loTime_ < 0.)
1300 me = imgTab_p->getEpoch(-1);
1301 else
1302 me = MEpoch(MVEpoch(loTime_));
1303 if (loDir_.empty()) {
1304 ArrayColumn<Double> srcdirCol_;
1305 srcdirCol_.attach(imgTab_p->table(), "SRCDIRECTION");
1306 // Assuming J2000 and SRCDIRECTION in unit of rad
1307 Quantum<Double> srcra = Quantum<Double>(srcdirCol_(0)(IPosition(1,0)), "rad");
1308 Quantum<Double> srcdec = Quantum<Double>(srcdirCol_(0)(IPosition(1,1)), "rad");
1309 md = MDirection(srcra, srcdec, MDirection::J2000);
1310 //imgTab_p->getDirection(0);
1311 } else {
1312 // parse direction string
1313 string::size_type pos0 = loDir_.find(" ");
1314
1315 if (pos0 == string::npos) {
1316 throw AipsError("bad string format in LO1 direction");
1317 }
1318 string::size_type pos1 = loDir_.find(" ", pos0+1);
1319 String sepoch, sra, sdec;
1320 if (pos1 != string::npos) {
1321 sepoch = loDir_.substr(0, pos0);
1322 sra = loDir_.substr(pos0+1, pos1-pos0);
1323 sdec = loDir_.substr(pos1+1);
1324 }
1325 MDirection::Types epoch;
1326 MDirection::getType(epoch, sepoch);
1327 QuantumHolder qh ;
1328 String err ;
1329 qh.fromString( err, sra);
1330 Quantum<Double> ra = qh.asQuantumDouble() ;
1331 qh.fromString( err, sdec ) ;
1332 Quantum<Double> dec = qh.asQuantumDouble() ;
1333 //md = MDirection(ra.getValue("rad"), dec.getValue("rad"),epoch);
1334 md = MDirection(ra, dec, epoch);
1335 }
1336 MeasFrame mframe( me, mp, md );
1337 MFrequency::Convert tobframe(loFrame_, MFrequency::Ref(tabframe, mframe));
1338 MFrequency::Convert toloframe(tabframe, MFrequency::Ref(loFrame_, mframe));
1339 // Convert refval to loFrame_
1340 double sigrefval;
1341 if (tabframe == loFrame_)
1342 sigrefval = refval;
1343 else
1344 sigrefval = toloframe(Quantum<Double>(refval, "Hz")).get("Hz").getValue();
1345
1346 // Check for the availability of LO1
1347 if (lo1Freq_ > 0.) {
1348 os << "Using user defined LO1 frequency." << LogIO::POST;
1349 } else if (!asisName_.empty()) {
1350 // MS name is set.
1351 os << "Using user defined MS (asis): " << asisName_ << LogIO::POST;
1352 if (!getLo1FromAsisTab(asisName_, sigrefval, refpix, increment, nChan)) {
1353 throw AipsError("Failed to get LO1 frequency from MS");
1354 }
1355 } else if (!asdmName_.empty()) {
1356 // ASDM name is set.
1357 os << "Using user defined ASDM: " << asdmName_ << LogIO::POST;
1358 if (!getLo1FromAsdm(asdmName_, sigrefval, refpix, increment, nChan)) {
1359 throw AipsError("Failed to get LO1 frequency from ASDM");
1360 }
1361 } else {
1362 // Try getting ASDM name from scantable header
1363 os << "Try getting information from scantable header" << LogIO::POST;
1364 if (!getLo1FromScanTab(tableList_[0], sigrefval, refpix, increment, nChan)) {
1365 //throw AipsError("Failed to get LO1 frequency from asis table");
1366 os << LogIO::WARN << "Failed to get LO1 frequency using information in scantable." << LogIO::POST;
1367 os << LogIO::WARN << "Could not fill frequency information of IMAGE sideband properly." << LogIO::POST;
1368 os << LogIO::WARN << "Storing values of SIGNAL sideband in FREQUENCIES table" << LogIO::POST;
1369 return;
1370 }
1371 }
1372
1373 // LO1 should now be ready.
1374 if (lo1Freq_ < 0.)
1375 throw(AipsError("Got negative LO1 Frequency"));
1376
1377 // Print summary
1378 {
1379 // LO1
1380 Vector<Double> dirvec = md.getAngle(Unit(String("rad"))).getValue();
1381 os << "[LO1 settings]" << LogIO::POST;
1382 os << "- Frequency: " << lo1Freq_ << " [Hz] ("
1383 << MFrequency::showType(loFrame_) << ")" << LogIO::POST;
1384 os << "- Reference time: " << me.get(Unit(String("d"))).getValue()
1385 << " [day]" << LogIO::POST;
1386 os << "- Reference direction: [" << dirvec[0] << ", " << dirvec[1]
1387 << "] (" << md.getRefString() << ") " << LogIO::POST;
1388
1389 // signal sideband
1390 os << "[Signal side band]" << LogIO::POST;
1391 os << "- IFNO: " << imgTab_p->getIF(0) << " (FREQ_ID = " << freqid << ")"
1392 << LogIO::POST;
1393 os << "- Reference value: " << refval << " [Hz] ("
1394 << MFrequency::showType(tabframe) << ") = "
1395 << sigrefval << " [Hz] (" << MFrequency::showType(loFrame_)
1396 << ")" << LogIO::POST;
1397 os << "- Reference pixel: " << refpix << LogIO::POST;
1398 os << "- Increment: " << increment << " [Hz]" << LogIO::POST;
1399 }
1400
1401 // Calculate image band incr and refval in loFrame_
1402 Double imgincr = -increment;
1403 Double imgrefval = 2 * lo1Freq_ - sigrefval;
1404 Double imgrefval_tab = imgrefval;
1405 // Convert imgrefval back to table base frame
1406 if (tabframe != loFrame_)
1407 imgrefval = tobframe(Quantum<Double>(imgrefval, "Hz")).get("Hz").getValue();
1408 // Set new frequencies table
1409 uInt fIDnew = freqTab_.addEntry(refpix, imgrefval, imgincr);
1410 // Update FREQ_ID in table.
1411 freqIdVec = fIDnew;
1412
1413 // Print summary (Image sideband)
1414 {
1415 os << "[Image side band]" << LogIO::POST;
1416 os << "- IFNO: " << imgTab_p->getIF(0) << " (FREQ_ID = " << freqIdVec(0)
1417 << ")" << LogIO::POST;
1418 os << "- Reference value: " << imgrefval << " [Hz] ("
1419 << MFrequency::showType(tabframe) << ") = "
1420 << imgrefval_tab << " [Hz] (" << MFrequency::showType(loFrame_)
1421 << ")" << LogIO::POST;
1422 os << "- Reference pixel: " << refpix << LogIO::POST;
1423 os << "- Increment: " << imgincr << " [Hz]" << LogIO::POST;
1424 }
1425};
1426
1427Bool STSideBandSep::checkFile(const string name, string type)
1428{
1429 File file(name);
1430 if (!file.exists()){
1431 return false;
1432 } else if (type.empty()) {
1433 return true;
1434 } else {
1435 // Check for file type
1436 switch (std::tolower(type[0])) {
1437 case 'f':
1438 return file.isRegular(True);
1439 case 'd':
1440 return file.isDirectory(True);
1441 case 's':
1442 return file.isSymLink();
1443 default:
1444 throw AipsError("Invalid file type. Available types are 'file', 'directory', and 'symlink'.");
1445 }
1446 }
1447};
1448
1449bool STSideBandSep::getLo1FromAsdm(const string asdmname,
1450 const double /*refval*/,
1451 const double /*refpix*/,
1452 const double /*increment*/,
1453 const int /*nChan*/)
1454{
1455 // Check for relevant tables.
1456 string spwname = asdmname + "/SpectralWindow.xml";
1457 string recname = asdmname + "/Receiver.xml";
1458 if (!checkFile(spwname) || !checkFile(recname)) {
1459 throw(AipsError("Could not find subtables in ASDM"));
1460 }
1461
1462 return false;
1463
1464};
1465
1466
1467bool STSideBandSep::getLo1FromScanTab(CountedPtr< Scantable > &scantab,
1468 const double refval,
1469 const double refpix,
1470 const double increment,
1471 const int nChan)
1472{
1473 LogIO os(LogOrigin("STSideBandSep","getLo1FromScanTab()", WHERE));
1474 // Check for relevant tables.
1475 const TableRecord &rec = scantab->table().keywordSet() ;
1476 String spwname, recname;
1477 if (rec.isDefined("ASDM_SPECTRALWINDOW") && rec.isDefined("ASDM_RECEIVER")){
1478 spwname = rec.asString("ASDM_SPECTRALWINDOW");
1479 recname = rec.asString("ASDM_RECEIVER");
1480 }
1481 else {
1482 // keywords are not there
1483 os << LogIO::WARN
1484 << "Could not find necessary table names in scantable header."
1485 << LogIO::POST;
1486 return false;
1487 }
1488 if (!checkFile(spwname,"directory") || !checkFile(recname,"directory")) {
1489 throw(AipsError("Could not find relevant subtables in MS"));
1490 }
1491 // Get root MS name
1492 string msname;
1493 const String recsuff = "/ASDM_RECEIVER";
1494 String::size_type pos;
1495 pos = recname.size()-recsuff.size();
1496 if (recname.substr(pos) == recsuff)
1497 msname = recname.substr(0, pos);
1498 else
1499 throw(AipsError("Internal error in parsing table name from a scantable keyword."));
1500
1501 if (!checkFile(msname))
1502 throw(AipsError("Internal error in parsing MS name from a scantable keyword."));
1503
1504 return getLo1FromAsisTab(msname, refval, refpix, increment, nChan);
1505
1506};
1507
1508bool STSideBandSep::getLo1FromAsisTab(const string msname,
1509 const double refval,
1510 const double refpix,
1511 const double increment,
1512 const int nChan)
1513{
1514 LogIO os(LogOrigin("STSideBandSep","getLo1FromAsisTab()", WHERE));
1515 os << "Searching an LO1 frequency in '" << msname << "'" << LogIO::POST;
1516 // Check for relevant tables.
1517 const string spwname = msname + "/ASDM_SPECTRALWINDOW";
1518 const string recname = msname + "/ASDM_RECEIVER";
1519 if (!checkFile(spwname,"directory") || !checkFile(recname,"directory")) {
1520 throw(AipsError("Could not find relevant tables in MS"));
1521 }
1522
1523 Table spwtab_ = Table(spwname);
1524 String asdmSpw;
1525 ROTableRow spwrow(spwtab_);
1526 const Double rtol = 0.01;
1527 for (uInt idx = 0; idx < spwtab_.nrow(); idx++){
1528 const TableRecord& rec = spwrow.get(idx);
1529 // Compare nchan
1530 if (rec.asInt("numChan") != (Int) nChan)
1531 continue;
1532 // Compare increment
1533 Double asdminc;
1534 Array<Double> incarr = rec.asArrayDouble("chanWidthArray");
1535 if (incarr.size() > 0)
1536 asdminc = incarr(IPosition(1, (uInt) refpix));
1537 else
1538 asdminc = rec.asDouble("chanWidth");
1539 if (abs(asdminc - abs(increment)) > rtol * abs(increment))
1540 continue;
1541 // Compare refval
1542 Double asdmrefv;
1543 Array<Double> refvarr = rec.asArrayDouble("chanFreqArray");
1544 if (refvarr.size() > 0){
1545 const uInt iref = (uInt) refpix;
1546 const Double ratio = refpix - (Double) iref;
1547 asdmrefv = refvarr(IPosition(1, iref))*(1.-ratio)
1548 + refvarr(IPosition(1,iref+1))*ratio;
1549 }
1550 else {
1551 const Double ch0 = rec.asDouble("chanFreqStart");
1552 const Double chstep = rec.asDouble("chanFreqStep");
1553 asdmrefv = ch0 + chstep * refpix;
1554 }
1555 if (abs(asdmrefv - refval) < 0.5*abs(asdminc)){
1556 asdmSpw = rec.asString("spectralWindowId");
1557 break;
1558 }
1559 }
1560
1561 if (asdmSpw.empty()){
1562 os << LogIO::WARN << "Could not find relevant SPW ID in " << spwname << LogIO::POST;
1563 return false;
1564 }
1565 else {
1566 os << asdmSpw << " in " << spwname
1567 << " matches the freqeuncies of signal side band." << LogIO::POST;
1568 }
1569
1570 Table rectab_ = Table(recname);
1571 ROTableRow recrow(rectab_);
1572 for (uInt idx = 0; idx < rectab_.nrow(); idx++){
1573 const TableRecord& rec = recrow.get(idx);
1574 if (rec.asString("spectralWindowId") == asdmSpw){
1575 const Array<Double> loarr = rec.asArrayDouble("freqLO");
1576 lo1Freq_ = loarr(IPosition(1,0));
1577 os << "Found LO1 Frequency in " << recname << ": "
1578 << lo1Freq_ << " [Hz]" << LogIO::POST;
1579 return true;
1580 }
1581 }
1582 os << LogIO::WARN << "Could not find " << asdmSpw << " in " << recname
1583 << LogIO::POST;
1584 return false;
1585};
1586
1587} //namespace asap
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