source: BAORadio/AmasNancay/v5/mergeAnaFiles.cc@ 597

Last change on this file since 597 was 595, checked in by torrento, 14 years ago

Comment sleep in while loop
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1// Utilisation de SOPHYA pour faciliter les tests ...
2#include "sopnamsp.h"
3#include "machdefs.h"
4#include <dirent.h>
5#include <matharr.h>
6
7// include standard c/c++
8#include <regex.h>
9#include <stdio.h>
10#include <stdlib.h>
11#include <limits>
12#include <iostream>
13#include <fstream>
14#include <string>
15#include <vector>
16#include <map>
17#include <functional>
18#include <algorithm>
19#include <numeric>
20#include <list>
21#include <exception>
22
23// include sophya mesure ressource CPU/memoire ...
24#include "resusage.h"
25#include "ctimer.h"
26#include "timing.h"
27#include "timestamp.h"
28#include "strutilxx.h"
29#include "ntuple.h"
30#include "fioarr.h"
31#include "tarrinit.h"
32#include "histinit.h"
33#include "fitsioserver.h"
34#include "fiosinit.h"
35#include "ppersist.h"
36
37//-----------------------------------------------
38//Usage
39//
40//./Objs/mergeAnaFiles -act meanCalibBAODiffOnOff -inPath /sps/baoradio/AmasNancay/JEC/ -src Abell85 -ppfFile dataRaw -debug 1 -mxcycles 500
41//./Objs/mergeAnaFiles -src Abell85 -act meanCalibBAODiffOnOff -mxcycles 500 -calibfreq 1410 -inPath /sps/baoradio/AmasNancay/JEC/ -ppfFile dataRaw -debug 1 >& mergeAna-500.log
42//
43//
44//-----------------------------------------------
45const sa_size_t NUMBER_OF_CHANNELS = 2;
46const sa_size_t NUMBER_OF_FREQ = 8192;
47const r_4 LOWER_FREQUENCY = 1250.0; //MHz
48const r_4 TOTAL_BANDWIDTH = 250.0; //MHz
49//Input parameters
50struct Param {
51 int debuglev_; //debug
52 string inPath_; //root directory of the input files
53 string outPath_; //output files are located here
54 string sourceName_; //source name & subdirectory of the input files
55 string ppfFile_; //generic name of the input files
56 int nSliceInFreq_; //used by reduceSpectra() fnc
57 string calibFreq_; //freq. value used for calibration
58 r_4 rcalibFreq_; //float version
59 string calibBandFreq_; //band of freq. used for calibration
60 r_4 rcalibBandFreq_; //float version
61 int maxNumberCycles_;//maximum number of cycles to be treated
62} para;
63//--------------------------------------------------------------
64//Utility functions
65
66sa_size_t freqToChan(r_4 f){
67 return (sa_size_t)((f-LOWER_FREQUENCY)/TOTAL_BANDWIDTH*NUMBER_OF_FREQ);
68}
69//--------
70//COMPUTE the mean value on a freq. range for all channels
71//--------
72void meanInRange(const TMatrix<r_4> mtx,
73 sa_size_t chLow,
74 sa_size_t chHigh,
75 TVector<r_4>& vec){
76
77 sa_size_t nr = mtx.NRows();
78
79 for (sa_size_t ir=0; ir<nr; ir++){
80 TVector<r_4> tmp(mtx(Range(ir),Range(chLow,chHigh)),false);
81 double mean, sigma;
82 MeanSigma(tmp,mean,sigma);
83 vec(ir) = mean;
84 }
85}
86//---------
87class median_of_empty_list_exception:public std::exception{
88 virtual const char* what() const throw() {
89 return "Attempt to take the median of an empty list of numbers. "
90 "The median of an empty list is undefined.";
91 }
92};
93template<class RandAccessIter>
94double median(RandAccessIter begin, RandAccessIter end)
95 throw(median_of_empty_list_exception){
96 if(begin == end){ throw median_of_empty_list_exception(); }
97 std::size_t size = end - begin;
98 std::size_t middleIdx = size/2;
99 RandAccessIter target = begin + middleIdx;
100 std::nth_element(begin, target, end);
101
102 if(size % 2 != 0){ //Odd number of elements
103 return *target;
104 }else{ //Even number of elements
105 double a = *target;
106 RandAccessIter targetNeighbor= target-1;
107 std::nth_element(begin, targetNeighbor, end);
108 return (a+*targetNeighbor)/2.0;
109 }
110}
111
112//-------------
113//JEC 25/10/11 Perform a median filtering with a sliding window of "halfwidth" half width
114// It takes care of the edges and is based on the median function (above)
115void medianFiltering(const TMatrix<r_4> mtx,
116 sa_size_t halfwidth,
117 TMatrix<r_4>& vec) {
118
119 sa_size_t nr = mtx.NRows();
120 sa_size_t nc = mtx.NCols();
121 sa_size_t chMin = 0;
122 sa_size_t chMax = nc-1;
123
124 for (sa_size_t ir=0; ir<nr; ir++){
125 for (sa_size_t ic=0; ic<nc; ic++) {
126 sa_size_t chLow = ic-halfwidth;
127 chLow = (chLow >= chMin) ? chLow : chMin;
128 sa_size_t chHigh = ic+halfwidth;
129 chHigh = ( chHigh <= chMax ) ? chHigh : chMax;
130 TVector<r_4> tmp(mtx(Range(ir),Range(chLow,chHigh)),false);
131 vector<r_4> val;
132 tmp.FillTo(val);
133 vec(ir,ic) = median(val.begin(),val.end());
134 }
135 }
136}
137//-------------
138void split(const string& str, const string& delimiters , vector<string>& tokens) {
139 // Skip delimiters at beginning.
140 string::size_type lastPos = str.find_first_not_of(delimiters, 0);
141 // Find first "non-delimiter".
142 string::size_type pos = str.find_first_of(delimiters, lastPos);
143
144 while (string::npos != pos || string::npos != lastPos)
145 {
146 // Found a token, add it to the vector.
147 tokens.push_back(str.substr(lastPos, pos - lastPos));
148 // Skip delimiters. Note the "not_of"
149 lastPos = str.find_first_not_of(delimiters, pos);
150 // Find next "non-delimiter"
151 pos = str.find_first_of(delimiters, lastPos);
152 }
153}
154//--------------------------------------------------------------
155char *regexp (const char *string, const char *patrn, int *begin, int *end) {
156 int i, w=0, len;
157 char *word = NULL;
158 regex_t rgT;
159 regmatch_t match;
160 regcomp(&rgT,patrn,REG_EXTENDED);
161 if ((regexec(&rgT,string,1,&match,0)) == 0) {
162 *begin = (int)match.rm_so;
163 *end = (int)match.rm_eo;
164 len = *end-*begin;
165 word=(char*)malloc(len+1);
166 for (i=*begin; i<*end; i++) {
167 word[w] = string[i];
168 w++; }
169 word[w]=0;
170 }
171 regfree(&rgT);
172 return word;
173}
174//-------
175sa_size_t round_sa(r_4 r) {
176 return static_cast<sa_size_t>((r > 0.0) ? (r + 0.5) : (r - 0.5));
177}
178//-----
179string StringToLower(string strToConvert){
180 //change each element of the string to lower case
181 for(unsigned int i=0;i<strToConvert.length();i++) {
182 strToConvert[i] = tolower(strToConvert[i]);
183 }
184 return strToConvert;//return the converted string
185}
186//-----
187bool stringCompare( const string &left, const string &right ){
188 if( left.size() < right.size() )
189 return true;
190 for( string::const_iterator lit = left.begin(), rit = right.begin(); lit != left.end() && rit != right.end(); ++lit, ++rit )
191 if( tolower( *lit ) < tolower( *rit ) )
192 return true;
193 else if( tolower( *lit ) > tolower( *rit ) )
194 return false;
195 return false;
196}
197//-----
198list<string> ListOfFileInDir(string dir, string filePettern) throw(string) {
199 list<string> theList;
200
201
202 DIR *dip;
203 struct dirent *dit;
204 string msg; string fileName;
205 string fullFileName;
206 size_t found;
207
208 if ((dip=opendir(dir.c_str())) == NULL ) {
209 msg = "opendir failed on directory "+dir;
210 throw msg;
211 }
212 while ( (dit = readdir(dip)) != NULL ) {
213 fileName = dit->d_name;
214 found=fileName.find(filePettern);
215 if (found != string::npos) {
216 fullFileName = dir + "/";
217 fullFileName += fileName;
218 theList.push_back(fullFileName);
219 }
220 }//eo while
221 if (closedir(dip) == -1) {
222 msg = "closedir failed on directory "+dir;
223 throw msg;
224 }
225
226 theList.sort(stringCompare);
227
228 return theList;
229
230}
231//
232class StringMatch : public unary_function<string,bool> {
233public:
234 StringMatch(const string& pattern): pattern_(pattern){}
235 bool operator()(const string& aStr) const {
236
237
238 int b,e;
239 regexp(aStr.c_str(),pattern_.c_str(),&b,&e);
240
241// cout << "investigate " << aStr << " to find " << pattern_
242// << "[" <<b<<","<<e<<"]"
243// << endl;
244
245
246 if (b != 0) return false;
247 if (e != (int)aStr.size()) return false;
248 return true;
249
250 }
251private:
252 string pattern_;
253};
254//-------------------------------------------------------
255//Rebin in frequence + compute mean and sigma
256void reduceSpectra(const TMatrix<r_4>& specMtxInPut,
257 TMatrix<r_4>& meanMtx,
258 TMatrix<r_4>& sigmaMtx) {
259 sa_size_t nSliceFreq = para.nSliceInFreq_;
260 sa_size_t deltaFreq = NUMBER_OF_FREQ/nSliceFreq;
261 for (sa_size_t iSlice=0; iSlice<nSliceFreq; iSlice++){
262 sa_size_t freqLow= iSlice*deltaFreq;
263 sa_size_t freqHigh= freqLow + deltaFreq -1;
264 for (sa_size_t iCh=0; iCh<NUMBER_OF_CHANNELS; ++iCh){
265 TVector<r_4> reducedRow;
266 reducedRow = specMtxInPut.SubMatrix(Range(iCh),Range(freqLow,freqHigh)).CompactAllDimensions();
267 double mean;
268 double sigma;
269 MeanSigma(reducedRow,mean,sigma);
270 meanMtx(iCh,iSlice) = mean;
271 sigmaMtx(iCh,iSlice) = sigma;
272 }//eo loop on channels
273 }//eo loop on slices
274}
275//-------------------------------------------------------
276//Compute the mean of Diff ON-OFF BAO-calibrated spectra and also the mean/sigma of rebinned spectra
277//
278void meanCalibBAODiffOnOffCycles() throw(string) {
279
280 list<string> listOfFiles;
281 string directoryName;
282 directoryName = para.inPath_ + "/" + para.sourceName_;
283
284 //Make the listing of the directory
285 listOfFiles = ListOfFileInDir(directoryName,para.ppfFile_);
286
287 list<string>::const_iterator iFile, iFileEnd, iSpec, iSpecEnd;
288 iFileEnd = listOfFiles.end();
289
290 //mean ON-OFF over the list of cycles
291 TMatrix<r_4> meanDiffONOFFovOFF_noCalib(NUMBER_OF_CHANNELS,NUMBER_OF_FREQ); //set to 0
292 TMatrix<r_4> meanDiffONOFF_noCalib(NUMBER_OF_CHANNELS,NUMBER_OF_FREQ); //set to 0
293 TMatrix<r_4> meanDiffONOFF_perRunCalib(NUMBER_OF_CHANNELS,NUMBER_OF_FREQ); //set to 0
294 TMatrix<r_4> meanDiffONOFF_perCycleCalib(NUMBER_OF_CHANNELS,NUMBER_OF_FREQ); //set to 0
295 static const int NINFO=21;
296 char* onffTupleName[NINFO]={"cycle"
297 ,"onoffRaw0","onoffRaw1"
298 ,"onoffRun0","onoffRun1"
299 ,"onoffCycle0","onoffCycle1"
300 ,"onoffRaw01420","onoffRaw11420"
301 ,"onoffRun01420","onoffRun11420"
302 ,"onoffCycle01420","onoffCycle11420"
303 ,"onoffRaw01420side","onoffRaw11420side"
304 ,"onoffRun01420side","onoffRun11420side"
305 ,"onoffCycle01420side","onoffCycle11420side"
306 ,"onoffRaw0f14001420","onoffRaw1f14001420"
307 };
308 NTuple onoffevolution(NINFO,onffTupleName);
309 r_4 xnt[NINFO];
310
311 //Lower and Higher freq. arround the Calibration Freq. bin to perform mean follow up
312 sa_size_t chCalibLow = freqToChan(para.rcalibFreq_ - (para.rcalibBandFreq_*0.5));
313 sa_size_t chCalibHigh = freqToChan(para.rcalibFreq_ + (para.rcalibBandFreq_*0.5));
314 //Lower and Higher freq. just arround 1420.4MHz Freq. bin to perform mean follow up
315 sa_size_t ch1420Low = freqToChan(1420.4-0.2);
316 sa_size_t ch1420High = freqToChan(1420.4+0.2);
317
318 //Lower and Higher freq. on the sides of 1420.4Mhz Freq. bin to perform mean follow up
319 sa_size_t ch1420aLow = freqToChan(1418);
320 sa_size_t ch1420aHigh = freqToChan(1419);
321 sa_size_t ch1420bLow = freqToChan(1422);
322 sa_size_t ch1420bHigh = freqToChan(1423);
323
324 //25/10/11 follow 1400-1420Mhz
325 sa_size_t ch1420 = freqToChan(1420);
326 sa_size_t ch1400 = freqToChan(1400);
327
328 if (para.debuglev_>0){
329 cout << "freq. band for follow up [" << chCalibLow << ", "<< chCalibHigh << "]" << endl;
330 cout << "freq. band for follow up [" << ch1420Low << ", "<< ch1420High << "]" << endl;
331 cout << "freq. band for follow up [" << ch1420aLow << ", "<< ch1420aHigh << "]" << endl;
332 cout << "freq. band for follow up [" << ch1420bLow << ", "<< ch1420bHigh << "]" << endl;
333 }
334
335 //Loop on files/run
336
337 int totalNumberCycles=0; //total number of cycles for normalisation
338 for (iFile = listOfFiles.begin(); iFile != iFileEnd; ++iFile) {
339 if (para.debuglev_>90){
340 cout << "load file <" << *iFile << ">" << endl;
341 }
342
343 vector<string> tokens;
344 split(*iFile,"_",tokens);
345 string dateOfRun = tokens[1];
346 if (para.debuglev_>90){
347 cout << "date <" << dateOfRun << ">" << endl;
348 }
349 vector<string> tokens2;
350 split(tokens[2],".",tokens2);
351 string srcLower = tokens2[0];
352
353
354
355 PInPersist fin(*iFile);
356 vector<string> vec = fin.GetNameTags();
357
358 vector<string> modeList;
359 modeList.push_back("On");
360 modeList.push_back("Off");
361 vector<string>::const_iterator iMode;
362
363 map<string, list<int> > cycleModeCollect;
364
365 for (iMode = modeList.begin(); iMode!=modeList.end(); ++iMode) {
366 list<string> listOfSpectra;
367 //Keep only required PPF objects
368 string matchstr = "specRaw"+(*iMode)+"[0-9]+";
369 std::remove_copy_if(
370 vec.begin(), vec.end(), back_inserter(listOfSpectra),
371 not1(StringMatch(matchstr))
372 );
373
374 listOfSpectra.sort(stringCompare);
375 iSpecEnd = listOfSpectra.end();
376
377 matchstr = "[0-9]+";
378 //Loop of spectra matrix
379 list<int> listOfCycles;
380 for (iSpec = listOfSpectra.begin(); iSpec!=iSpecEnd; ++iSpec){
381 int b,e;
382 regexp(iSpec->c_str(),matchstr.c_str(),&b,&e);
383 if (para.debuglev_>90){
384 cout << " spactra <" << *iSpec << ">" << endl;
385 cout << " cycle " << iSpec->substr(b) << endl;
386 }
387 listOfCycles.push_back(atoi((iSpec->substr(b)).c_str()));
388 }//end loop spectra
389 cycleModeCollect[*iMode] = listOfCycles;
390 }//end of mode
391
392 //Take the Intersection of the list Of cycles in mode Off and On
393 list<int> commonCycles;
394 set_intersection(cycleModeCollect["On"].begin(),
395 cycleModeCollect["On"].end(),
396 cycleModeCollect["Off"].begin(),
397 cycleModeCollect["Off"].end(),
398 back_inserter(commonCycles)
399 );
400
401 if (para.debuglev_>90){
402 cout << "Liste of cycles common to On & Off: <";
403 for (list<int>::iterator i=commonCycles.begin(); i!=commonCycles.end(); ++i){
404 cout << *i << " ";
405 }
406 cout << ">" << endl;
407 }
408
409 //
410 //Load BAO Calibration factors "per Cycle and Channels"
411 //Compute the mean per Cycle to
412 // fill factors "per Run and Channels" with the same cycle list
413 //
414 //
415 //TODO improve the code....
416
417 TMatrix<r_4> calibBAOfactors_Off_Cycle_Ch0;
418 TMatrix<r_4> calibBAOfactors_Off_Cycle_Ch1;
419 TMatrix<r_4> calibBAOfactors_On_Cycle_Ch0;
420 TMatrix<r_4> calibBAOfactors_On_Cycle_Ch1;
421
422 string calibFileName;
423 ifstream ifs;
424 sa_size_t nr,nc; //values read
425
426 //OFF Cycle per Channel
427 calibFileName = directoryName + "/"
428 + "calib_" + dateOfRun + "_" + srcLower + "_Off_"
429 + para.calibFreq_ +"MHz-Ch0Cycles.txt";
430 if(para.debuglev_>0) cout << "Read Calib file " << calibFileName << endl;
431 ifs.open(calibFileName.c_str());
432 if ( ! ifs.is_open() ) {
433
434 throw calibFileName + " cannot be opened...";
435 }
436 calibBAOfactors_Off_Cycle_Ch0.ReadASCII(ifs,nr,nc);
437 if(para.debuglev_>9){
438 cout << "(nr,nc): "<< nr << "," << nc << endl;
439 calibBAOfactors_Off_Cycle_Ch0.Print(cout);
440 cout << endl;
441 }
442
443 TMatrix<r_4> calibBAOfactors_Off_Run_Ch0(nr,nc);
444 calibBAOfactors_Off_Run_Ch0.Column(0) = calibBAOfactors_Off_Cycle_Ch0.Column(0);
445 {//Compute the mean
446 TVector<r_4> coef(calibBAOfactors_Off_Cycle_Ch0(Range::all(),Range::last()),false);
447 double mean,sigma;
448 MeanSigma(coef,mean,sigma);
449 calibBAOfactors_Off_Run_Ch0.Column(1).SetCst(mean);
450 }
451 if(para.debuglev_>9){
452 cout << "Fill calib. with mean value " << endl;
453 calibBAOfactors_Off_Run_Ch0.Print(cout);
454 cout << endl;
455 }
456 ifs.close();
457
458 //
459 calibFileName = directoryName + "/"
460 + "calib_" + dateOfRun + "_" + srcLower + "_Off_"
461 + para.calibFreq_ +"MHz-Ch1Cycles.txt";
462 if(para.debuglev_>0) cout << "Read Calib file " << calibFileName << endl;
463 ifs.open(calibFileName.c_str());
464 if ( ! ifs.is_open() ) {
465
466 throw calibFileName + " cannot be opened...";
467 }
468 calibBAOfactors_Off_Cycle_Ch1.ReadASCII(ifs,nr,nc);
469 if(para.debuglev_>9){
470 cout << "(nr,nc): "<< nr << "," << nc << endl;
471 calibBAOfactors_Off_Cycle_Ch1.Print(cout);
472 cout << endl;
473 }
474 TMatrix<r_4> calibBAOfactors_Off_Run_Ch1(nr,nc);
475 calibBAOfactors_Off_Run_Ch1.Column(0) = calibBAOfactors_Off_Cycle_Ch1.Column(0);
476 {//Compute the mean
477 TVector<r_4> coef(calibBAOfactors_Off_Cycle_Ch1(Range::all(),Range::last()),false);
478 double mean,sigma;
479 MeanSigma(coef,mean,sigma);
480 // cout << "Mean: " << mean << " sigma " << sigma << endl;
481 calibBAOfactors_Off_Run_Ch1.Column(1).SetCst(mean);
482 }
483 if(para.debuglev_>9){
484 cout << "Fill calib. with mean value " << endl;
485 calibBAOfactors_Off_Run_Ch1.Print(cout);
486 cout << endl;
487 }
488 ifs.close();
489
490 //ON Cycle per Channel
491 calibFileName = directoryName + "/"
492 + "calib_" + dateOfRun + "_" + srcLower + "_On_"
493 + para.calibFreq_ +"MHz-Ch0Cycles.txt";
494 if(para.debuglev_>0) cout << "Read Calib file " << calibFileName << endl;
495 ifs.open(calibFileName.c_str());
496 if ( ! ifs.is_open() ) {
497
498 throw calibFileName + " cannot be opened...";
499 }
500 calibBAOfactors_On_Cycle_Ch0.ReadASCII(ifs,nr,nc);
501 if(para.debuglev_>9){
502 cout << "(nr,nc): "<< nr << "," << nc << endl;
503 calibBAOfactors_On_Cycle_Ch0.Print(cout);
504 cout << endl;
505 }
506
507 TMatrix<r_4> calibBAOfactors_On_Run_Ch0(nr,nc);
508 calibBAOfactors_On_Run_Ch0.Column(0) = calibBAOfactors_On_Cycle_Ch0.Column(0);
509 {//Compute the mean
510 TVector<r_4> coef(calibBAOfactors_On_Cycle_Ch0(Range::all(),Range::last()),false);
511 double mean,sigma;
512 MeanSigma(coef,mean,sigma);
513 // cout << "Mean: " << mean << " sigma " << sigma << endl;
514 calibBAOfactors_On_Run_Ch0.Column(1).SetCst(mean);
515 }
516 if(para.debuglev_>9){
517 cout << "Fill calib. with mean value " << endl;
518 calibBAOfactors_On_Run_Ch0.Print(cout);
519 cout << endl;
520 }
521 ifs.close();
522
523
524 calibFileName = directoryName + "/"
525 + "calib_" + dateOfRun + "_" + srcLower + "_On_"
526 + para.calibFreq_ +"MHz-Ch1Cycles.txt";
527 if(para.debuglev_>0) cout << "Read Calib file " << calibFileName << endl;
528 ifs.open(calibFileName.c_str());
529 if ( ! ifs.is_open() ) {
530 throw calibFileName + " cannot be opened...";
531 }
532 calibBAOfactors_On_Cycle_Ch1.ReadASCII(ifs,nr,nc);
533 if(para.debuglev_>9){
534 cout << "(nr,nc): "<< nr << "," << nc << endl;
535 calibBAOfactors_On_Cycle_Ch1.Print(cout);
536 cout << endl;
537 }
538 TMatrix<r_4> calibBAOfactors_On_Run_Ch1(nr,nc);
539 calibBAOfactors_On_Run_Ch1.Column(0) = calibBAOfactors_On_Cycle_Ch1.Column(0);
540 {//Compute the mean
541 TVector<r_4> coef(calibBAOfactors_On_Cycle_Ch1(Range::all(),Range::last()),false);
542 double mean,sigma;
543 MeanSigma(coef,mean,sigma);
544 // cout << "Mean: " << mean << " sigma " << sigma << endl;
545 calibBAOfactors_On_Run_Ch1.Column(1).SetCst(mean);
546 }
547 if(para.debuglev_>9){
548 cout << "Fill calib. with mean value " << endl;
549 calibBAOfactors_On_Run_Ch1.Print(cout);
550 cout << endl;
551 }
552
553 ifs.close();
554
555 //link <cycle> - <calibration coefficient>
556 //We cannot rely on identical cycle list of the OFF and ON calibration
557 map<int,r_4> calibBAO_Off_Run_Ch0;
558 map<int,r_4> calibBAO_Off_Run_Ch1;
559 map<int,r_4> calibBAO_On_Run_Ch0;
560 map<int,r_4> calibBAO_On_Run_Ch1;
561
562 map<int,r_4> calibBAO_Off_Cycle_Ch0;
563 map<int,r_4> calibBAO_Off_Cycle_Ch1;
564 map<int,r_4> calibBAO_On_Cycle_Ch0;
565 map<int,r_4> calibBAO_On_Cycle_Ch1;
566
567 //per Run based BAO coefficients
568 nr = calibBAOfactors_Off_Run_Ch0.NRows();
569 for (sa_size_t ir=0; ir<nr; ++ir){
570// cout << "Calib. Off Run Ch0 cycle ["<< calibBAOfactors_Off_Run_Ch0(ir,0)<<"], val "
571// << calibBAOfactors_Off_Run_Ch0(ir,1) << endl;
572
573 calibBAO_Off_Run_Ch0[(int)calibBAOfactors_Off_Run_Ch0(ir,0)]
574 = calibBAOfactors_Off_Run_Ch0(ir,1);
575 calibBAO_Off_Cycle_Ch0[(int)calibBAOfactors_Off_Cycle_Ch0(ir,0)]
576 = calibBAOfactors_Off_Cycle_Ch0(ir,1);
577 calibBAO_Off_Run_Ch1[(int)calibBAOfactors_Off_Run_Ch1(ir,0)]
578 = calibBAOfactors_Off_Run_Ch1(ir,1);
579 calibBAO_Off_Cycle_Ch1[(int)calibBAOfactors_Off_Cycle_Ch1(ir,0)]
580 = calibBAOfactors_Off_Cycle_Ch1(ir,1);
581 }//eo loop on coef Off
582
583 nr = calibBAOfactors_On_Run_Ch0.NRows();
584 for (sa_size_t ir=0; ir<nr; ++ir){
585 calibBAO_On_Run_Ch0[(int)calibBAOfactors_On_Run_Ch0(ir,0)]
586 = calibBAOfactors_On_Run_Ch0(ir,1);
587 calibBAO_On_Cycle_Ch0[(int)calibBAOfactors_On_Cycle_Ch0(ir,0)]
588 = calibBAOfactors_On_Cycle_Ch0(ir,1);
589 calibBAO_On_Run_Ch1[(int)calibBAOfactors_On_Run_Ch1(ir,0)]
590 = calibBAOfactors_On_Run_Ch1(ir,1);
591 calibBAO_On_Cycle_Ch1[(int)calibBAOfactors_On_Cycle_Ch1(ir,0)]
592 = calibBAOfactors_On_Cycle_Ch1(ir,1);
593 }//eo loop on coef On
594
595 //Loop on cyles
596 for (list<int>::iterator ic=commonCycles.begin(); ic!=commonCycles.end(); ++ic){
597
598 //Look if the cycle has been calibrated...
599 bool isCycleCalibrated =
600 ( calibBAO_On_Run_Ch0.count(*ic) *
601 calibBAO_On_Run_Ch1.count(*ic) *
602 calibBAO_Off_Run_Ch0.count(*ic) *
603 calibBAO_Off_Run_Ch1.count(*ic) *
604 calibBAO_On_Cycle_Ch0.count(*ic) *
605 calibBAO_On_Cycle_Ch1.count(*ic) *
606 calibBAO_Off_Cycle_Ch0.count(*ic) *
607 calibBAO_Off_Cycle_Ch1.count(*ic) ) != 0 ? true : false;
608
609 if(para.debuglev_>9) {
610 cout << "Calibration coefficients for cycle "<<*ic << endl;
611 if (isCycleCalibrated) {
612 cout << "Cycle calibrated " << endl;
613 cout << "Off Run Ch0 " << calibBAO_Off_Run_Ch0[*ic] << " "
614 << "Ch1 " << calibBAO_Off_Run_Ch1[*ic] << "\n"
615 << "On Run Ch0 " << calibBAO_On_Run_Ch0[*ic] << " "
616 << "Ch1 " << calibBAO_On_Run_Ch1[*ic] << "\n"
617 << "Off Cycle Ch0 " << calibBAO_Off_Cycle_Ch0[*ic] << " "
618 << "Ch1 " << calibBAO_Off_Cycle_Ch1[*ic] << "\n"
619 << "On Cycle Ch0 " << calibBAO_On_Cycle_Ch0[*ic] << " "
620 << "Ch1 " << calibBAO_On_Cycle_Ch1[*ic] << endl;
621 } else {
622 cout << "Cycle NOT calibrated " << endl;
623 }
624 }//debug
625
626
627 if ( ! isCycleCalibrated ) continue;
628
629 string ppftag;
630 //load ON phase
631 stringstream cycle;
632 cycle << *ic;
633
634 ppftag = "specRawOn"+cycle.str();
635 TMatrix<r_4> aSpecOn(NUMBER_OF_CHANNELS,NUMBER_OF_FREQ);
636 fin.GetObject(aSpecOn,ppftag);
637
638 TMatrix<r_4> aSpecOn_BAOCalibRun(aSpecOn,false);
639 aSpecOn_BAOCalibRun(Range(0),Range::all()) /= calibBAO_On_Run_Ch0[*ic];
640 aSpecOn_BAOCalibRun(Range(1),Range::all()) /= calibBAO_On_Run_Ch1[*ic];
641
642 TMatrix<r_4> aSpecOn_BAOCalibCycle(aSpecOn,false);
643 aSpecOn_BAOCalibCycle(Range(0),Range::all()) /= calibBAO_On_Cycle_Ch0[*ic];
644 aSpecOn_BAOCalibCycle(Range(1),Range::all()) /= calibBAO_On_Cycle_Ch1[*ic];
645
646 ppftag = "specRawOff"+cycle.str();
647 TMatrix<r_4> aSpecOff(NUMBER_OF_CHANNELS,NUMBER_OF_FREQ);
648 fin.GetObject(aSpecOff,ppftag);
649
650 TMatrix<r_4> aSpecOff_BAOCalibRun(aSpecOff,false);
651 aSpecOff_BAOCalibRun(Range(0),Range::all()) /= calibBAO_Off_Run_Ch0[*ic];
652 aSpecOff_BAOCalibRun(Range(1),Range::all()) /= calibBAO_Off_Run_Ch1[*ic];
653
654 TMatrix<r_4> aSpecOff_BAOCalibCycle(aSpecOff,false);
655 aSpecOff_BAOCalibCycle(Range(0),Range::all()) /= calibBAO_Off_Cycle_Ch0[*ic];
656 aSpecOff_BAOCalibCycle(Range(1),Range::all()) /= calibBAO_Off_Cycle_Ch1[*ic];
657
658
659 //Perform the difference ON-OFF with the different calibration options
660 TMatrix<r_4> diffOnOff_noCalib = aSpecOn - aSpecOff;
661 meanDiffONOFF_noCalib += diffOnOff_noCalib;
662
663 //JEC 29/10/11 add ON-OFF/OFF
664 TMatrix<r_4> diffOnOffOvOff_noCalib(diffOnOff_noCalib,false); //do not share data
665 TMatrix<r_4> aSpecOffFitltered(NUMBER_OF_CHANNELS,NUMBER_OF_FREQ);
666 sa_size_t halfWidth = 35; //number of freq. bin for the 1/2 width of the filtering window
667 medianFiltering(aSpecOff,halfWidth,aSpecOffFitltered);
668
669 diffOnOffOvOff_noCalib.Div(aSpecOffFitltered); //division in place
670 meanDiffONOFFovOFF_noCalib += diffOnOffOvOff_noCalib;
671
672 TMatrix<r_4> diffOnOff_perRunCalib = aSpecOn_BAOCalibRun - aSpecOff_BAOCalibRun;
673 meanDiffONOFF_perRunCalib += diffOnOff_perRunCalib;
674
675 TMatrix<r_4> diffOnOff_perCycleCalib = aSpecOn_BAOCalibCycle - aSpecOff_BAOCalibCycle;
676 meanDiffONOFF_perCycleCalib += diffOnOff_perCycleCalib;
677
678 //
679 totalNumberCycles++;
680 //Fill NTuple
681 xnt[0] = totalNumberCycles;
682
683 //Follow up arround the Calibration Freq.
684 TVector<r_4> meanInRange_CalibFreq_noCalib(NUMBER_OF_CHANNELS);
685 meanInRange(diffOnOff_noCalib,chCalibLow,chCalibHigh,meanInRange_CalibFreq_noCalib);
686 xnt[1] = meanInRange_CalibFreq_noCalib(0);
687 xnt[2] = meanInRange_CalibFreq_noCalib(1);
688
689 TVector<r_4> meanInRange_CalibFreq_perRunCalib(NUMBER_OF_CHANNELS);
690 meanInRange(diffOnOff_perRunCalib,chCalibLow,chCalibHigh,meanInRange_CalibFreq_perRunCalib);
691 xnt[3] = meanInRange_CalibFreq_perRunCalib(0);
692 xnt[4] = meanInRange_CalibFreq_perRunCalib(1);
693
694 TVector<r_4> meanInRange_CalibFreq_perCycleCalib(NUMBER_OF_CHANNELS);
695 meanInRange(diffOnOff_perCycleCalib,chCalibLow,chCalibHigh,meanInRange_CalibFreq_perCycleCalib);
696 xnt[5] = meanInRange_CalibFreq_perCycleCalib(0);
697 xnt[6] = meanInRange_CalibFreq_perCycleCalib(1);
698
699
700 //Follow up arround the 1420.4MHz Freq.
701 TVector<r_4> meanInRange_1420Freq_noCalib(NUMBER_OF_CHANNELS);
702 meanInRange(diffOnOff_noCalib,ch1420Low,ch1420High,meanInRange_1420Freq_noCalib);
703 xnt[7] = meanInRange_1420Freq_noCalib(0);
704 xnt[8] = meanInRange_1420Freq_noCalib(1);
705
706 TVector<r_4> meanInRange_1420Freq_perRunCalib(NUMBER_OF_CHANNELS);
707 meanInRange(diffOnOff_perRunCalib,ch1420Low,ch1420High,meanInRange_1420Freq_perRunCalib);
708 xnt[9] = meanInRange_1420Freq_perRunCalib(0);
709 xnt[10] = meanInRange_1420Freq_perRunCalib(1);
710
711 TVector<r_4> meanInRange_1420Freq_perCycleCalib(NUMBER_OF_CHANNELS);
712 meanInRange(diffOnOff_perCycleCalib,ch1420Low,ch1420High,meanInRange_1420Freq_perCycleCalib);
713 xnt[11] = meanInRange_1420Freq_perCycleCalib(0);
714 xnt[12] = meanInRange_1420Freq_perCycleCalib(1);
715
716
717 //Follow up below the 1420.4MHz Freq.
718 TVector<r_4> meanInRange_1420aFreq_noCalib(NUMBER_OF_CHANNELS);
719 meanInRange(diffOnOff_noCalib,ch1420aLow,ch1420aHigh,meanInRange_1420aFreq_noCalib);
720 TVector<r_4> meanInRange_1420bFreq_noCalib(NUMBER_OF_CHANNELS);
721 meanInRange(diffOnOff_noCalib,ch1420bLow,ch1420bHigh,meanInRange_1420bFreq_noCalib);
722
723 xnt[13] = (meanInRange_1420aFreq_noCalib(0) + meanInRange_1420bFreq_noCalib(0))/2.;
724 xnt[14] = (meanInRange_1420aFreq_noCalib(1) + meanInRange_1420bFreq_noCalib(1))/2.;
725
726
727 TVector<r_4> meanInRange_1420aFreq_perRun(NUMBER_OF_CHANNELS);
728 meanInRange(diffOnOff_perRunCalib,ch1420aLow,ch1420aHigh,meanInRange_1420aFreq_perRun);
729 TVector<r_4> meanInRange_1420bFreq_perRun(NUMBER_OF_CHANNELS);
730 meanInRange(diffOnOff_perRunCalib,ch1420bLow,ch1420bHigh,meanInRange_1420bFreq_perRun);
731
732 xnt[15] = (meanInRange_1420aFreq_perRun(0) + meanInRange_1420bFreq_perRun(0))/2.;
733 xnt[16] = (meanInRange_1420aFreq_perRun(1) + meanInRange_1420bFreq_perRun(1))/2.;
734
735
736 TVector<r_4> meanInRange_1420aFreq_perCycle(NUMBER_OF_CHANNELS);
737 meanInRange(diffOnOff_perCycleCalib,ch1420aLow,ch1420aHigh,meanInRange_1420aFreq_perCycle);
738 TVector<r_4> meanInRange_1420bFreq_perCycle(NUMBER_OF_CHANNELS);
739 meanInRange(diffOnOff_perCycleCalib,ch1420bLow,ch1420bHigh,meanInRange_1420bFreq_perCycle);
740
741 xnt[17] = (meanInRange_1420aFreq_perCycle(0) + meanInRange_1420bFreq_perCycle(0))/2.;
742 xnt[18] = (meanInRange_1420aFreq_perCycle(1) + meanInRange_1420bFreq_perCycle(1))/2.;
743
744
745 //JEC 25/10/11 follow 1400-1420 MHz bande protege et n'inclue pas le 1420.4Mhz de la Galaxie
746 TVector<r_4> meanInRange_1400a1420Freq_noCalib(NUMBER_OF_CHANNELS);
747 meanInRange(diffOnOff_noCalib,ch1400,ch1420,meanInRange_1400a1420Freq_noCalib);
748 xnt[19] = meanInRange_1400a1420Freq_noCalib(0);
749 xnt[20] = meanInRange_1400a1420Freq_noCalib(1);
750
751
752
753 //store infos to Ntuple
754 onoffevolution.Fill(xnt);
755
756 //Quit if enough
757 if (totalNumberCycles >= para.maxNumberCycles_) break;
758
759 }//eo loop on cycles
760 if (totalNumberCycles >= para.maxNumberCycles_) break;
761
762 }//eo loop on spectra in a file
763 cout << "End of jobs: we have treated " << totalNumberCycles << " cycles" << endl;
764 //Normalisation
765 if(totalNumberCycles > 0){
766 //JEC 29/10 add ON-OFF/OFF
767 meanDiffONOFFovOFF_noCalib /= (r_4)totalNumberCycles;
768 meanDiffONOFF_noCalib /= (r_4)totalNumberCycles;
769 meanDiffONOFF_perRunCalib /= (r_4)totalNumberCycles;
770 meanDiffONOFF_perCycleCalib /= (r_4)totalNumberCycles;
771 }
772
773 //Compute the reduced version of the mean and sigma
774 TMatrix<r_4> meanRedMtx_noCalib(NUMBER_OF_CHANNELS,para.nSliceInFreq_);
775 TMatrix<r_4> sigmaRedMtx_noCalib(NUMBER_OF_CHANNELS,para.nSliceInFreq_);
776 reduceSpectra(meanDiffONOFF_noCalib,meanRedMtx_noCalib,sigmaRedMtx_noCalib);
777
778 TMatrix<r_4> meanRedMtx_perRunCalib(NUMBER_OF_CHANNELS,para.nSliceInFreq_);
779 TMatrix<r_4> sigmaRedMtx_perRunCalib(NUMBER_OF_CHANNELS,para.nSliceInFreq_);
780 reduceSpectra(meanDiffONOFF_perRunCalib,meanRedMtx_perRunCalib,sigmaRedMtx_perRunCalib);
781
782 TMatrix<r_4> meanRedMtx_perCycleCalib(NUMBER_OF_CHANNELS,para.nSliceInFreq_);
783 TMatrix<r_4> sigmaRedMtx_perCycleCalib(NUMBER_OF_CHANNELS,para.nSliceInFreq_);
784 reduceSpectra(meanDiffONOFF_perCycleCalib,meanRedMtx_perCycleCalib,sigmaRedMtx_perCycleCalib);
785
786 {//save the results
787 stringstream tmp;
788 tmp << totalNumberCycles;
789 string fileName = para.outPath_+"/onoffsurvey_"+StringToLower(para.sourceName_)+"-"+tmp.str()+"Cycles.ppf";
790
791 POutPersist fos(fileName);
792 cout << "Save output in " << fileName << endl;
793
794 string tag = "meanNoCalib";
795 fos << PPFNameTag(tag) << meanDiffONOFF_noCalib;
796
797 //JEC 29/10/11
798 tag = "meanOvOffNoCalib";
799 fos << PPFNameTag(tag) << meanDiffONOFFovOFF_noCalib;
800
801 tag = "meanPerRunCalib";
802 fos << PPFNameTag(tag) << meanDiffONOFF_perRunCalib;
803 tag = "meanPerCycleCalib";
804 fos << PPFNameTag(tag) << meanDiffONOFF_perCycleCalib;
805
806 tag = "redmeanNoCalib";
807 fos << PPFNameTag(tag) << meanRedMtx_noCalib;
808 tag = "redsigmaNoCalib";
809 fos << PPFNameTag(tag) << sigmaRedMtx_noCalib;
810
811 tag = "redmeanPerRunCalib";
812 fos << PPFNameTag(tag) << meanRedMtx_perRunCalib;
813 tag = "redsigmaPerRunCalib";
814 fos << PPFNameTag(tag) << sigmaRedMtx_perRunCalib;
815
816 tag = "redmeanPerCycleCalib";
817 fos << PPFNameTag(tag) << meanRedMtx_perCycleCalib;
818 tag = "redsigmaPerCycleCalib";
819 fos << PPFNameTag(tag) << sigmaRedMtx_perCycleCalib;
820
821 tag = "onoffevol";
822 fos << PPFNameTag(tag) << onoffevolution;
823 }//end of save
824}
825//-------------------------------------------------------
826//Compute the mean of Diff ON-OFF Raw spectra and also the mean/sigma of rebinned spectra
827//Used like:
828//
829void meanRawDiffOnOffCycles() throw(string) {
830 list<string> listOfFiles;
831 string directoryName;
832 directoryName = para.inPath_ + "/" + para.sourceName_;
833
834 //Make the listing of the directory
835 listOfFiles = ListOfFileInDir(directoryName,para.ppfFile_);
836
837 list<string>::const_iterator iFile, iFileEnd, iSpec, iSpecEnd;
838 iFileEnd = listOfFiles.end();
839
840 StringMatch match("specONOFFRaw[0-9]+"); //Tag of the PPF objects
841 TMatrix<r_4> meanOfSpectra(NUMBER_OF_CHANNELS,NUMBER_OF_FREQ);
842 uint_4 nSpectra=0;
843 //Loop on files
844 for (iFile = listOfFiles.begin(); iFile != iFileEnd; ++iFile) {
845 if (para.debuglev_>90){
846 cout << "load file <" << *iFile << ">" << endl;
847 }
848 PInPersist fin(*iFile);
849 vector<string> vec = fin.GetNameTags();
850 list<string> listOfSpectra;
851 //Keep only required PPF objects
852 std::remove_copy_if(
853 vec.begin(), vec.end(), back_inserter(listOfSpectra),
854 not1(match)
855 );
856
857 listOfSpectra.sort(stringCompare);
858 iSpecEnd = listOfSpectra.end();
859 //Loop of spectra matrix
860 for (iSpec = listOfSpectra.begin(); iSpec !=iSpecEnd; ++iSpec){
861 if (para.debuglev_>90){
862 cout << " spactra <" << *iSpec << ">" << endl;
863 }
864 TMatrix<r_4> aSpec(NUMBER_OF_CHANNELS,NUMBER_OF_FREQ);
865 fin.GetObject(aSpec,*iSpec);
866 //How to see if the GetObject is ok?? Ask Reza
867 nSpectra++;
868 meanOfSpectra+=aSpec;
869 }//eo loop on spectra in a file
870 }//eo loop on files
871
872 //Normalisation
873 if(nSpectra>0)meanOfSpectra/=(r_4)(nSpectra);
874
875 //Compute the reduced version of the mean and sigma
876 TMatrix<r_4> meanRedMtx(NUMBER_OF_CHANNELS,para.nSliceInFreq_);
877 TMatrix<r_4> sigmaRedMtx(NUMBER_OF_CHANNELS,para.nSliceInFreq_);
878 reduceSpectra(meanOfSpectra,meanRedMtx,sigmaRedMtx);
879
880 {//Save the result
881 stringstream tmp;
882 tmp << nSpectra;
883 string fileName = para.outPath_+"/meanDiffOnOffRaw_"+StringToLower(para.sourceName_)+"-"+tmp.str()+"Cycles.ppf";
884 cout << "Save mean based on " << nSpectra << " cycles " << endl;
885 POutPersist fos(fileName);
886
887 string tag = "mean";
888 fos << PPFNameTag(tag) << meanOfSpectra;
889 tag = "meanred";
890 fos << PPFNameTag(tag) << meanRedMtx;
891 tag = "sigmared";
892 fos << PPFNameTag(tag) << sigmaRedMtx;
893 }
894}
895//-------------------------------------------------------
896//Compute the median of Diff ON-OFF Raw spectra and also the mean/sigma of rebinned spectra
897//Used like:
898//
899void medianRawDiffOnOffCycles() throw(string) {
900 list<string> listOfFiles;
901 string directoryName;
902 directoryName = para.inPath_ + "/" + para.sourceName_;
903
904 //Make the listing of the directory
905 listOfFiles = ListOfFileInDir(directoryName,para.ppfFile_);
906
907 list<string>::const_iterator iFile, iFileEnd, iSpec, iSpecEnd;
908 iFileEnd = listOfFiles.end();
909
910
911 TArray<r_4> tableOfSpectra(NUMBER_OF_FREQ,NUMBER_OF_CHANNELS,para.maxNumberCycles_); //para.maxNumberCycles_ should be large enough...
912
913 StringMatch match("specONOFFRaw[0-9]+"); //Tag of the PPF objects
914 uint_4 nSpectra=0;
915 //Loop on files
916 for (iFile = listOfFiles.begin(); iFile != iFileEnd; ++iFile) {
917 if (para.debuglev_>90){
918 cout << "load file <" << *iFile << ">" << endl;
919 }
920 PInPersist fin(*iFile);
921 vector<string> vec = fin.GetNameTags();
922 list<string> listOfSpectra;
923 //Keep only required PPF objects
924 std::remove_copy_if(
925 vec.begin(), vec.end(), back_inserter(listOfSpectra),
926 not1(match)
927 );
928
929 listOfSpectra.sort(stringCompare);
930 iSpecEnd = listOfSpectra.end();
931 //Loop of spectra matrix
932 for (iSpec = listOfSpectra.begin(); iSpec !=iSpecEnd && (sa_size_t)nSpectra < para.maxNumberCycles_ ; ++iSpec){
933 if (para.debuglev_>90){
934 cout << " spactra <" << *iSpec << ">" << endl;
935 }
936 TMatrix<r_4> aSpec(NUMBER_OF_CHANNELS,NUMBER_OF_FREQ);
937 fin.GetObject(aSpec,*iSpec);
938
939 tableOfSpectra(Range::all(),Range::all(),Range(nSpectra)) = aSpec;
940
941 nSpectra++;
942 }//eo loop on spectra in a file
943 }//eo loop on files
944
945
946
947 TMatrix<r_4> medianOfSpectra(NUMBER_OF_CHANNELS,NUMBER_OF_FREQ);
948 //Compute the median for each freq. and Channel
949 for (sa_size_t iCh=0; iCh<NUMBER_OF_CHANNELS; iCh++){
950 for (sa_size_t freq =0; freq<NUMBER_OF_FREQ; freq++){
951 TVector<r_4> tmp0(tableOfSpectra(Range(freq),Range(iCh),Range(0,nSpectra-1)).CompactAllDimensions());
952 vector<r_4> tmp;
953 tmp0.FillTo(tmp);
954 medianOfSpectra(iCh,freq) = median(tmp.begin(),tmp.end());
955 }
956 }
957
958
959 //Compute the reduced version of the mean and sigma
960 TMatrix<r_4> meanRedMtx(NUMBER_OF_CHANNELS,para.nSliceInFreq_);
961 TMatrix<r_4> sigmaRedMtx(NUMBER_OF_CHANNELS,para.nSliceInFreq_);
962 reduceSpectra(medianOfSpectra,meanRedMtx,sigmaRedMtx);
963
964
965 sa_size_t f1320=freqToChan(1320.);
966 sa_size_t f1345=freqToChan(1345.);
967 sa_size_t f1355=freqToChan(1355.);
968 sa_size_t f1380=freqToChan(1380.);
969 //Compute baseline arround 1350Mhz on [1320-1345] U [1355-1380]
970 if (para.debuglev_>9){
971 cout << "Compute baseline arround 1350Mhz on [1320-1345] U [1355-1380]" << endl;
972 }
973 TVector<r_4>meanMed(NUMBER_OF_CHANNELS);
974 for (sa_size_t iCh=0; iCh<NUMBER_OF_CHANNELS; ++iCh){
975 double meanMed1;
976 double sigmaMed1;
977 TVector<r_4> band1;
978 band1 = medianOfSpectra(Range(iCh),Range(f1320,f1345)).CompactAllDimensions();
979 MeanSigma(band1,meanMed1,sigmaMed1);
980 double meanMed2;
981 double sigmaMed2;
982 TVector<r_4> band2;
983 band2 = medianOfSpectra(Range(iCh),Range(f1355,f1380)).CompactAllDimensions();
984 MeanSigma(band2,meanMed2,sigmaMed2);
985 meanMed(iCh) = (meanMed1+meanMed2)*0.5;
986 }
987 meanMed.Print(cout);
988 cout << endl;
989
990
991 //Compute the sigma in the range 1320MHz-1380MHz
992 if (para.debuglev_>9){
993 cout << "Compute the sigma in the range 1320MHz-1380MHz" << endl;
994 }
995 TVector<r_4>sigmaMed(NUMBER_OF_CHANNELS);
996 sa_size_t redf1320=(sa_size_t)((1320.0-LOWER_FREQUENCY)/TOTAL_BANDWIDTH*para.nSliceInFreq_);
997 sa_size_t redf1380=(sa_size_t)((1380.0-LOWER_FREQUENCY)/TOTAL_BANDWIDTH*para.nSliceInFreq_);
998
999 for (sa_size_t iCh=0; iCh<NUMBER_OF_CHANNELS; ++iCh){
1000 double meanSigma;
1001 double sigmaSigma;
1002 TVector<r_4> band;
1003 band = sigmaRedMtx(Range(iCh),Range(redf1320,redf1380)).CompactAllDimensions();
1004 MeanSigma(band,meanSigma,sigmaSigma);
1005 meanSigma *= sqrt(para.nSliceInFreq_); //to scale to orignal spectra
1006 sigmaMed(iCh) = meanSigma;
1007 }
1008 sigmaMed.Print(cout);
1009 cout << endl;
1010
1011
1012
1013 if (para.debuglev_>9){
1014 cout << "Compute medianOfSpectraNorm" << endl;
1015 }
1016 TMatrix<r_4> medianOfSpectraNorm(medianOfSpectra,false); //do not share the data...
1017 for (sa_size_t iCh=0; iCh<NUMBER_OF_CHANNELS; ++iCh){
1018 medianOfSpectraNorm.Row(iCh) -= meanMed(iCh);
1019 medianOfSpectraNorm.Row(iCh) /= sigmaMed(iCh);
1020 }
1021
1022
1023
1024 {//Save the result
1025 stringstream tmp;
1026 tmp << nSpectra;
1027 string fileName = para.outPath_+"/medianDiffOnOffRaw_"+StringToLower(para.sourceName_)+"-"+tmp.str()+"Cycles.ppf";
1028 cout << "Save median based on " << nSpectra << " cycles " << endl;
1029 POutPersist fos(fileName);
1030
1031 string tag = "median";
1032 fos << PPFNameTag(tag) << medianOfSpectra;
1033
1034 tag = "medianNorm";
1035 fos << PPFNameTag(tag) << medianOfSpectraNorm;
1036
1037
1038 tag = "meanmedred";
1039 fos << PPFNameTag(tag) << meanRedMtx;
1040 tag = "sigmamedred";
1041 fos << PPFNameTag(tag) << sigmaRedMtx;
1042 tag = "cycleVsfreq";
1043
1044 TArray<r_4> tarr(tableOfSpectra(Range::all(),Range::all(),Range(0,nSpectra-1)));
1045 fos << PPFNameTag(tag) << tarr;
1046 }
1047}
1048
1049//-------------------------------------------------------
1050int main(int narg, char* arg[]) {
1051
1052 int rc = 0; //return code
1053 string msg; //message used in Exceptions
1054
1055
1056
1057 //default value for initial parameters (see Para structure on top of the file)
1058 string debuglev = "0";
1059 string action = "meanDiffOnOff";
1060 string inputPath = ".";
1061 string outputPath = ".";
1062 string sourceName = "Abell85";
1063 string ppfFile;
1064 string nSliceInFreq = "32";
1065 string typeOfCalib="perRun";
1066 string calibFreq = "1346";
1067 string calibBandFreq="6.25";
1068 string mxcycles;
1069
1070 // bool okarg=false;
1071 int ka=1;
1072 while (ka<narg) {
1073 if (strcmp(arg[ka],"-h")==0) {
1074 cout << "Usage: -act [meanRawDiffOnOff]|medianRawDiffOnOff|meanCalibBAODiffOnOff\n"
1075 << " -mxcycles <number> (max. number of cycles to be treated)\n"
1076 << " -calibfreq <number> (cf. freq. used by calibration operation)\n"
1077 << " -calibbandfreq <number> (cf. band of freq. used by calibration operation)\n"
1078 << " -src [Abell85]\n"
1079 << " -inPath [.]|<top_root_dir of the ppf file>\n"
1080 << " (ex. /sps/baoradio/AmasNancay/JEC/\n "
1081 << " -outPath [.]|<dir of the output> \n"
1082 << " -nSliceInFreq [32]|<number of bin in freq. to cumulate>\n"
1083 << " -ppfFile <generic name of the input ppf files> (ex. diffOnOffRaw)\n"
1084 << " -debug <level> "
1085 << endl;
1086 return 0;
1087 }
1088 else if (strcmp(arg[ka],"-debug")==0) {
1089 debuglev=arg[ka+1];
1090 ka+=2;
1091 }
1092 else if (strcmp(arg[ka],"-act")==0) {
1093 action=arg[ka+1];
1094 ka+=2;
1095 }
1096 else if (strcmp(arg[ka],"-calibfreq")==0) {
1097 calibFreq=arg[ka+1];
1098 ka+=2;
1099 }
1100 else if (strcmp(arg[ka],"-calibbandfreq")==0) {
1101 calibBandFreq=arg[ka+1];
1102 ka+=2;
1103 }
1104 else if (strcmp(arg[ka],"-mxcycles")==0) {
1105 mxcycles=arg[ka+1];
1106 ka+=2;
1107 }
1108 else if (strcmp(arg[ka],"-inPath")==0) {
1109 inputPath=arg[ka+1];
1110 ka+=2;
1111 }
1112 else if (strcmp(arg[ka],"-outPath")==0) {
1113 outputPath=arg[ka+1];
1114 ka+=2;
1115 }
1116 else if (strcmp(arg[ka],"-src")==0) {
1117 sourceName=arg[ka+1];
1118 ka+=2;
1119 }
1120 else if (strcmp(arg[ka],"-ppfFile")==0) {
1121 ppfFile=arg[ka+1];
1122 ka+=2;
1123 }
1124 else if (strcmp(arg[ka],"-nSliceInFreq")==0) {
1125 nSliceInFreq=arg[ka+1];
1126 ka+=2;
1127 }
1128 else ka++;
1129 }//eo while
1130
1131 para.debuglev_ = atoi(debuglev.c_str());
1132 para.inPath_ = inputPath;
1133 para.outPath_ = outputPath;
1134 para.sourceName_ = sourceName;
1135 para.ppfFile_ = ppfFile;
1136 para.nSliceInFreq_ = atoi(nSliceInFreq.c_str());
1137 para.calibFreq_ = calibFreq;
1138 para.calibBandFreq_ = calibBandFreq;
1139 para.rcalibFreq_ = atof(calibFreq.c_str());
1140 para.rcalibBandFreq_ = atof(calibBandFreq.c_str());
1141 if (mxcycles != "") {
1142 para.maxNumberCycles_ = atoi(mxcycles.c_str());
1143 } else {
1144 para.maxNumberCycles_ = std::numeric_limits<int>::max();
1145 }
1146
1147 cout << "Dump Initial parameters ............" << endl;
1148 cout << " action = " << action << "\n"
1149 << " maxNumberCycles = " << para.maxNumberCycles_ << "\n"
1150 << " inputPath = " << para.inPath_ << "\n"
1151 << " outputPath = " << para.outPath_ << "\n"
1152 << " sourceName = " << para.sourceName_ << "\n"
1153 << " ppfFile = " << para.ppfFile_ << "\n"
1154 << " nSliceInFreq = " << para.nSliceInFreq_ << "\n"
1155 << " calibFreq = " << para.calibFreq_ << "\n"
1156 << " calibBandFreq = " << para.calibBandFreq_ << "\n"
1157 << " debuglev = " << para.debuglev_ << "\n";
1158 cout << "...................................." << endl;
1159
1160 if ( "" == ppfFile ) {
1161 cerr << "mergeAnaFiles.cc: you have forgotten ppfFile option"
1162 << endl;
1163 return 999;
1164 }
1165
1166
1167 try {
1168
1169// int b,e;
1170// char *match=regexp("truc0machin","[a-z]+[0-9]*",&b,&e);
1171// printf("->%s<-\n(b=%d e=%d)\n",match,b,e);
1172
1173 if ( action == "meanRawDiffOnOff" ) {
1174 meanRawDiffOnOffCycles();
1175 } else if (action == "medianRawDiffOnOff") {
1176 medianRawDiffOnOffCycles();
1177 } else if (action == "meanCalibBAODiffOnOff") {
1178 meanCalibBAODiffOnOffCycles();
1179 } else {
1180 msg = "Unknown action " + action;
1181 throw msg;
1182 }
1183
1184
1185 } catch (std::exception& sex) {
1186 cerr << "mergeRawOnOff.cc std::exception :" << (string)typeid(sex).name()
1187 << "\n msg= " << sex.what() << endl;
1188 rc = 78;
1189 }
1190 catch ( string str ) {
1191 cerr << "mergeRawOnOff.cc Exception raised: " << str << endl;
1192 }
1193 catch (...) {
1194 cerr << "mergeRawOnOff.cc catched unknown (...) exception " << endl;
1195 rc = 79;
1196 }
1197
1198 return 0;
1199
1200}
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