| /praktikum/petrecofmf/Makefile |
|---|
| 0,0 → 1,60 |
| ROOTINC=$(shell root-config --incdir ) |
| ROOTLIB=$(shell root-config --libs ) |
| ROOTGLIBS=$(shell root-config --libs --glibs ) |
| LIBS=$(ROOTLIB) -L./ -lm |
| XMLCFLAGS =$(shell xml2-config --cflags ) |
| XMLLIBS =$(shell xml2-config --libs ) |
| INC=-I. -I$(ROOTINC) $(XMLCFLAGS) |
| LIBS=$(ROOTGLIBS) $(XMLLIBS) |
| SRC = . |
| INC1 = -I. -I../lib -I/usr/include |
| DBG = |
| CFLAGS = $(DBG) $(INC1) -Wall -g |
| BIN= bin |
| LIB=lib |
| TARGET = $(BIN)/petreco |
| FILES = $(SRC)/readdata.C $(SRC)/PETProjDataMgr.C |
| LIBFILE = $(LIB)/libfmfpetreco.a |
| OBJ_FILES = $(SRC)/readdata.o |
| $(TARGET): $(FILES) |
| $(CXX) $(INC) -DMAIN $(FILES) $(CFLAGS) -o $(TARGET) $(LIBS) -lstdc++ |
| .C.o: |
| $(CXX) $(INC) -c $< |
| ar r $(LIBFILE) $@ |
| .c.o: |
| $(CXX) -c $< |
| ar r $(LIBFILE) $@ |
| xpath2: $(SRC)/xpath2.c |
| $(CXX) -o $(BIN)/xpath2 `xml2-config --cflags` $(SRC)/xpath2.c `xml2-config --libs` |
| clean: |
| rm Dict.C $(OBJ_FILES) $(TARGET) $(LIBFILE) |
| tgz: |
| tar czvf fmfpet.tgz Makefile README $(SRC)/*.C $(SRC)/*.h $(SRC)/*.c $(SRC)/*.cxx $(SRC)/*.sh *.xml *.dat *.map *.root |
| /praktikum/petrecofmf/README |
|---|
| 0,0 → 1,2 |
| http://www-f9.ijs.si/wiki/Main/PetRekonstrukcija |
| /praktikum/petrecofmf/sumpedestals_zero.dat |
|---|
| 0,0 → 1,4 |
| 0 6000 |
| 1 5264.29 |
| 2 5394.42 |
| 3 5261.11 |
| /praktikum/petrecofmf/m16.map |
|---|
| 0,0 → 1,17 |
| #CH IX IY |
| 15 0 0 |
| 14 0 1 |
| 13 1 0 |
| 12 1 1 |
| 11 0 3 |
| 10 0 2 |
| 9 1 3 |
| 8 1 2 |
| 7 2 3 |
| 6 2 2 |
| 5 3 3 |
| 4 3 2 |
| 3 2 0 |
| 2 2 1 |
| 1 3 0 |
| 0 3 1 |
| /praktikum/petrecofmf/sumpedestals.dat |
|---|
| 0,0 → 1,4 |
| 0 5413.22 |
| 1 5264.29 |
| 2 5394.42 |
| 3 5261.11 |
| /praktikum/petrecofmf/modules.map |
|---|
| 0,0 → 1,5 |
| #module ID (connector) r(mm) angle(deg) |
| 0 61 0 |
| 1 61 22.5 |
| 2 61 180 |
| 3 61 202.5 |
| /praktikum/petrecofmf/pedestals_zero.dat |
|---|
| 0,0 → 1,64 |
| 0 570 |
| 1 570 |
| 2 570 |
| 3 570 |
| 4 570 |
| 5 570 |
| 6 570 |
| 7 570 |
| 8 570 |
| 9 570 |
| 10 570 |
| 11 570 |
| 12 570 |
| 13 570 |
| 14 570 |
| 15 570 |
| 16 331.704 |
| 17 333.163 |
| 18 302.789 |
| 19 319.067 |
| 20 325.209 |
| 21 348.417 |
| 22 337.329 |
| 23 326.671 |
| 24 351.699 |
| 25 348.799 |
| 26 308.549 |
| 27 286.519 |
| 28 332.446 |
| 29 324.031 |
| 30 351.92 |
| 31 342.048 |
| 32 359.25 |
| 33 325.419 |
| 34 334.892 |
| 35 322.25 |
| 36 293.95 |
| 37 354.971 |
| 38 304.267 |
| 39 370.495 |
| 40 374.192 |
| 41 347.656 |
| 42 340.723 |
| 43 311.266 |
| 44 301.842 |
| 45 320.301 |
| 46 387.6 |
| 47 318.137 |
| 48 321.878 |
| 49 348.859 |
| 50 342.913 |
| 51 332.14 |
| 52 346.995 |
| 53 350.787 |
| 54 337.321 |
| 55 329.6 |
| 56 346.56 |
| 57 303.365 |
| 58 298.587 |
| 59 302.891 |
| 60 306.159 |
| 61 293.716 |
| 62 324.878 |
| 63 341.973 |
| /praktikum/petrecofmf/pedestals.dat |
|---|
| 0,0 → 1,64 |
| 0 339.764 |
| 1 356.526 |
| 2 328.481 |
| 3 283.352 |
| 4 307.915 |
| 5 365.996 |
| 6 316.9 |
| 7 316.175 |
| 8 348.054 |
| 9 338.349 |
| 10 385.901 |
| 11 342.318 |
| 12 353.552 |
| 13 348.903 |
| 14 340.133 |
| 15 335.819 |
| 16 337.356 |
| 17 334.646 |
| 18 322.328 |
| 19 320.371 |
| 20 304.205 |
| 21 347.213 |
| 22 336.6 |
| 23 325.069 |
| 24 351.203 |
| 25 347.073 |
| 26 307.865 |
| 27 285.498 |
| 28 332.387 |
| 29 325.668 |
| 30 352.567 |
| 31 343.887 |
| 32 360.176 |
| 33 328.103 |
| 34 337.231 |
| 35 324.995 |
| 36 294.699 |
| 37 354.216 |
| 38 304.069 |
| 39 369.572 |
| 40 375.065 |
| 41 347.03 |
| 42 341.669 |
| 43 311.298 |
| 44 338.887 |
| 45 322.734 |
| 46 388.779 |
| 47 320.116 |
| 48 323.118 |
| 49 350.691 |
| 50 344.091 |
| 51 334.575 |
| 52 349.252 |
| 53 351.313 |
| 54 338.096 |
| 55 330.029 |
| 56 348.157 |
| 57 304.036 |
| 58 300.07 |
| 59 304.476 |
| 60 307.644 |
| 61 296.693 |
| 62 327.384 |
| 63 345.163 |
| /praktikum/petrecofmf/fotovrh.dat |
|---|
| 0,0 → 1,64 |
| 0 3196.160841 |
| 1 1711.854801 |
| 2 1635.564402 |
| 3 1597.419203 |
| 4 1711.854801 |
| 5 1584.704136 |
| 6 1355.832941 |
| 7 1432.123339 |
| 8 1533.843871 |
| 9 1648.279469 |
| 10 1597.419203 |
| 11 1521.128804 |
| 12 1470.268539 |
| 13 1686.424668 |
| 14 1622.849336 |
| 15 1660.994535 |
| 16 2522.262320 |
| 17 2220.457458 |
| 18 2423.898521 |
| 19 2334.893056 |
| 20 2551.049185 |
| 21 2449.328654 |
| 22 2703.629982 |
| 23 2614.624517 |
| 24 2487.473853 |
| 25 2347.608122 |
| 26 2156.882126 |
| 27 2233.172524 |
| 28 2589.194384 |
| 29 2233.172524 |
| 30 1864.435598 |
| 31 1915.295864 |
| 32 2852.854047 |
| 33 1915.295864 |
| 34 1915.295864 |
| 35 2156.882126 |
| 36 1991.586262 |
| 37 1966.156129 |
| 38 1915.295864 |
| 39 1902.580797 |
| 40 1940.725996 |
| 41 1877.150664 |
| 42 1940.725996 |
| 43 1877.150664 |
| 44 1928.010930 |
| 45 1940.725996 |
| 46 1991.586262 |
| 47 1928.010930 |
| 48 2852.854047 |
| 49 2080.591727 |
| 50 1813.575332 |
| 51 1978.871196 |
| 52 2245.887591 |
| 53 2080.591727 |
| 54 1813.575332 |
| 55 1940.725996 |
| 56 1902.580797 |
| 57 1889.865731 |
| 58 1673.709601 |
| 59 1699.139734 |
| 60 1813.575332 |
| 61 1877.150664 |
| 62 1508.413738 |
| 63 1686.424668 |
| /praktikum/petrecofmf/calibration_all.root |
|---|
| Cannot display: file marked as a binary type. |
| svn:mime-type = application/octet-stream |
| Property changes: |
| Added: svn:mime-type |
| ## -0,0 +1 ## |
| +application/octet-stream |
| \ No newline at end of property |
| Index: petrecofmf/config_zero.xml |
| =================================================================== |
| Cannot display: file marked as a binary type. |
| svn:mime-type = application/xml |
| /petrecofmf/config_zero.xml |
|---|
| Property changes: |
| Added: svn:mime-type |
| ## -0,0 +1 ## |
| +application/xml |
| \ No newline at end of property |
| Index: petrecofmf/config.xml |
| =================================================================== |
| Cannot display: file marked as a binary type. |
| svn:mime-type = application/xml |
| /petrecofmf/config.xml |
|---|
| Property changes: |
| Added: svn:mime-type |
| ## -0,0 +1 ## |
| +application/xml |
| \ No newline at end of property |
| Index: petrecofmf/pedestals_new.dat |
| =================================================================== |
| --- petrecofmf/pedestals_new.dat (nonexistent) |
| +++ petrecofmf/pedestals_new.dat (revision 113) |
| @@ -0,0 +1,64 @@ |
| +0 339.13 |
| +1 354.26 |
| +2 327.546 |
| +3 282.69 |
| +4 312.863 |
| +5 365.795 |
| +6 317.055 |
| +7 316.198 |
| +8 348.804 |
| +9 337.947 |
| +10 385.535 |
| +11 341.414 |
| +12 351.877 |
| +13 346.92 |
| +14 339.204 |
| +15 334.106 |
| +16 331.704 |
| +17 333.163 |
| +18 302.789 |
| +19 319.067 |
| +20 325.209 |
| +21 348.417 |
| +22 337.329 |
| +23 326.671 |
| +24 351.699 |
| +25 348.799 |
| +26 308.549 |
| +27 286.519 |
| +28 332.446 |
| +29 324.031 |
| +30 351.92 |
| +31 342.048 |
| +32 359.25 |
| +33 325.419 |
| +34 334.892 |
| +35 322.25 |
| +36 293.95 |
| +37 354.971 |
| +38 304.267 |
| +39 370.495 |
| +40 374.192 |
| +41 347.656 |
| +42 340.723 |
| +43 311.266 |
| +44 301.842 |
| +45 320.301 |
| +46 387.6 |
| +47 318.137 |
| +48 321.878 |
| +49 348.859 |
| +50 342.913 |
| +51 332.14 |
| +52 346.995 |
| +53 350.787 |
| +54 337.321 |
| +55 329.6 |
| +56 346.56 |
| +57 303.365 |
| +58 298.587 |
| +59 302.891 |
| +60 306.159 |
| +61 293.716 |
| +62 324.878 |
| +63 341.973 |
| Index: petrecofmf/ph511.dat |
| =================================================================== |
| --- petrecofmf/ph511.dat (nonexistent) |
| +++ petrecofmf/ph511.dat (revision 113) |
| @@ -0,0 +1,84 @@ |
| +0 1700 |
| +1 1900 |
| +2 1680 |
| +3 1700 |
| +4 1870 |
| +5 1680 |
| +6 1430 |
| +7 1460 |
| +8 1680 |
| +9 1700 |
| +10 1713 |
| +11 1650 |
| +12 1630 |
| +13 1830 |
| +14 1750 |
| +15 1740 |
| +16 2440 |
| +17 2320 |
| +18 2640 |
| +19 2500 |
| +20 2790 |
| +21 2600 |
| +22 2900 |
| +23 2820 |
| +24 2660 |
| +25 2470 |
| +26 2310 |
| +27 2330 |
| +28 2817 |
| +29 2860 |
| +30 2140 |
| +31 2140 |
| +32 2120 |
| +33 2410 |
| +34 1990 |
| +35 2480 |
| +36 2200 |
| +37 2100 |
| +38 2040 |
| +39 2060 |
| +40 2090 |
| +41 1970 |
| +42 2032 |
| +43 1970 |
| +44 2054 |
| +45 2120 |
| +46 2076 |
| +47 1920 |
| +48 2206 |
| +49 2420 |
| +50 1930 |
| +51 2290 |
| +52 2400 |
| +53 2425 |
| +54 1950 |
| +55 2400 |
| +56 2076 |
| +57 2010 |
| +58 1792 |
| +59 1830 |
| +60 2000 |
| +61 2032 |
| +62 1640 |
| +63 1614 |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| + |
| Index: petrecofmf/m16_reverse.map |
| =================================================================== |
| --- petrecofmf/m16_reverse.map (nonexistent) |
| +++ petrecofmf/m16_reverse.map (revision 113) |
| @@ -0,0 +1,17 @@ |
| +#CH IX IY |
| +0 0 0 |
| +1 0 1 |
| +2 1 0 |
| +3 1 1 |
| +4 0 3 |
| +5 0 2 |
| +6 1 3 |
| +7 1 2 |
| +8 2 3 |
| +9 2 2 |
| +10 3 3 |
| +11 3 2 |
| +12 2 0 |
| +13 2 1 |
| +14 3 0 |
| +15 3 1 |
| Index: petrecofmf/plot.cxx |
| =================================================================== |
| --- petrecofmf/plot.cxx (nonexistent) |
| +++ petrecofmf/plot.cxx (revision 113) |
| @@ -0,0 +1,186 @@ |
| +//--------------------------------------------------- |
| +int plot2d(char *opt="colz", float max=0){ |
| +char hname[50]; |
| + char hn[50]; |
| + TCanvas *c; |
| + TH1I *gICh = (TH1I * ) gDirectory->Get("mapping"); |
| + for (int i=0;i<4;i++) { |
| + sprintf(hname,"cz%d",i); |
| + sprintf(hn,"Corr Pmt %d",i); |
| + c =new TCanvas(hname,hn, 1000,1000); |
| + c->Divide(4,4); |
| + for (int j=0;j<16;j++){ |
| + c->cd(gICh->GetBinContent(j+1)+1); |
| + sprintf(hn,"corrch%d",i*16+j); |
| + TH1F*h= (TH1F * ) gDirectory->Get(hn); |
| + if (max>0) h->SetMaximum(max); |
| + h->Draw(opt); |
| + } |
| + c->Modified(); |
| + c->Update(); |
| + } |
| +return 0; |
| +} |
| + |
| +//--------------------------------------------------- |
| +int plot( char *fname=NULL, float max=0){ |
| + if (fname!=NULL){ |
| + cout << "Rootname:" << fname << endl; |
| + delete gROOT->GetListOfFiles()->FindObject(fname); // clear memory of file name |
| + if( gSystem->AccessPathName(fname) ) { |
| + cout << endl << "File: " << fname << " not there!!!" << endl << endl; |
| + return 0; |
| + } |
| + TFile *rootfile = new TFile(fname); |
| + } |
| + //if (buf) delete buf; |
| + char hn[255]; |
| + |
| + TCanvas *c1; |
| + for (int i=0;i<4;i++){ |
| + sprintf(hn,"csumadc%d",i); |
| + c1=new TCanvas(hn,hn,1200,1200); |
| + c1->Divide(9,9,0,0); |
| + sprintf(hn,"sumadc%d",i); |
| + TH2F *h = ((TH2F * )gDirectory->Get(hn)); |
| + for (int j=0;j<81;j++){ |
| + c1->cd(1+j); |
| + TH1D *h0 = h->ProjectionX(" ",1+j,1+j); |
| + h0->DrawCopy(); |
| + } |
| + c1->Modified(); |
| + c1->Update(); |
| + } |
| + |
| + |
| + |
| + TCanvas *c2=new TCanvas("c2","c2",800,800); |
| + c2->Divide(2,2); |
| + for (int i=0;i<4;i++){ |
| + c2->cd(1+i); |
| + sprintf(hn,"pmt1%d",i); |
| + ((TH1F * ) gDirectory->Get(hn))->Draw("colz"); |
| + } |
| + c2->Modified(); |
| + c2->Update(); |
| + |
| + TCanvas *c6=new TCanvas("c6","c6",800,800); |
| + c6->Divide(2,2); |
| + for (int i=0;i<4;i++){ |
| + c6->cd(1+i); |
| + sprintf(hn,"pmt3%d",i); |
| + ((TH1F * ) gDirectory->Get(hn))->Draw("colz"); |
| + } |
| + c6->Modified(); |
| + c6->Update(); |
| + |
| + TCanvas *c5=new TCanvas("c5","c5",800,800); |
| + |
| + |
| + ((TH1F * ) gDirectory->Get("globalxy"))->Draw("colz"); |
| + |
| + c5->Modified(); |
| + c5->Update(); |
| + |
| + |
| + TCanvas *c3=new TCanvas("c3","c3",800,800); |
| + c3->Divide(2,2); |
| + for (int i=0;i<4;i++){ |
| + c3->cd(1+i); |
| + sprintf(hn,"pmt2%d",i); |
| + ((TH1F * ) gDirectory->Get(hn))->Draw("colz"); |
| + } |
| + |
| + |
| + c3->Modified(); |
| + c3->Update(); |
| + |
| + TCanvas *c4=new TCanvas("c4","c4",800,800); |
| + c4->Divide(4,4); |
| + for (int i=0;i<16;i++){ |
| + c4->cd(1+i)->SetLogy(); |
| + sprintf(hn,"ach%d",i); |
| + ((TH1F * ) gDirectory->Get(hn))->Draw(); |
| + } |
| + c4->Modified(); |
| + c4->Update(); |
| + plot2d("colz",max); |
| + return 0; |
| +} |
| + |
| +//--------------------------------------------------- |
| +int plotadc(){ |
| + char hn[255]; |
| + TCanvas *c; |
| + char hname[50]; |
| + char hn[50]; |
| + TH1I *gICh = (TH1I * ) gDirectory->Get("mapping"); |
| + for (int i=0;i<4;i++) { |
| + sprintf(hname,"cx%d",i); |
| + sprintf(hn,"Pmt %d",i); |
| + c =new TCanvas(hname,hn, 1000,1000); |
| + c->Divide(4,4); |
| + for (int j=0;j<16;j++){ |
| + c->cd(gICh->GetBinContent(j+1)+1)->SetLogy(); |
| + sprintf(hn,"ach%d",i*16+j); |
| + ((TH1F * ) gDirectory->Get(hn))->Draw(); |
| + } |
| + c->Modified(); |
| + c->Update(); |
| + } |
| + |
| + return 0; |
| +} |
| + |
| +//--------------------------------------------------- |
| +int plotsingles(char *opt="colz", float max=0){ |
| + char hname[50]; |
| + char hn[50]; |
| + TCanvas *c; |
| + TH1I *gICh = (TH1I * ) gDirectory->Get("mapping"); |
| + for (int i=0;i<4;i++) { |
| + sprintf(hname,"cy%d",i); |
| + sprintf(hn,"Single Pmt %d",i); |
| + c =new TCanvas(hname,hn, 1000,1000); |
| + c->Divide(4,4); |
| + for (int j=0;j<16;j++){ |
| + c->cd(gICh->GetBinContent(j+1)+1); |
| + sprintf(hn,"singlech%d",i*16+j); |
| + TH1F*h= (TH1F * ) gDirectory->Get(hn); |
| + if (max>0) gHistoSingle[i*16+j]->SetMaximum(max); |
| + h->Draw(opt); |
| + } |
| + c->Modified(); |
| + c->Update(); |
| + } |
| + |
| + return 0; |
| +} |
| + |
| + |
| + |
| + |
| +//--------------------------------------------------- |
| +int plotcut(char *opt="", float max=0){ |
| +char hname[50]; |
| + char hn[50]; |
| + TCanvas *c; |
| + TH1I *gICh = (TH1I * ) gDirectory->Get("mapping"); |
| + for (int i=0;i<4;i++) { |
| + sprintf(hname,"cz%d",i); |
| + sprintf(hn,"Cut Pmt %d",i); |
| + c =new TCanvas(hname,hn, 1000,1000); |
| + c->Divide(4,4); |
| + for (int j=0;j<16;j++){ |
| + c->cd(gICh->GetBinContent(j+1)+1)->SetLogy(); |
| + sprintf(hn,"corrch%d",i); |
| + TH1F*h= (TH1F * ) gDirectory->Get(hn); |
| + if (max>0) h->SetMaximum(max); |
| + h->Draw(opt); |
| + } |
| + c->Modified(); |
| + c->Update(); |
| + } |
| +return 0; |
| +} |
| +//--------------------------------------------------- |
| Index: petrecofmf/PETProjDataMgr.C |
| =================================================================== |
| --- petrecofmf/PETProjDataMgr.C (nonexistent) |
| +++ petrecofmf/PETProjDataMgr.C (revision 113) |
| @@ -0,0 +1,612 @@ |
| +// |
| +// ../bin/FBP2D FBP2D.par |
| +// |
| +// ******************************************************************** |
| +// * License and Disclaimer * |
| +// * * |
| +// * The GAMOS software is copyright of the Copyright Holders of * |
| +// * the GAMOS Collaboration. It is provided under the terms and * |
| +// * conditions of the GAMOS Software License, included in the file * |
| +// * LICENSE and available at http://fismed.ciemat.es/GAMOS/license .* |
| +// * These include a list of copyright holders. * |
| +// * * |
| +// * Neither the authors of this software system, nor their employing * |
| +// * institutes,nor the agencies providing financial support for this * |
| +// * work make any representation or warranty, express or implied, * |
| +// * regarding this software system or assume any liability for its * |
| +// * use. Please see the license in the file LICENSE and URL above * |
| +// * for the full disclaimer and the limitation of liability. * |
| +// * * |
| +// * This code implementation is the result of the scientific and * |
| +// * technical work of the GAMOS collaboration. * |
| +// * By using, copying, modifying or distributing the software (or * |
| +// * any work based on the software) you agree to acknowledge its * |
| +// * use in resulting scientific publications, and indicate your * |
| +// * acceptance of all terms of the GAMOS Software license. * |
| +// ******************************************************************** |
| +// |
| +#include "PETProjDataMgr.h" |
| +#include "TH2F.h" |
| +#include "TH3F.h" |
| +#include "TMath.h" |
| +#include "TRandom3.h" |
| + |
| +#include <iomanip> |
| +#include <iostream> |
| +#include <cstdlib> |
| + |
| +using namespace std; |
| + |
| +//---------------------------------------------------------------------- |
| +PETProjDataMgr* PETProjDataMgr::m_Instance = 0; |
| + |
| +//---------------------------------------------------------------------- |
| +PETProjDataMgr* PETProjDataMgr::GetInstance() |
| +{ |
| + if( !m_Instance ) { |
| + m_Instance = new PETProjDataMgr; |
| + } |
| + |
| + return m_Instance; |
| + |
| +} |
| + |
| +//----------------------------------------------------------------------- |
| +PETProjDataMgr::PETProjDataMgr() |
| +{ |
| + |
| + /* |
| +// ARGUMENTS: |
| +" cout << " -------------------------- \n" |
| +" Arguments convention: \n" |
| +" -a Axial FOV (mm), <theDist_axial=100.0> \n" |
| +" -d Diameter Transaxial FOV (mm), <m_RingDiameter=300.0> \n" |
| +" -i Type of the input file (by default: 0 = Arce_binary), <typeINfile=0> \n" |
| +" \n" |
| +" -m Maximum ring difference (by default: -1 = m_NOfPlanes), <m_MaxRingDifferenceiff> \n" |
| +" -n Name of output file, <m_Filename> \n" |
| +" -p Axial number of planes, <m_NOfPlanes> \n" |
| +" -r Number of bins, \"distancias\", <m_NOfBins> \n" |
| + // -s Span TO DO:span !!!!! |
| +" -t Number of angular views, \"direcciones\", <m_NOfAngles> \n" |
| +" -v Verbosity (by default: 0=silent, 3=debug), <verbos> \n" |
| +" -x Maximum number of coincidences to be stored (by default: -1 = no limit), <Max_Coinci> \n" |
| +" -o Output type (by default: 0 = mcc Interfile, 1 = STIR Interfile), <OutType> \n" |
| + |
| +" \n" |
| +" PET Reconstruction. CIEMAT 2009-11 \n" |
| +" mario.canadas@ciemat.es \n" |
| + " -------------------------- \n"; |
| + */ |
| + m_rnd= new TRandom3(); |
| + m_AxialDistance = (9-1)*2.25; // Axial pixel dimension*NOfPlanes |
| + m_RingDiameter = 120.0; // notranji premer peta |
| + m_NOfPlanes = 9; // stevilo ravnin |
| + m_NOfBins = 128; // stevilo binov v razdalji |
| + m_nch = 128; // stevilo padov okoli in okoli |
| + m_NOfAngles = TMath::Abs(m_nch)/2; // stevilo kotov = stevilo padov okoli in okoli /2 |
| + |
| + m_MaxRingDifference = -1; |
| + //m_MaxRingDifference = 3; // najvecja razdalja med padi |
| + // toDo: theSpan = int(GmParameterMgr::GetInstance()->GetNumericValue("PET:ProjData:Span",1)); |
| + |
| + |
| + m_OutFormat = 1; // 1.. projections 0 .. image |
| + m_Filename = "sino3D"; |
| + m_Debug=1; |
| + |
| + if (m_MaxRingDifference==-1) m_MaxRingDifference=m_NOfPlanes-1; |
| + |
| + |
| + m_TotalAxialPlanes=m_NOfPlanes*m_NOfPlanes; |
| + if (m_OutFormat==1) m_TotalAxialPlanes= (2*m_NOfPlanes-1 - m_MaxRingDifference)*m_MaxRingDifference + m_NOfPlanes; // total number of Axial planes (segments*planes) in STIR format |
| + |
| + /*--- Initialize sino3D ---*/ |
| + m_projections = new SINO_TYPE**[m_NOfBins]; |
| + for(int i=0;i<m_NOfBins;i++){ |
| + m_projections[i] = new SINO_TYPE*[m_NOfAngles]; |
| + for(int j=0;j<m_NOfAngles;j++){ |
| + m_projections[i][j] = new SINO_TYPE[m_TotalAxialPlanes]; /// ! If m_OutFormat==1 (STIR output):Matrix size depends on the MAX_Ring_Difference |
| + for(int k=0;k<m_TotalAxialPlanes;k++){ |
| + m_projections[i][j][k]=0; |
| + } |
| + } |
| + } |
| + |
| + m_TotalProjectionCoincidences=0; |
| + m_TotalCoincidences=0; |
| + //OutputType = "pet"; |
| +} |
| + |
| +//----------------------------------------------------------------------- |
| +void PETProjDataMgr::SetProjection( int axialplane, TH2F * h) |
| +{ |
| +for(int i=0;i<m_NOfBins;i++){ |
| + for(int j=0;j<m_NOfAngles;j++){ |
| + m_projections[i][j][axialplane]=h->GetBinContent(i+1,j+1); |
| + } |
| +} |
| + |
| +} |
| +//----------------------------------------------------------------------- |
| + |
| +//----------------------------------------------------------- |
| +// from Gate |
| +//------------------------------------------------------------ |
| +double ComputeSinogramS(double X1, double Y1, double X2, double Y2) |
| +{ |
| + double s; |
| + |
| + double denom = (Y1-Y2) * (Y1-Y2) + (X2-X1) * (X2-X1); |
| + |
| + if (denom!=0.) { |
| + denom = sqrt(denom); |
| + s = ( X1 * (Y2-Y1) + Y1 * (X1-X2) ) / denom; |
| + } else { |
| + s = 0.; |
| + } |
| + |
| + double theta; |
| + if ((X1-X2)!=0.) { |
| + theta=atan((X1-X2) /(Y1-Y2)); |
| + } else { |
| + theta=3.1416/2.; |
| + } |
| + if ((theta > 0.) && ((X1-X2) > 0.)) s = -s; |
| + if ((theta < 0.) && ((X1-X2) < 0.)) s = -s; |
| + if ( theta < 0.) { |
| + theta = theta+3.1416; |
| + s = -s; |
| + } |
| + return s; |
| +} |
| + |
| + |
| +void PETProjDataMgr::AddEvent( const TVector3& pos1 , const TVector3& pos2) |
| +{ |
| + int z1_i, z2_i; |
| + //for discretization on the crystal: int x1_i, x2_i, y1_i, y2_i; |
| + |
| + double z1_abs=pos1.z()+m_AxialDistance/2; |
| + double z2_abs=pos2.z()+m_AxialDistance/2; |
| + double a, b, phi, dis; |
| + int phi_i, dis_i; |
| + int ring_diff; |
| + |
| + double _PI=2*asin(1); |
| + |
| + m_TotalCoincidences++; |
| + |
| + z1_i=(int)(m_NOfPlanes* z1_abs/m_AxialDistance); //round --> m_NOfPlanes+1 ... |
| + z2_i=(int)(m_NOfPlanes* z2_abs/m_AxialDistance); |
| + |
| + // control; if z_i out of range: return |
| + |
| + if ( (pos1.x()==pos2.x()) && (pos1.y()==pos2.y()) ) { |
| +#ifndef GAMOS_NO_VERBOSE |
| + if( m_Debug ) { |
| + cout << "PETProjDataMgr::AddEvent:WARNING! Event_1 == Event_2 ; x= " << pos2.x() << ", y= " << pos2.y() << ", z= " << pos2.z() << endl; |
| + } |
| +#endif |
| + return; |
| + } |
| + |
| + if ( (z1_i<0) || (z2_i<0) || (z1_i>= m_NOfPlanes) || (z2_i>= m_NOfPlanes) ) { |
| +#ifndef GAMOS_NO_VERBOSE |
| + if( m_Debug ) { |
| + cout << "PETProjDataMgr::AddEvent:WARNING! Event out of bounds (Axial): x1= " << pos1.x() << ", y1= " << pos1.y() << ", z1= " << pos1.z() << " ; x2= " << pos2.x() << ", y2= " << pos2.y() << ", z2= " << pos2.z() << endl; |
| + } |
| +#endif |
| + return; |
| + } |
| + |
| + ring_diff = (int)fabs(z1_i-z2_i); |
| + |
| + // max ring difference; control: |
| + if (ring_diff > m_MaxRingDifference) { |
| +#ifndef GAMOS_NO_VERBOSE |
| + if( m_Debug ) { |
| + cout <<"PETProjDataMgr::AddEvent:WARNING! Event out of bounds (Max. Ring Diff.): " << ring_diff << ">" << m_MaxRingDifference << " x1= " << pos1.x() << ", y1= " << pos1.y() << ", z1= " << pos1.z() << " ; x2= " << pos2.x() << ", y2= " << pos2.y() << ", z2= " << pos2.z() << endl; |
| + } |
| +#endif |
| + return; |
| + } |
| + |
| + a=(double)(pos2.y()- pos1.y()); |
| + b=(double)(pos2.x()- pos1.x()); |
| + |
| + if (a==0.0){ |
| + phi=_PI*0.5; |
| + } |
| + else{ |
| + phi=atan(b/a); |
| + } |
| + |
| + if (phi<0) phi = phi +_PI; |
| + |
| + dis=pos1.x()*cos(phi) - pos1.y()*sin(phi); |
| + //dis=ComputeSinogramS(pos1.x(), pos1.y(), pos2.x(), pos2.x()); |
| + // control; transaxial FOV |
| + if ( fabs(dis) > m_RingDiameter*0.5 ) { |
| +#ifndef GAMOS_NO_VERBOSE |
| + if( m_Debug ) { |
| + cout << "PETProjDataMgr::AddEvent:WARNING! Event out of bounds (Transaxial): x1= " << pos1.x() << ", y1= " << pos1.y() << ", z1= " << pos1.z() << " ; x2= " << pos2.x() << ", y2= " << pos2.y() << ", z2= " << pos2.z() << endl; |
| + } |
| +#endif |
| + return; |
| + } |
| + |
| + dis = dis + m_RingDiameter*0.5; |
| + |
| + // discret values: |
| + phi_i=(int)round( (double)(m_NOfAngles-1)*phi/_PI ); |
| + dis_i=(int)round( (double)(m_NOfBins-1)*dis/(double)m_RingDiameter ); |
| + |
| + if ((phi_i>=m_NOfAngles) || (dis_i>=m_NOfBins)) return; // only possible "=" because 'round' check it.. |
| + |
| + // OLD: (SRRB included) sino3D[dis_i][phi_i][ (z1_i+z2_i)+ring_diff*(m_NOfPlanes-1) ]++; |
| + |
| + int Zpos; |
| + |
| + if (m_OutFormat==0) { |
| + Zpos = (z1_i*m_NOfPlanes + z2_i); |
| + } |
| + else{ |
| + |
| + if (z1_i>=z2_i) { // SIN Max Ring_Diff: Zpos= ( ((m_NOfPlanes-ring_diff)*(m_NOfPlanes-1-ring_diff))/2 + z2_i ); |
| + |
| + Zpos= ( ((2*m_NOfPlanes-1 - m_MaxRingDifference - ring_diff)*(m_MaxRingDifference - ring_diff))/2 + z2_i); |
| + |
| + }else{ |
| + Zpos= ( (m_TotalAxialPlanes) - ((2*m_NOfPlanes-1 - m_MaxRingDifference - ring_diff +1)*(m_MaxRingDifference - ring_diff +1))/2 + z1_i ); |
| + |
| + } |
| + } |
| + |
| + m_projections[dis_i][phi_i][ Zpos ]++; |
| + m_TotalProjectionCoincidences++; |
| + |
| +#ifndef GAMOS_NO_VERBOSE |
| + if( m_Debug >1) { |
| + cout << "PETProjDataMgr::AddEvent: x1= " << pos1.x() << ", y1= " << pos1.y() << ", z1= " << pos1.z() << " ; x2= " << pos2.x() << ", y2= " << pos2.y() << ", z2= " << pos2.z() << endl; |
| + cout << "PETProjDataMgr::AddEvent: Sinogram pos.: distance(s)= " << dis_i << ", angular view(phi)= " << phi_i << " ; Zpos=" << Zpos <<"; Segment (Ring diff.) = " << ring_diff << endl; |
| + } |
| +#endif |
| + |
| + |
| +} |
| + |
| +//----------------------------------------------------------------------- |
| +PETProjDataMgr::~PETProjDataMgr() |
| +{ |
| + int i,j; |
| + |
| + for(i=0;i<m_NOfBins;i++){ |
| + for(j=0;j<m_NOfAngles;j++){ |
| + free(m_projections[i][j]); |
| + |
| + } |
| + free(m_projections[i]); |
| + |
| + } |
| + free(m_projections); |
| + |
| +} |
| + |
| +/* TO DO: call lm_to_sino3D program |
| +//----------------------------------------------------------------------- |
| +void PETIOMgr::ReadFile() |
| +{ |
| + if( !theFileIn ) OpenFileIn(); |
| + |
| + PETOutput po; |
| + G4bool bEof; |
| + for(;;) { |
| + po = ReadEvent( bEof ); |
| + // theFileIn->read(reinterpret_cast<char *>(&po),sizeof(PetOutput)); |
| + if(bDumpCout) PrintEvent(" PETOutput: ", po, bCartesian); |
| + if( bEof ) break; |
| + } |
| +} |
| +//----------------------------------------------------------------------- |
| +PETOutput PETProjDataMgr::ReadEvent( G4bool& bEof ) |
| +{ |
| + if( theFileIn == 0 ){ |
| + G4Exception("PETIOMgr::ReadEvent, file not opened, call OpenFileIn() first "); |
| + } |
| + |
| + PETOutput po; |
| + fread (&po, sizeof(struct PETOutput),1,theFileIn); |
| + if ( feof( theFileIn ) ) { |
| + bEof = TRUE; |
| + } else { |
| + bEof = FALSE; |
| + } |
| + |
| + return po; |
| + |
| +} |
| +*/ |
| + |
| + |
| +//----------------------------------------------------------------------- |
| +void PETProjDataMgr::WriteInterfile() |
| +{ |
| + |
| + char name_hv[512]; |
| + char name_v[512]; |
| + |
| + if (m_OutFormat==0){ |
| + |
| + strcpy(name_hv, m_Filename); |
| + strcpy(name_v,m_Filename); |
| + strcat(name_hv, ".hv"); |
| + strcat(name_v, ".v"); |
| + |
| + fp=fopen(name_hv, "w"); |
| + |
| + fprintf (fp, "!INTERFILE := \n"); |
| + fprintf (fp, "name of data file := %s\n", name_v); |
| + fprintf (fp, "!GENERAL DATA := \n"); |
| + fprintf (fp, "!GENERAL IMAGE DATA :=\n"); |
| + fprintf (fp, "!type of data := tomographic\n"); |
| + fprintf (fp, "!version of keys := 3.3\n"); |
| + fprintf (fp, "!data offset in bytes := 0\n"); |
| + fprintf (fp, "imagedata byte order := littleendian\n"); |
| + fprintf (fp, "!PET STUDY (General) :=\n"); |
| + fprintf (fp, "!PET data type := 3D-Sinogram\n"); |
| + fprintf (fp, "process status := Reconstructed\n"); |
| + fprintf (fp, "!number format := unsigned short\n"); |
| + fprintf (fp, "!number of bytes per pixel := 2\n"); |
| + fprintf (fp, "number of dimensions := 3\n"); |
| + fprintf (fp, "matrix axis label [1] := x\n"); |
| + fprintf (fp, "!matrix size [1] := %i\n",m_NOfBins); |
| + fprintf (fp, "scaling factor (mm/pixel) [1] := %f\n",(float)(m_RingDiameter/(m_NOfBins-1.0))); |
| + |
| + fprintf (fp, "matrix axis label [2] := y\n"); |
| + fprintf (fp, "!matrix size [2] := %i\n",m_NOfAngles); |
| + |
| + fprintf (fp, "scaling factor (degree/pixel) [2] := %f\n",(float)(360./m_NOfAngles)); |
| + |
| + fprintf (fp, "matrix axis label [3] := z\n"); |
| + fprintf (fp, "!matrix size [3] := %i\n",m_NOfPlanes*m_NOfPlanes); |
| + fprintf (fp, "scaling factor (mm/pixel) [3] := %f\n",(float)(m_AxialDistance/(m_NOfPlanes-1.0))); |
| + |
| + fprintf (fp, "number of slices := %i\n",m_NOfPlanes*m_NOfPlanes); |
| + fprintf (fp, "number of time frames := 1\n"); |
| + fprintf (fp, "image scaling factor[1] := 1\n"); |
| + fprintf (fp, "data offset in bytes[1] := 0\n"); |
| + fprintf (fp, "quantification units := 1\n"); |
| + fprintf (fp, "!END OF INTERFILE := \n"); |
| + |
| + fclose(fp); |
| + //(size_t)(m_NOfBins*m_NOfAngles*m_NOfPlanes*m_NOfPlanes); |
| + |
| + }else{ |
| + |
| + strcpy(name_hv, m_Filename); |
| + strcpy(name_v,m_Filename); |
| + |
| + strcat(name_hv, ".hs"); // STIR extension: .hs .s |
| + strcat(name_v, ".s"); |
| + |
| + fp=fopen(name_hv, "w"); |
| + |
| + fprintf (fp, "!INTERFILE := \n"); |
| + fprintf (fp, "name of data file := %s\n",name_v); |
| + fprintf (fp, "!GENERAL DATA := \n"); |
| + fprintf (fp, "!GENERAL IMAGE DATA :=\n"); |
| + fprintf (fp, "!type of data := PET\n"); |
| + // fprintf (fp, "!version of keys := 3.3\n"); STIR format is not 3.3 (almost but not completely), ERROR in STIR if it is not removed |
| + // fprintf (fp, "!data offset in bytes := 0\n"); |
| + fprintf (fp, "imagedata byte order := littleendian\n"); |
| + fprintf (fp, "!PET STUDY (General) :=\n"); |
| + fprintf (fp, "!PET data type := Emission\n"); |
| + fprintf (fp, "applied corrections := {arc correction}\n"); // {none}\n"); |
| + // fprintf (fp, "process status := Reconstructed\n"); |
| + fprintf (fp, "!number format := unsigned integer\n"); |
| + fprintf (fp, "!number of bytes per pixel := 2\n"); |
| + |
| + fprintf (fp, "number of dimensions := 4\n"); |
| + fprintf (fp, "matrix axis label [4] := segment\n"); |
| + fprintf (fp, "!matrix size [4] := %i\n",m_MaxRingDifference*2 + 1); |
| + // fprintf (fp, "scaling factor (mm/pixel) [1] := %f\n",(float)(d_FOV/(m_NOfBins-1))); |
| + fprintf (fp, "matrix axis label [3] := axial coordinate\n"); |
| + fprintf (fp, "!matrix size [3] := { "); |
| + if (m_MaxRingDifference==0) |
| + { |
| + fprintf (fp, "%i}\n", m_NOfPlanes); |
| + }else{ |
| + for(int m=m_NOfPlanes-m_MaxRingDifference;m<=m_NOfPlanes;m++) fprintf (fp, "%i,", m); |
| + for(int m=m_NOfPlanes-1;m>m_NOfPlanes-m_MaxRingDifference;m--) fprintf (fp, "%i,", m); |
| + fprintf (fp, "%i}\n", m_NOfPlanes-m_MaxRingDifference); |
| + } |
| + fprintf (fp, "matrix axis label [2] := view\n"); |
| + fprintf (fp, "!matrix size [2] := %i\n",m_NOfAngles); |
| + fprintf (fp, "matrix axis label [1] := tangential coordinate\n"); |
| + fprintf (fp, "!matrix size [1] := %i\n",m_NOfBins); |
| + |
| + fprintf (fp, "minimum ring difference per segment := {"); // TO DO : add SPAN (m_MaxRingDifferenceiff per seg. variable) |
| + fprintf (fp, "%i", -m_MaxRingDifference); |
| + for(int m=-m_MaxRingDifference+1;m<=m_MaxRingDifference;m++) fprintf (fp, ",%i", m); |
| + fprintf (fp, "}\n"); |
| + fprintf (fp, "maximum ring difference per segment := {"); // TO DO : add SPAN (m_MaxRingDifferenceiff per seg. variable) |
| + fprintf (fp, "%i", -m_MaxRingDifference); |
| + for(int m=-m_MaxRingDifference+1;m<=m_MaxRingDifference;m++) fprintf (fp, ",%i", m); |
| + fprintf (fp, "}\n"); |
| + |
| + fprintf (fp, "inner ring diameter (cm) := %f\n", m_RingDiameter/10); // STIR Required parameter, now assigned to FOV (not detectors) |
| + fprintf (fp, "average depth of interaction (cm) := 0.0001\n"); |
| + fprintf (fp, "default bin size (cm) := %f\n",0.1*((float)m_RingDiameter/((float)m_NOfBins-1.0)) ); |
| + fprintf (fp, "number of rings := %i\n",m_NOfPlanes ); |
| + fprintf (fp, "distance between rings (cm) := %f\n", 0.1*((float)m_AxialDistance/(float)(m_NOfPlanes-1)) ); // Axial pixel dimension |
| + |
| + fprintf (fp, "number of detectors per ring := %i\n",m_NOfAngles*2 ); |
| + // fprintf (fp, "number of slices := %i\n",m_NOfPlanes*m_NOfPlanes); |
| + fprintf (fp, "number of time frames := 1\n"); |
| + fprintf (fp, "image scaling factor[1] := 1\n"); |
| + fprintf (fp, "data offset in bytes[1] := 0\n"); |
| + fprintf (fp, "quantification units := 1\n"); |
| + fprintf (fp, "!END OF INTERFILE := \n"); |
| + |
| + fclose(fp); |
| + |
| + } |
| + m_Buffer = (SINO_TYPE*) malloc( m_NOfBins*m_NOfAngles*m_TotalAxialPlanes*sizeof(SINO_TYPE)); |
| + |
| + long unsigned int cont=0; |
| + int i,j,k; |
| + |
| + for(k=0;k<m_TotalAxialPlanes;k++){ |
| + for(j=0;j<m_NOfAngles;j++){ |
| + for(i=0;i<m_NOfBins;i++){ |
| + m_Buffer[cont]=m_projections[i][j][k]; |
| + cont++; |
| + } |
| + } |
| + } |
| + |
| + fp=fopen(name_v, "wb"); |
| + |
| + //cout << 4096*sizeof(SINO_TYPE) << endl; |
| + int nb=fwrite(m_Buffer,1,m_NOfBins*m_NOfAngles*m_TotalAxialPlanes*sizeof(SINO_TYPE), fp); |
| + fclose(fp); |
| + |
| +#ifndef GAMOS_NO_VERBOSE |
| + cout << "PETProjDataMgr::WriteInterfile: File name: " << m_Filename << endl; |
| + cout << "PETProjDataMgr::WriteInterfile: Numer of bytes written: " << nb << endl; |
| + cout << "PETProjDataMgr::WriteInterfile: Planes = " << m_NOfPlanes << "; bins = " << m_NOfBins << "; ang_views = " << m_NOfAngles << endl; |
| + cout << "PETProjDataMgr::WriteInterfile: Dimensions (mm): Transaxial FOV = " << m_RingDiameter << "; Axial FOV = " << m_AxialDistance << " ; Transaxial_pix = " << m_RingDiameter/(m_NOfBins-1) <<"; Plane width = " << m_AxialDistance/(m_NOfPlanes-1) << endl; // Image Axial Pixel(ssrb) == 0.5*(Plane_Width); |
| + cout << "... " << endl; |
| + |
| + cout << "PETProjDataMgr::WriteInterfile: Total Coinci: " << m_TotalCoincidences << endl; |
| + cout << "PETProjDataMgr::WriteInterfile: Sino3D Coinci: " << m_TotalProjectionCoincidences << endl; |
| +#endif |
| + |
| +} |
| + |
| + |
| +TVector3 PETProjDataMgr::Hits2Digits(const TVector3 &r){ |
| + if (!m_nch) return r; |
| + float smear=0.5; |
| + |
| + if (m_nch<0) smear=m_rnd->Rndm(); |
| + |
| + double angle = TMath::ATan2(r.X(),r.Y()); // vrne kot med -pi in pi |
| + if (angle<0) angle+=TMath::TwoPi(); |
| + |
| + angle= (int(angle/TMath::TwoPi()*TMath::Abs(m_nch))+smear)*TMath::TwoPi()/TMath::Abs(m_nch); |
| + //(m_rnd->Rndm()-0.5)*m_AxialDistance; |
| + return TVector3(sin(angle), cos(angle),0); // z coordinata ni cisto v redu |
| + |
| +} |
| + |
| +int PETProjDataMgr::FwdProject(double x,double y, double z, int nmax, TH1*h){ |
| +TVector3 r(x,y,z); |
| +int h2d=h->InheritsFrom("TH2F"); |
| +double tfac=m_RingDiameter*m_RingDiameter/4-r.Mag2(); |
| +double rfac= m_AxialDistance/m_RingDiameter; |
| +for (int i=0;i<nmax;i++){ |
| + |
| + double phi= m_rnd->Rndm()*TMath::Pi(); |
| + TVector3 s(1,0,0); |
| + s.SetPhi(phi); |
| + double sign = (m_rnd->Rndm()>0.5)? 1 : 0; |
| + double theta = TMath::ACos(m_rnd->Rndm()*rfac); |
| + theta+=sign*TMath::Pi(); |
| + |
| + s.SetTheta(theta); |
| + double t=r*s; |
| + TVector3 rx=r-t*s; |
| + |
| + double d=TMath::Sqrt(t*t+tfac); |
| + |
| + TVector3 r1=rx+d*s; |
| + TVector3 r2=rx-d*s; |
| + |
| + //r1=Hits2Digits(r1); |
| + //r2=Hits2Digits(r2); |
| + |
| + AddEvent( r1 , r2); |
| + if (h!=NULL){ |
| + TVector3 s1=r2-r1; |
| + double s1len= s1.Mag(); |
| + int niter=int (100*s1len/m_RingDiameter); |
| + for (int j=0;j<niter;j++){ |
| + r2=r1+m_rnd->Rndm()*s1; |
| + if (h2d) ((TH2F *) h)->Fill(r2.X(),r2.Y()); |
| + else ((TH3F *) h)->Fill(r2.X(),r2.Y(),r2.Z()); |
| + } |
| + } |
| +} |
| +return 0; |
| +} |
| + |
| +int PETProjDataMgr::FwdProject(TH2F *img, TH2F *h){ |
| + |
| +for (int i=0;i<img->GetNbinsX();i++) { |
| + double x_=img->GetXaxis()->GetBinCenter( i+1 ); |
| + for (int j=0;j<img->GetNbinsY();j++) { |
| + double y_=img->GetYaxis()->GetBinCenter( j+1 ); |
| + double density= img->GetBinContent(i+1,j+1); |
| + if (density>0) FwdProject(x_,y_,m_AxialDistance*(m_rnd->Rndm()-0.5), density,h); |
| + } |
| +} |
| +return 0; |
| +} |
| + |
| +int PETProjDataMgr::FwdProject(TH3F *img, TH3F *h){ |
| + |
| +for (int i=0;i<img->GetNbinsX();i++) { |
| + double x_=img->GetXaxis()->GetBinCenter( i+1 ); |
| + for (int j=0;j<img->GetNbinsY();j++) { |
| + double y_=img->GetYaxis()->GetBinCenter( j+1 ); |
| + for (int k=0;k<img->GetNbinsZ();k++) { |
| + double z_=img->GetZaxis()->GetBinCenter( k+1 ); |
| + double density= img->GetBinContent(i+1,j+1,k+1); |
| + if (density>0) FwdProject(x_,y_,z_, density,h); |
| + } |
| + } |
| +} |
| +return 0; |
| +} |
| + |
| +TH2F *PETProjDataMgr::Phantom(int kaj){ |
| +TH2F *img= new TH2F("img","Original Image",100,-50,50,100,-50,50); |
| + |
| +// izberi sliko 0: kroglice, 1: point source 2: central ball |
| +switch (kaj){ |
| + |
| +case 0: |
| +for (int i=0;i<img->GetNbinsX();i++) { |
| + for (int j=0;j<img->GetNbinsY();j++) { |
| + double x_=img->GetXaxis()->GetBinCenter( i+1 ); |
| + double y_=img->GetYaxis()->GetBinCenter( j+1 ); |
| + double density=1000; |
| + if ((x_*x_+y_*y_)<6) img->SetBinContent(i+1,j+1,density); |
| + |
| + density=500; if ((x_-25)*(x_-25)+y_*y_<12) img->SetBinContent(i+1,j+1,density); |
| + density=2000; if ((y_-25)*(y_-25)+x_*x_<2) img->SetBinContent(i+1,j+1,density); |
| + } |
| +} |
| +break; |
| + |
| +case 2: |
| +for (int i=0;i<img->GetNbinsX();i++) { |
| + for (int j=0;j<img->GetNbinsY();j++) { |
| + double x_=img->GetXaxis()->GetBinCenter( i+1 ); |
| + double y_=img->GetYaxis()->GetBinCenter( j+1 ); |
| + double density=1000; |
| + if ((x_*x_+y_*y_)<12.5) img->SetBinContent(i+1,j+1,density); |
| + } |
| +} |
| +break; |
| + |
| +case 1: |
| +img->Fill(25,25,10000); |
| +break; |
| + |
| +} |
| + |
| +return img; |
| +} |
| Index: petrecofmf/pedestals.cxx |
| =================================================================== |
| --- petrecofmf/pedestals.cxx (nonexistent) |
| +++ petrecofmf/pedestals.cxx (revision 113) |
| @@ -0,0 +1,71 @@ |
| +int pedestals(char *fname=NULL){ |
| + char fpede[255]="pedestals.dat"; |
| + |
| + |
| + if (fname!=NULL){ |
| + cout << "Rootname:" << fname << endl; |
| + delete gROOT->GetListOfFiles()->FindObject(fname); // clear memory of file name |
| + if( gSystem->AccessPathName(fname) ) { |
| + cout << endl << "File: " << fname << " not there!!!" << endl << endl; |
| + return 0; |
| + } |
| + TFile *rootfile = new TFile(fname); |
| + } |
| + |
| + TH1I *gICh = (TH1I * ) gDirectory->Get("mapping"); |
| + char hname[50]; |
| + char hn[50]; |
| + TCanvas *c; |
| + |
| + |
| + |
| + fp=fopen(fpede,"w"); |
| + for (int i=0;i<4;i++) { |
| + sprintf(hname,"cy%d",i); |
| + sprintf(hn,"Single Pmt %d",i); |
| + c =new TCanvas(hname,hn, 1000,1000); |
| + c->Divide(4,4); |
| + for (int j=0;j<16;j++){ |
| + c->cd(gICh->GetBinContent(j+1)+1)->SetLogy(1); |
| + |
| + sprintf(hn,"ach%d",i*16+j); |
| + TH1F*h= (TH1F * ) gDirectory->Get(hn); |
| + float mean=h->GetMean(); |
| + h->Fit("gaus","","",mean-200,mean+100); |
| + |
| + TF1 *res = h->GetFunction("gaus"); |
| + |
| + fprintf(fp, "%d %g\n",i*16+j,res->GetParameter(1)); |
| + |
| + } |
| + c->Modified(); |
| + c->Update(); |
| + } |
| + fclose(fp); |
| + |
| + printf("pedestals are stored in file %s\n", fpede); |
| + |
| + |
| + /* |
| + char fsumpede[255]="sumpedestals.dat"; |
| + FILE *fp=fopen(fsumpede,"w"); |
| + c =new TCanvas("c","c", 600,600); |
| + c->Divide(2,2); |
| + for (int i=0;i<4;i++){ |
| + sprintf(hn,"pmt%d",i); |
| + c->cd(i+1); |
| + TH1F *h= ((TH1F * )gDirectory->Get(hn)); |
| + if (h) { |
| + h->Fit("gaus", "","",3000, 6000); |
| + TF1 *res = h->GetFunction("gaus"); |
| + fprintf(fp, "%d %g\n",i,res->GetParameter(1)); |
| + } |
| + } |
| + c->Modified(); |
| + c->Update(); |
| + fclose(fp); |
| + printf("pedestals are stored in file %s\n", fsumpede); |
| + */ |
| + |
| +return 0; |
| +} |
| Index: petrecofmf/sinoread.cxx |
| =================================================================== |
| --- petrecofmf/sinoread.cxx (nonexistent) |
| +++ petrecofmf/sinoread.cxx (revision 113) |
| @@ -0,0 +1,152 @@ |
| +#include <stdio.h> |
| +#include "TH2F.h" |
| +#include "TCanvas.h" |
| +#include "TMath.h" |
| +#include "TStyle.h" |
| +#include "TColor.h" |
| + |
| +void mypalette(){ |
| + |
| + Int_t MyPalette[1000]; |
| + double stops[] = {0.00, 0.34, 0.61, 0.84, 1.00}; |
| + double red[] = {1.00, 0.84, 0.61, 0.34, 0.00}; |
| + double green[] = {1.00, 0.84, 0.61, 0.34, 0.00}; |
| + double blue[] = {1.00, 0.84, 0.61, 0.34, 0.00}; |
| + |
| + |
| + Int_t gs = TColor::CreateGradientColorTable(5, stops, red, green, blue, 999); |
| + //for (int i=0;i<999;i++) MyPalette[i] = gs+998-i; |
| + |
| + for (int i=0;i<999;i++) MyPalette[i] = gs+i; |
| + gStyle->SetPalette(999, MyPalette); |
| +} |
| + |
| +int imageread(char *fname,int nchx=28, int nchy=56, int nchz=0, int format=0, int size=0, char *opt=""){ |
| +FILE *fp= fopen(fname,"read"); |
| +const int maxbuf=360000; |
| +float *fbuf= new float[maxbuf]; |
| +unsigned short*ibuf=((unsigned short*) &fbuf[0]); |
| +if (size==0) { |
| + if (format) size=sizeof(float); |
| + else size=sizeof(unsigned short); |
| +} |
| +int ncount=0; |
| + |
| +if(fp){ |
| + |
| +gStyle->SetPalette(100); |
| +mypalette(); |
| +TCanvas *c=new TCanvas("c","c",1500,1500); |
| +int sizx=sqrt(nchz); |
| +c->Divide(sizx,TMath::Ceil(nchz/double(sizx)) ); |
| +char hname[128]; |
| + |
| +while (!feof(fp)){ |
| + |
| + |
| +int nb=fread(fbuf,size,nchx*nchy,fp); |
| +printf("nb=%d\n",nb); |
| +if (nb>0){ |
| + sprintf(hname,"slice %d",ncount); |
| + TH2F *h=new TH2F("h",hname,nchx,-0.5,nchx-0.5,nchy,-0.5,nchy-0.5); |
| + float val=0; |
| + for (int i=0 ; i<nb;i++){ |
| + //h->SetBinContent(i%nchx+1, i/nchx+1, fbuf[i]); |
| + if (format) val=fbuf[i]; else val=float(ibuf[i]); |
| + h->SetBinContent(i/nchy+1,i%nchy+1, val); |
| + } |
| + c->cd(ncount+1); |
| + h->SetMinimum(0); |
| + h->Draw(opt); |
| +} |
| + |
| +ncount++; |
| +} |
| +fclose(fp); |
| +c->Modified(); |
| +c->Update(); |
| +} |
| + |
| +delete fbuf; |
| +return 0; |
| +} |
| + |
| +int interfileread(char *fname, char *opt=""){ |
| + FILE *fp=fopen(fname,"r"); |
| + if (!fp) { |
| + printf("Cannot open %s\n",fname); |
| + return 0; |
| + } |
| + int j=0; |
| + int ndim=400; |
| + char *line= new char[ndim]; |
| + int indx[4]={-1,-1,-1,-1}; |
| + int dim[5]; |
| + char *cmd,*val,*token; |
| + char fimage[100]; |
| + while (fgets(line,ndim,fp)!=NULL) { |
| + char *v= strstr(line,":="); |
| + if (v!=NULL) { |
| + cmd=line; |
| + v[0]=0; |
| + val = &v[2]; |
| + val[strlen(val)-1]=0; |
| + printf("%d #%s# %s\n",j++, val, cmd); |
| + int axis=-1; |
| + if (strstr(cmd,"matrix axis label")!= NULL){ |
| + |
| + sscanf(cmd,"matrix axis label [%d]", &axis); |
| + if(axis>0 && axis<5){ |
| + if (strstr(val," x")!= NULL) indx[axis-1]=1; |
| + if (strstr(val," y")!= NULL) indx[axis-1]=0; |
| + if (strstr(val," z")!= NULL) indx[axis-1]=3; |
| + |
| + if (strstr(val,"view") != NULL) indx[axis-1]=0; |
| + if (strstr(val,"tangential")!= NULL) indx[axis-1]=1; |
| + if (strstr(val,"segment") != NULL) indx[axis-1]=2; |
| + if (strstr(val,"axial") != NULL) indx[axis-1]=3; |
| + printf("-->> %s axis=%d indx=%d\n",val, axis,indx[axis-1]); |
| + |
| + } |
| + } |
| + if (strstr(cmd,"!matrix size")!= NULL){ |
| + sscanf(cmd,"!matrix size [%d]", &axis); |
| + if(axis>0 && axis<5){ |
| + if (indx[axis-1]<3){ dim[indx[axis-1]]=atoi(val);} |
| + else { |
| + int sum=0; |
| + token = strtok(val,"{,"); |
| + sum+=atoi(token); |
| + while ( (token=strtok(NULL,"{,")) ) sum+=atoi(token); |
| + printf("total dim=%d\n",sum); |
| + dim[3]=sum; |
| + }; |
| + } |
| + printf("axis=%d indx=%d\n",axis,indx[axis-1]); |
| + } |
| + if (strstr(cmd,"name of data file")!= NULL){ |
| + sscanf(val,"%s",fimage); |
| + printf("image file=%s\n",fimage); |
| + } |
| + if (strstr(cmd,"!number of bytes per pixel")!= NULL){ |
| + dim[4]=atoi(val); |
| + printf("bytes per pixel=%d\n",dim[4]); |
| + } |
| + if (strstr(cmd,"!number format")!= NULL){ |
| + if (strstr(val,"float")!=NULL){ dim[5]=1; }; |
| + if (strstr(val,"integer")!=NULL){ dim[5]=0; }; |
| + printf("number format=%d\n",dim[5]); |
| + } |
| + |
| + } |
| + } |
| + for (int i=0;i<6;i++) printf ("dim[%d]=%d\n", i,dim[i]); |
| + fclose(fp); |
| + imageread(fimage,dim[0], dim[1], dim[3], dim[5], dim[4], opt); |
| + return 0; |
| +} |
| + |
| + |
| +int sinoread(char *fname, char *opt=""){ |
| + return interfileread(fname,opt); |
| +} |
| Index: petrecofmf/readdata.C |
| =================================================================== |
| --- petrecofmf/readdata.C (nonexistent) |
| +++ petrecofmf/readdata.C (revision 113) |
| @@ -0,0 +1,793 @@ |
| +/* |
| + |
| +vhodne datoteke: |
| + |
| +Mappingi: |
| +m16.map channel mapping |
| +modules.map mapping modulov |
| + |
| +Kalibracija: |
| +pedestals.dat ... adc suma |
| +ph511.dat ... adc fotovrhov vrhov |
| + |
| + |
| +// sumpedestals.dat vsota adc po modulih |
| + |
| +./readdata -c config.xml -i input.dat -o output -n nevents -w writentuple -d debuglevel |
| + |
| +*/ |
| +#include <stdlib.h> |
| +#include <stdio.h> |
| +#include "TNtuple.h" |
| +#include "TH1F.h" |
| +#include "TH2F.h" |
| +#include "TF1.h" |
| +#include "TCanvas.h" |
| +#include "TStyle.h" |
| +#include "TFile.h" |
| +#include "TMath.h" |
| +#include "TRandom3.h" |
| +#include <zlib.h> |
| +#include <iostream> |
| +#include <fstream> |
| + |
| + |
| +#include <stdlib.h> |
| +#include <stdio.h> |
| +#include <string.h> |
| +#include <assert.h> |
| +#include <vector> |
| + |
| +#include <libxml/tree.h> |
| +#include <libxml/parser.h> |
| +#include <libxml/xpath.h> |
| +#include <libxml/xpathInternals.h> |
| + |
| +#include "PETProjDataMgr.h" |
| + |
| + |
| +// en krog je 4790 korakov |
| +#define NSTEPS 4790 |
| +// nt->Draw("px1/max1:py1/max1>>hmy(200,-1,4,200,-1,4)","max1>500","colz") |
| +//#define MAXCH 64 |
| +#define MAXCH 72 |
| + |
| + |
| +#define RUNREC_ID 1 |
| +#define EVTREC_ID 2 |
| +#define POSREC_ID 3 |
| + |
| +typedef struct { |
| + unsigned int num_events,num_channels,pedestal,xy; |
| + int nx,x0,dx,ny,y0,dy; |
| +} RUNREC; |
| +RUNREC *runrec; // start header: appears once at the start of the file |
| + |
| +typedef struct { |
| + int mikro_pos_x,set_pos_x; |
| + int num_iter_y,mikro_pos_y,set_pos_y; |
| +} POSREC; |
| +POSREC *posrec; // position header: appears at every change of position |
| + |
| +class Channel { |
| +public: |
| + Channel(){}; |
| + ~Channel(){}; |
| + int ix; |
| + int iy; |
| + int idx; |
| + void SetIxIy(int a,int b){ix=a;iy=b;idx=ix+4*iy;}; |
| +}; |
| + |
| +class Module { |
| +public: |
| + Module(){}; |
| + ~Module(){}; |
| + double r; |
| + double phi; |
| + void SetRPhi(double rr, double pphi){r=rr;phi=pphi*TMath::Pi()/180.;}; |
| +}; |
| + |
| +class Geometry { |
| + |
| +public: |
| + |
| + |
| + ~Geometry(){ m_calibration->Close(); }; |
| + Channel ch[16]; |
| + Module module[4]; |
| + |
| + |
| + TRandom3 *m_rnd; // random generator |
| + TH1I *m_crystalid[4];// kalibracijski histogrami |
| + char * m_modulesmapName; // ime datoteke s podatki o pozicijah modulov |
| + char * m_channelsmapName; // ime datoteke s podatki o pozicijah elektronskih kanalov |
| + //char * m_sumpedestalsName; |
| + char * m_pedestalsName; // ime datoteke s podatki o pedestalih |
| + char * m_photopeakName; // ime datoteke s podatki o vrhovih |
| + char * m_calibrationrootName; // ime datoteke s kalibracijskimi histogrami |
| + TFile *m_calibration; // datoteke s kalibracijskimi histogrami |
| + |
| + double m_dx; // pitch x kristalov |
| + double m_dy; // pitch y kristalov |
| + int m_nx; // stevilo kristalov v x smeri |
| + int m_ny; // stevilo kristalov v y smeri |
| + |
| + float gPedestals[MAXCH]; |
| + float gPeak[MAXCH]; |
| + |
| + //float gSumPedestals[MAXCH]; |
| + double m_peakscaling; // scaling za adcje |
| + double m_threshold; // threshold za upostevanje zadetkov na kanalih |
| + int m_debug; |
| + |
| + |
| + //--------------------------------------------------- |
| + int SetThreshold(int threshold){ |
| + m_threshold=threshold; |
| + return 0; |
| + }; |
| + double GetThreshold(){ |
| + return m_threshold; |
| + } |
| + |
| + |
| + int readfile(const char *fname, float *x, int nmax, int defaultvalue=0){ |
| + int id; |
| + float ix; |
| + std::ifstream f(fname); |
| + if (f.is_open()){ |
| + std::cout << "Reading ... " << fname << std::endl; |
| + while (f.good()){ |
| + f >> id >> ix; |
| + if (id<nmax) x[id]=ix; |
| + if (m_debug) std::cout << fname << " " << id << " " << ix <<" "<< std::endl; |
| + } |
| + f.close(); |
| + } else { |
| + std::cout << "Cannot read " << fname << std::endl; |
| + std::cout << "Default value will be used :" << defaultvalue << std::endl; |
| + for (int i=0;i<nmax;i++){ |
| + x[i]=defaultvalue; |
| + } |
| + } |
| + return 0; |
| + }; |
| + |
| + void ReadChannelMap(const char *fname){ |
| + int id,ix,iy; |
| + char line[400]; |
| + std::ifstream f(fname); |
| + if (f.is_open()){ |
| + std::cout << "Reading ... " << fname << std::endl; |
| + f.getline(line,400); |
| + while (f.good()){ |
| + f >> id >> ix >> iy; |
| + if (id<16) ch[id].SetIxIy(ix,iy); |
| + if (m_debug) std::cout << fname << " " << id << " " << ix <<" "<< iy << std::endl; |
| + } |
| + f.close(); |
| + } else { |
| + std::cout << "Cannot read " << fname << std::endl; |
| + } |
| + |
| + }; |
| + |
| + void ReadModuleMap(const char *fname){ |
| + int id; |
| + double r,phi; |
| + char line[400]; |
| + std::ifstream f(fname); |
| + if (f.is_open()){ |
| + std::cout << "Reading ... " << fname << std::endl; |
| + f.getline(line,400); |
| + while (f.good()){ |
| + f >> id >> r >> phi; |
| + if (id<4) module[id].SetRPhi(r,phi); |
| + if (m_debug) std::cout << fname << " " << id << " " << r <<" "<< phi << std::endl; |
| + } |
| + f.close(); |
| + } else { |
| + std::cout << "Cannot read " << fname << std::endl; |
| + } |
| + |
| + }; |
| + |
| + int getvalue(xmlXPathContextPtr xpathCtx, const char* xpathExpr, std::vector<xmlChar *> &retval) { |
| + |
| + xmlXPathObjectPtr xpathObj; |
| + xmlNodeSetPtr nodes; |
| + xmlChar * ret=NULL; |
| + int size; |
| + int i; |
| + assert(xpathExpr); |
| + /* Evaluate xpath expression */ |
| + xpathObj = xmlXPathEvalExpression(BAD_CAST xpathExpr, xpathCtx); |
| + if(xpathObj == NULL) { |
| + fprintf(stderr,"Error: unable to evaluate xpath expression \"%s\"\n", xpathExpr); |
| + return retval.size(); |
| + } |
| + |
| + nodes = xpathObj->nodesetval; |
| + size = (nodes) ? nodes->nodeNr : 0; |
| + for(i = 0; i< size; i++) { |
| + ret = xmlNodeGetContent(nodes->nodeTab[i]); |
| + if(ret) { |
| + retval.push_back(ret); |
| + printf("[%d] %s Return value: %s\n", i, xpathExpr, ret); |
| + } |
| + } |
| + |
| + /* Cleanup of XPath data */ |
| + xmlXPathFreeObject(xpathObj); |
| + |
| + return retval.size(); |
| + } |
| + |
| + char * getvalue(xmlXPathContextPtr xpathCtx, const char* xpathExpr, int which) { |
| + |
| + xmlXPathObjectPtr xpathObj; |
| + xmlNodeSetPtr nodes; |
| + xmlChar * ret=NULL; |
| + int size; |
| + int i; |
| + assert(xpathExpr); |
| + |
| + xpathObj = xmlXPathEvalExpression(BAD_CAST xpathExpr, xpathCtx); |
| + if(xpathObj == NULL) { |
| + fprintf(stderr,"Error: unable to evaluate xpath expression \"%s\"\n", xpathExpr); |
| + return NULL; |
| + } |
| + |
| + nodes = xpathObj->nodesetval; |
| + size = (nodes) ? nodes->nodeNr : 0; |
| + for(i = 0; i< size; i++) { |
| + ret = xmlNodeGetContent(nodes->nodeTab[i]); |
| + if(ret) { |
| + printf("%s=%s\n", xpathExpr, ret); |
| + if (which == i) break; |
| + } |
| + } |
| + |
| + xmlXPathFreeObject(xpathObj); |
| + return (char *) ret; |
| + |
| + } |
| + |
| + int readxmlconfig(const char *fname){ |
| + xmlInitParser(); |
| + LIBXML_TEST_VERSION |
| + |
| + /* Load XML document */ |
| + xmlDocPtr doc = xmlParseFile(fname); |
| + if (doc == NULL) { |
| + fprintf(stderr, "Error: unable to parse file \"%s\"\n", fname); |
| + return(-1); |
| + } else { |
| + std::cout << "Reading ... " << fname << std::endl; |
| + } |
| + |
| + /* Create xpath evaluation context */ |
| + xmlXPathContextPtr xpathCtx = xmlXPathNewContext(doc); |
| + if(xpathCtx == NULL) { |
| + fprintf(stderr,"Error: unable to create new XPath context\n"); |
| + xmlFreeDoc(doc); |
| + return(-1); |
| + } |
| + |
| + m_pedestalsName = getvalue(xpathCtx, "//pedestals" , 0); |
| + //m_sumpedestalsName = getvalue(xpathCtx, "//sumpedestals", 0); |
| + m_photopeakName = getvalue(xpathCtx, "//photopeak" , 0); |
| + m_modulesmapName = getvalue(xpathCtx, "//modules" , 0); |
| + m_channelsmapName = getvalue(xpathCtx, "//channels" , 0); |
| + m_calibrationrootName = getvalue(xpathCtx, "//channelcalibration", 0); |
| + m_threshold = atoi(getvalue(xpathCtx, "//adcthreshold", 0)); |
| + m_nx = atoi(getvalue(xpathCtx, "//nofcrystalsx", 0)); |
| + m_ny = atoi(getvalue(xpathCtx, "//nofcrystalsx", 0)); |
| + m_dx = atof(getvalue(xpathCtx, "//crystalpitchx", 0)); |
| + m_dy = atof(getvalue(xpathCtx, "//crystalpitchy", 0)); |
| + |
| + xmlXPathFreeContext(xpathCtx); |
| + xmlFreeDoc(doc); |
| + xmlCleanupParser(); |
| + xmlMemoryDump(); |
| + return 0; |
| + }; |
| + |
| + |
| + double GetEnergy(int ch, int adc){ |
| + return (adc-gPedestals[ch])/(gPeak[ch]-gPedestals[ch])*m_peakscaling; |
| + } |
| + int GetRealPosition(int ipmt, float px,float py,float &cx,float &cy){ |
| + // iz CoG izracuna pozicijo na kristalu |
| + |
| + int binx = m_crystalid[ipmt]->GetXaxis()->FindBin(px); |
| + int biny = m_crystalid[ipmt]->GetYaxis()->FindBin(py); |
| + int crystalid = m_crystalid[ipmt]->GetBinContent(binx,biny); |
| + cx= ( crystalid % m_nx - m_nx/2. + 0.5 ) * m_dx; |
| + cy= ( crystalid / m_nx - m_ny/2. + 0.5 ) * m_dy; |
| + |
| + |
| + // razmazi pozicijo po povrsini kristala |
| + double rndx = (m_rnd->Rndm()-0.5) * m_dx; |
| + double rndy = (m_rnd->Rndm()-0.5) * m_dy; |
| + cx+= rndx; |
| + cy+= rndy; |
| + return crystalid; |
| + } |
| + |
| + TVector3 GetGlobalPosition(int ipmt, double angle, float cx, float cy){ |
| + |
| + double phi = angle + module[ipmt].phi; |
| + double &r = module[ipmt].r; |
| + double sinphi = sin(phi); |
| + double cosphi = cos(phi); |
| + |
| + TVector3 rv( cosphi* r + sinphi * cx , sinphi* r - cosphi * cx, cy); |
| + //if (m_debug) printf( "[%d] phi=%f %f global ( %f , %f , %f )\n" ,ipmt, module[ipmt].phi,angle, rv.x(), rv.y(), rv.z()); |
| + return rv; |
| + } |
| + |
| + Geometry(const char *fnameconfig, int debug){ |
| + m_debug = debug; |
| + readxmlconfig(fnameconfig); |
| + |
| + ReadModuleMap(m_modulesmapName); |
| + ReadChannelMap(m_channelsmapName); |
| + |
| + std::cout << "Reading ... " << m_calibrationrootName << std::endl; |
| + m_calibration = new TFile(m_calibrationrootName); |
| + for (int i=0; i<4;i++) { |
| + char hn[256]; |
| + sprintf(hn,"pmt1%d_calib",i); |
| + m_crystalid[i]= (TH1I *) m_calibration->Get(hn); |
| + m_crystalid[i]->ls(); |
| + } |
| + |
| + //readfile(m_sumpedestalsName ,gSumPedestals,4); |
| + m_peakscaling=3000; |
| + |
| + readfile(m_pedestalsName,gPedestals,4*16, 0); |
| + readfile(m_photopeakName,gPeak,4*16, m_peakscaling); |
| + |
| + m_rnd= new TRandom3(); |
| + }; |
| + |
| +}; |
| + |
| + |
| +class readdata { |
| +private: |
| + |
| + TNtuple* gNtuple; |
| + |
| + |
| + TH1F* m_Adc[MAXCH]; |
| + TH1F* m_AdcCut[MAXCH]; |
| + TH2F* m_Adc_vs_Nhits[MAXCH]; |
| + TH2F* m_Adc_vs_Sum[MAXCH]; |
| + TH2F* m_Adc_vs_Sum_Uncorected[MAXCH]; |
| + TH2F* m_Nhits; |
| + TH1F* m_AdcSum[6]; |
| + TH2F* m_CenterOfGravity[6]; |
| + TH2F* m_ReconstructedPosition[6]; |
| + TH2F* m_CenterOfGravityforChAboveThreshold[6]; |
| + TH2F* m_GlobalPosition; |
| + TH1F* m_AdcSumCluster[6]; |
| + TH2F* m_MaxAdc[4]; |
| + TH2F* m_SumAdc[4]; |
| + |
| + Geometry *m_geo; // pozicije modulov in kanalov |
| + float gSum[6]; |
| + float gRawSum[6]; |
| + float gMax[6]; |
| + float gSumCluster[6]; |
| + float gNtdata[MAXCH*3]; |
| + int gNabove[5]; |
| + int m_neve; // number of events to process |
| + |
| +public: |
| + PETProjDataMgr *m_projector; // projektor za sinograme |
| + |
| + double m_rotation; // trenutna rotacija setupa |
| + double m_threshold; // |
| + |
| + double gData[MAXCH]; // korigirani ADC ji |
| + double gAdc[MAXCH]; // raw ADC ji |
| + int m_debug; // debug izpisi |
| + int m_write; // ce je ta flag nastavljen, se v root file izpisuje ntuple |
| + int m_coincidences; // stevilo koincidenc |
| + |
| + //--------------------------------------------------- |
| + int Initialize(){ |
| + |
| + if (m_write) { |
| + char varlist[1024], tmplist[1024]; |
| + sprintf( varlist,"sum0:sum1:sum2:sum3:nh0:nh1:nh2:nh3:c0:c1:c2:c3:px0:px1:px2:px3:py0:py1:py2:py3:rx0:rx1:rx2:rx3:ry0:ry1:ry2:ry3:max0:max1:max2:max3"); |
| + for (int i=0;i<MAXCH;i++) { |
| + sprintf(tmplist,"%s",varlist); |
| + sprintf(varlist,"%s:a%d",tmplist,i); |
| + } |
| + /* |
| + energija .. (adc -pedestal) * scaling |
| + |
| + sum0 .. sum3 vsota energij po vseh kanalih fotopomnozevalke |
| + nh0 .. nh4 stevilo zadetkov na fotopomnozevalki (adc nad thresholdom) |
| + c0 .. c4 vsota energij za kanale nad thresholdom |
| + px0 .. px4 x koordinata COG na fotopomnozevalki |
| + py0 .. py4 y koordinata COG na fotopomnozevalki |
| + max0 .. max3 maximalna energija na kanalu na fotopomnozevalki |
| + a0 .. a63 energija na i-tem kanalu |
| + */ |
| + gNtuple = new TNtuple("nt","Pet RAW data",varlist); |
| + printf ("#%s#\n",varlist); |
| + } |
| + m_Nhits = new TH2F("hnabove","Stevilo zadetkov nad nivojem diskriminacije",4,-0.5,3.5, 16,+0.5,16.5 ); // stevilo hitov nad thresholdom |
| + m_GlobalPosition = new TH2F("globalxy","Rekonstruirana koordinata zadetka",200,-80,80,200,-80,80); // reconstruirana koordinata v globalnem sistemu |
| + |
| + |
| + char hname[0xFF]; |
| + char hn[0xFF]; |
| + for (int i=0;i<MAXCH;i++){ |
| + sprintf(hname,"Raw ADC Ch. %d ;ADC;N",i); |
| + sprintf(hn,"ach%d",i); |
| + m_Adc[i] = new TH1F(hn,hname,4000,-0.5,3999.5); // osnovni adcji |
| + sprintf(hname,"cADC za dogodke z manj kot x hitov na pmtju Ch. %d ;ADC;N",i); |
| + sprintf(hn,"cutch%d",i); |
| + m_AdcCut[i] = new TH1F(hn,hname,4000,-0.5,3999.5); // adcji za zadetke z manj kot 7 hiti na PMTju |
| + sprintf(hname,"cADC proti stevilu zadetkov na pmtju Ch. %d ;ADC;N",i); |
| + sprintf(hn,"singlech%d",i); |
| + m_Adc_vs_Nhits[i] = new TH2F(hn,hname,200,0,4000, 17,-0.5,16.5); // adc proti stevilu zadetkov na PMTju |
| + sprintf(hname,"cADC proti vsoti kanalov na pmtju, Ch. %d ;ADC;ADCsum",i); |
| + sprintf(hn,"corrch%d",i); |
| + m_Adc_vs_Sum[i] = new TH2F(hn,hname,200,0,4000, 200,0,12000 ); // raw adc proti vsoti kanalov na PMTju |
| + sprintf(hname,"Raw ADC proti vsoti kanalov na pmtju, Ch. %d ;ADC;ADCsum",i); |
| + sprintf(hn,"adcvssumch%d",i); |
| + m_Adc_vs_Sum_Uncorected[i] = new TH2F(hn,hname,100,0,3500, 100,5000,12000 ); // adc proti vsoti kanalov na PMTju |
| + } |
| + |
| + for (int i=0;i<4;i++) { |
| + sprintf(hname,"Vsota cADC na PMTju %d ;ADC;N",i); |
| + sprintf(hn,"pmt%d",i); |
| + m_AdcSum[i] = new TH1F(hn,hname,200,0,20000); // vsota adcjev na PMTju |
| + sprintf(hname,"Vsota cADC na PMTju za dogodke z manj kot x zadetki %d ;ADC;N",i); |
| + sprintf(hn,"clusterpmt%d",i); |
| + m_AdcSumCluster[i] = new TH1F(hn,hname,200,0,20000); // vsota adcjev na pmtju, ki so nad threshholdom, za dogodke z manj kot 5 zadetki na PMTju |
| + |
| + sprintf(hname,"Center naboja CoG PMT %d ;x;y",i); |
| + sprintf(hn,"pmt1%d",i); |
| + m_CenterOfGravity[i] = new TH2F(hn,hname,200,-0.25,3.25,200,-0.25,3.25); // center naboja na PMTju |
| + |
| + sprintf(hname,"Center naboja CoG za zadetke nbad thresholdom PMT %d ;x;y",i); |
| + sprintf(hn,"pmt2%d",i); |
| + m_CenterOfGravityforChAboveThreshold[i] = new TH2F(hn,hname,200,0,3,200,0,3); // center naboja za zadetke nad thresholdom |
| + |
| + sprintf(hname,"Rekonstruirana koordinata PMT %d ;x(mm);y(mm)",i); |
| + sprintf(hn,"pmt3%d",i); |
| + m_ReconstructedPosition[i] = new TH2F(hn,hname,200,-12,12,200,-12,12); // korigirana koordinata na pmtju |
| + |
| + sprintf(hname,"SumAdc PMT %d ;SumAdc(a.u.);crystal ID",i); |
| + sprintf(hn,"sumadc%d",i); |
| + m_SumAdc[i] = new TH2F(hn,hname,200,0,12000,81,-0.5,80.5); // SumADC spekter za razlicne kristale |
| + } |
| + |
| + // store mapping |
| + TH1I *hx= new TH1I("mapping", "ch mapping", 16, -0.5,15.5); |
| + for (int j=0;j<16;j++) hx->Fill(j,m_geo->ch[j].idx); |
| + |
| + return 0; |
| + }; |
| + |
| + int FillHistograms(){ |
| + for (int i=0;i<MAXCH;i++) { // zanka cez vse elektronske kanale; |
| + float x=gData[i]; |
| + int ipmt= i/16; |
| + float s=gSum[ipmt]; |
| + // int idx= 2*(ipmt)+64; |
| + // const float fSlope1=2; |
| + // const float fSlope2=3; |
| + // if ( ((s-gSumPedestals[ipmt] ) > fSlope1*(x-gPedestals[i])) && ((s-gSumPedestals[ipmt] ) < fSlope2*(x-gPedestals[ipmt])) ) { |
| + if (gNabove[ipmt]<7){ |
| + m_Adc_vs_Sum[i]->Fill(x,s); |
| + m_Adc_vs_Sum_Uncorected[i]->Fill(gAdc[i],gRawSum[ipmt]); |
| + m_AdcCut[i]->Fill(x); |
| + } |
| + } |
| + |
| + TVector3 r_coincidence[2]; |
| + int f_coincidence[2]={0,0}; |
| + |
| + for (int ipmt=0;ipmt<4;ipmt++){ // zanka preko pmtjev |
| + int j2= (ipmt/2)*2+1-ipmt%2; // sosednja fotopomnozevalka |
| + |
| + float posx[2]={0,0}; |
| + float posy[2]={0,0}; |
| + float sum[2]={0,0}; |
| + for (int ich=0;ich<16;ich++){ // zanka preko elektronskih kanalov na fotopomnozevalki |
| + int ch= ich+ipmt*16; |
| + if (gMax[ipmt]>m_threshold) { |
| + posx[0]+= gData[ch]*m_geo->ch[ich].ix; |
| + posy[0]+= gData[ch]*m_geo->ch[ich].iy; |
| + sum[0] += gData[ch]; |
| + |
| + if (gData[ch]> 0.2*gMax[ipmt]){ // pri racunanju pozicije upostevaj le kanale, ki imajo vrednost vecjo od ratio*maksimalna na tisti fotopomnozevalki |
| + posx[1]+= gData[ch]*m_geo->ch[ich].ix; |
| + posy[1]+= gData[ch]*m_geo->ch[ich].iy; |
| + sum[1] += gData[ch]; |
| + } |
| + } |
| + } |
| + |
| + if (m_write) { |
| + gNtdata[12+ipmt]=posx[0]/sum[0]; |
| + gNtdata[16+ipmt]=posy[0]/sum[0]; |
| + gNtdata[20+ipmt]=(sum[1]>0)?posx[1]/sum[1]:-10; |
| + gNtdata[24+ipmt]=(sum[1]>0)?posy[1]/sum[1]:-10; |
| + gNtdata[28+ipmt]=sum[0]; |
| + } |
| + if (gMax[ipmt]>gMax[j2]){ // izberi fotopomnozevalko, ki ima vec zadetkov kot soseda TRG= (P1|P2) & (P3|P4) |
| + |
| + if ( sum[0] > 0 ) { |
| + float px=posx[0]/sum[0]; |
| + float py=posy[0]/sum[0]; |
| + |
| + m_CenterOfGravity[ipmt]->Fill(px,py); |
| + |
| + float cx=0; //koordinata na pmtju |
| + float cy=0; |
| + int crystalID = m_geo->GetRealPosition(ipmt,px,py,cx,cy); |
| + m_ReconstructedPosition[ipmt]->Fill(cx,cy); |
| + m_SumAdc[ipmt]->Fill(gSum[ipmt], crystalID ); |
| + if (m_debug > 2) printf("ipmt=%d cx=%f cy=%f\n",ipmt,cx,cy); |
| + r_coincidence[ipmt/2] = m_geo->GetGlobalPosition(ipmt, m_rotation, cx, cy) ; |
| + f_coincidence[ipmt/2] =1; |
| + m_GlobalPosition->Fill( r_coincidence[ipmt/2].x(),r_coincidence[ipmt/2].y()); |
| + |
| + } |
| + if ( sum[1] > 0 ) { |
| + |
| + float px=posx[1]/sum[1]; |
| + float py=posy[1]/sum[1]; |
| + m_CenterOfGravityforChAboveThreshold[ipmt]->Fill(px,py); |
| + } |
| + |
| + } |
| + } |
| + |
| + for (int i=0;i<MAXCH;i++) if (gData[i]>m_threshold) { m_Adc_vs_Nhits[i]->Fill(gData[i],gNabove[i/16]); } |
| + for (int i=0;i<MAXCH;i++) if (gData[i]>m_threshold && gNabove[i/16]<5 ) { gSumCluster[i/16]+=gData[i]; } |
| + for (int ipmt=0;ipmt<4;ipmt++) { |
| + m_AdcSum[ipmt]->Fill(gSum[ipmt]); |
| + m_AdcSumCluster[ipmt]->Fill(gSumCluster[ipmt]); |
| + } |
| + |
| + for (int i=0;i<4;i++) m_Nhits->Fill(i,gNabove[i]); |
| + |
| + if (m_write) { |
| + for (int i=0;i<4;i++) gNtdata[i]=gSum[i]; |
| + for (int i=0;i<4;i++) gNtdata[4+i]=gNabove[i]; |
| + for (int i=0;i<4;i++) gNtdata[8+i]=gSumCluster[i]; |
| + for (int i=0;i<MAXCH;i++) gNtdata[32+i]=gData[i]; |
| + gNtuple->Fill(gNtdata); |
| + } |
| + // |
| + // coincidences |
| + // |
| + if (f_coincidence[0]&&f_coincidence[1]){ |
| + m_coincidences++; |
| + if (m_debug > 1) { |
| + printf( "Coincidence ( %f , %f , %f ) ( %f , %f , %f )\n" , |
| + r_coincidence[0].x(), r_coincidence[0].y(), r_coincidence[0].z(), |
| + r_coincidence[1].x(), r_coincidence[1].y(), r_coincidence[1].z() ); |
| + } |
| + m_projector->AddEvent( r_coincidence[0] , r_coincidence[1]); |
| + } |
| + return 0; |
| + }; |
| + |
| + |
| +int Process( const char *fnamein, int nevetoprocess){ |
| + gzFile fp=gzopen(fnamein,"r"); |
| + printf("Process....\n"); |
| + if (!fp) { |
| + printf("File %s cannot be opened!\n", fnamein); |
| + return 0; |
| + } else { |
| + printf("Processing file %s\n", fnamein); |
| + } |
| + const int bsize=20000; |
| + |
| + unsigned int *buf = new unsigned int[bsize]; |
| + int nr=0; |
| + int hdr[4]; |
| + |
| + int nread=0; |
| + while (!gzeof(fp) ){ |
| + int nitems = gzread(fp,hdr, sizeof(int)*4 ); |
| + if (nitems !=4*sizeof(int)) break; |
| + int recid = hdr[0]; |
| + int nb = hdr[1] - 4*sizeof(int); |
| + if ( nb > bsize) { |
| + nb=bsize; |
| + printf ("Error bsize %d nb=%d\n",bsize,nb); |
| + } |
| + // int nint = nb/sizeof(int); |
| + int n=hdr[3]; |
| + nitems=gzread(fp, buf, nb); |
| + nr++; |
| + if (nitems!=nb){ printf("Read Error nb=%d nitems=%d\n",nb,nitems); continue; } |
| + |
| + switch (recid){ |
| + case RUNREC_ID: |
| + runrec=(RUNREC *) (&buf[0]); |
| + printf("RUNREC RECID = %u\n",hdr[0]); |
| + printf("RUNREC Length = %u\n",hdr[1]); |
| + printf("RUNREC File version = %u\n",hdr[2]); |
| + |
| + printf("RUNREC Time = %u\n",hdr[3]); |
| + printf("Number of events per step = %u\n",runrec->num_events); |
| + printf("Number of channels measured = %u\n",runrec->num_channels); |
| + printf("Pedestal = %u\n",runrec->pedestal); |
| + printf("Scan type = %u :: 0 -> single data scan :: 1 -> XY position scan\n",runrec->xy); |
| + printf("Number of steps in X = %d\n",runrec->nx); |
| + printf("Start position X = %d\n",runrec->x0); |
| + printf("Step size direction X = %d\n",runrec->dx); |
| + printf("Number of steps in Y = %d\n",runrec->ny); |
| + printf("Start position Y = %d\n",runrec->y0); |
| + printf("Step size direction Y = %d\n",runrec->dy); |
| + |
| + break; |
| + case POSREC_ID: |
| + posrec=(POSREC *) (&buf[0]); |
| + printf("POSREC nx=%d , posx=%d setx=%d posy=%d sety=%d angle(deg)= %3.2f \n",n,posrec->mikro_pos_x,posrec->set_pos_x,posrec->mikro_pos_y,posrec->set_pos_y, posrec->set_pos_x*360./NSTEPS); |
| + m_rotation = posrec->set_pos_x*2*TMath::Pi()/NSTEPS; |
| + break; |
| + case EVTREC_ID: |
| + break; |
| + |
| + } |
| + |
| + if (recid!=EVTREC_ID) continue; |
| + if (nread++==nevetoprocess) break; |
| + int idx=1; |
| + int neve=buf[0]/2; |
| + //++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ |
| + for (int nev=0;nev<neve;nev++){ |
| + int len=buf[idx]; |
| + int sb =buf[idx+1]; |
| + unsigned int *pbuf=&buf[idx+2]; |
| + if (sb!=0xffab) { |
| + printf("0x%04x!0xffab len=%d\n",sb,len); |
| + break; |
| + } |
| + // postavi na nic |
| +#define InitArrayWithAValue(arr,n,x) {for (int i=0;i<n;i++) arr[i]=x;} |
| + InitArrayWithAValue( gSum , 4 , 0); |
| + InitArrayWithAValue( gRawSum , 4 , 0); |
| + InitArrayWithAValue( gMax , 4 , 0); |
| + InitArrayWithAValue( gSumCluster, 4 , 0); |
| + InitArrayWithAValue( gNabove , 4 , 0); |
| + InitArrayWithAValue( gData , MAXCH, 0); |
| + InitArrayWithAValue( gAdc , MAXCH, 0); |
| + //------------------------------------------------------------ |
| + for (int i0=0;i0<len-2;i0+=2) { |
| + |
| + int data0 = pbuf[i0]; |
| + int data1 = pbuf[i0+1]; |
| + int geo = (data1 >> 11) & 0x1f; |
| + int ch = (data1&0x1f) | (geo<<5); |
| + int dtype = (data1>>9)&0x3; |
| + int adc = data0&0xfff; |
| + |
| + switch (dtype) { |
| + case 0x0: |
| + if (ch<MAXCH) { |
| + m_Adc[ch]->Fill(adc); |
| + |
| + int ipmt = ch/16; |
| + |
| + gAdc[ch]=adc; |
| + gRawSum[ipmt]+=adc; |
| + |
| + if (ch<64) gData[ch]=m_geo->GetEnergy(ch,adc); else gData[ch]=adc; |
| + |
| + gSum[ipmt]+=gData[ch]; |
| + if (gData[ch] >gMax[ipmt] ) gMax[ipmt]= gData[ch]; |
| + if (gData[ch] >m_threshold ) gNabove[ipmt]++; |
| + } |
| + break; |
| + case 0x10: |
| + case 0x11: |
| + case 0x01: |
| + break; |
| + } |
| + |
| + };// for (int i0=0;i0<len-2;i0+=2) |
| + //------------------------------------------------------------ |
| + |
| + idx+=len+1; |
| + FillHistograms(); |
| + } // for (int nev=0;nev<neve;nev++) |
| + //++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ |
| + } // while (!gzeof(fp) ) |
| + gzclose(fp); |
| + delete buf; |
| + return nr; |
| + } |
| + |
| + readdata(const char *fnameconfig, std::vector<TString> &fnamein, const char *fnameout, int write2root=0, int nevetoread=-1, int debug=0 ){ |
| + m_debug = debug; |
| + m_write = write2root; |
| + m_neve = nevetoread; |
| + |
| + m_geo = new Geometry(fnameconfig,m_debug); |
| + m_threshold=m_geo->GetThreshold(); |
| + |
| + char rootname[0xFF]; sprintf(rootname,"%s.root",fnameout); |
| + TFile *rootFile = new TFile(rootname,"RECREATE"); |
| + Initialize(); |
| + printf("Konec inicializacije ...\n"); |
| + |
| + m_projector=PETProjDataMgr::GetInstance(); |
| + m_projector->SetDebug(m_debug); |
| + m_projector->SetRingDiameter(2*m_geo->module[0].r); |
| + m_projector->SetFilename(fnameout); |
| + |
| + m_coincidences=0; |
| + |
| + int nr = 0; |
| + for (unsigned int i=0;i< fnamein.size() ;i++) { |
| + int neve = m_neve -nr; |
| + if (m_neve == -1) nr += Process(fnamein[i].Data(), m_neve); |
| + else if (neve>0) nr += Process(fnamein[i].Data(), neve); |
| + } |
| + printf("End...\nreaddata::Number of events read=%d\nreaddata::Number of coincidences=%d\n",nr,m_coincidences); |
| + |
| + m_projector->WriteInterfile(); |
| + rootFile->Write(); |
| + rootFile->Close(); |
| + } |
| + |
| + ~readdata(){ |
| + if (m_geo) delete m_geo; |
| + }; |
| + |
| +}; |
| + |
| +#ifdef MAIN |
| + |
| + |
| +int main(int argc, char **argv){ |
| + |
| + std::cout << "Usage:" << argv[0] << " -c config.xml -i input.dat -o output -n nevents -w writentuple -d debuglevel "<< std::endl; |
| + //----------------------------------------------------------------- |
| + char configfile[256]="ini/config.xml"; |
| + char outputfile[256]="/tmp/petfmf"; |
| + int nevetoread =-1; |
| + int writentuple =0; |
| + int verbose =0; |
| + char c; |
| + |
| + std::vector<TString> inputfilelist; |
| + while ((c=getopt (argc, argv, "c:i:o:n:w:d:")) != -1){ |
| + switch(c){ |
| + case 'c': sprintf(configfile,"%s",optarg); break; |
| + case 'i': inputfilelist.push_back(TString(optarg)); break; |
| + case 'o': sprintf(outputfile,"%s",optarg); break; |
| + case 'n': nevetoread = atoi(optarg) ; break; |
| + case 'w': writentuple = atoi(optarg); break; |
| + case 'd': verbose = atoi(optarg); break; |
| + default: abort(); |
| + } |
| + } |
| + std::cout << "Used: " << argv[0] << " -c " << configfile << " -o " << outputfile << " -n " << nevetoread << " -w " << writentuple << " -d " << verbose ; |
| + for (unsigned int i=0;i< inputfilelist.size() ;i++) std::cout << " -i " << inputfilelist[i]; |
| + std::cout << std::endl; |
| + //----------------------------------------------------------------- |
| + new readdata(configfile, inputfilelist,outputfile, writentuple, nevetoread, verbose); |
| + |
| + std::cout << "Output data files " << outputfile << std::endl; |
| + return 0; |
| +} |
| + |
| +#endif |
| Index: petrecofmf/FBP2D.sh |
| =================================================================== |
| --- petrecofmf/FBP2D.sh (nonexistent) |
| +++ petrecofmf/FBP2D.sh (revision 113) |
| @@ -0,0 +1,58 @@ |
| +#!/bin/bash |
| +# |
| +export STIRPATH=~rok/pet/reco/STIR2.1/STIR |
| +# |
| +export PATH=$PATH:$STIRPATH/bin |
| +EXE=FBP2D |
| +IMAGEVIEW=manip_image |
| +HVNAME=$2.hv |
| + |
| +TEMPFILE=`tempfile` |
| +rm -f $TEMPFILE |
| +echo -n "fbp2dparameters := |
| + |
| +input file := $1 |
| +output filename prefix := $2 |
| + |
| +;input file := sino3D.hs |
| +;output filename prefix := output |
| + |
| + |
| +; output image parameters |
| +; zoom defaults to 1 |
| +zoom := 1 |
| +; image size defaults to whole FOV |
| +; ;;;;;;;; zakomentirano 8.1.2013 xy output image size (in pixels) := 100 |
| +xy output image size (in pixels) := 200 |
| + |
| +; can be used to call SSRB first |
| +; default means: call SSRB only if no axial compression is already present |
| +;num segments to combine with ssrb := -1 |
| + |
| +; filter parameters, default to pure ramp |
| +alpha parameter for ramp filter := 0.5 |
| +cut-off for ramp filter (in cycles) := 0.3 |
| + |
| +; allow less padding. DO NOT USE |
| +; (unless you're sure that the object occupies only half the FOV) |
| +;Transaxial extension for FFT:=1 |
| + |
| +; back projector that could be used (defaults to interpolating backprojector) |
| +; Back projector type:= some type |
| + |
| +; display data during processing for debugging purposes |
| +Display level := 1 |
| +end := |
| +" >> $TEMPFILE |
| + |
| +echo $EXE $TEMPFILE |
| +$EXE $TEMPFILE |
| + |
| + |
| +$IMAGEVIEW $HVNAME |
| +root src/sinoread.cxx+\(\"$HVNAME\",\"colz\"\) |
| + |
| +echo "za ponovni ogled slike" |
| +echo $IMAGEVIEW $HVNAME |
| +echo ali |
| +echo root src/sinoread.cxx+\(\"$HVNAME\",\"colz\"\) |
| /petrecofmf/FBP2D.sh |
|---|
| Property changes: |
| Added: svn:executable |
| Index: petrecofmf/xpath2.c |
| =================================================================== |
| --- petrecofmf/xpath2.c (nonexistent) |
| +++ petrecofmf/xpath2.c (revision 113) |
| @@ -0,0 +1,139 @@ |
| +/* |
| + |
| +xpath2 ini/config.xml '//anode' |
| + |
| + * section: XPath |
| + * synopsis: Load a document, locate subelements with XPath, |
| + * usage: xpath2 <xml-file> <xpath-expr> |
| + * test: xpath2 test3.xml '//discarded' |
| + */ |
| +#include <stdlib.h> |
| +#include <stdio.h> |
| +#include <string.h> |
| +#include <assert.h> |
| +#include <vector> |
| + |
| +#include <libxml/tree.h> |
| +#include <libxml/parser.h> |
| +#include <libxml/xpath.h> |
| +#include <libxml/xpathInternals.h> |
| + |
| +#if defined(LIBXML_XPATH_ENABLED) && defined(LIBXML_SAX1_ENABLED) && \ |
| + defined(LIBXML_OUTPUT_ENABLED) |
| + |
| + |
| + |
| +static int getvalue(xmlXPathContextPtr xpathCtx, const xmlChar * xpathExpr, std::vector <xmlChar *> &retval); |
| +static xmlChar * getvalue(xmlXPathContextPtr xpathCtx, const xmlChar * xpathExpr, int which=0); |
| + |
| + |
| +int |
| +main(int argc, char **argv) { |
| + std::vector<xmlChar *> retval; |
| + xmlDocPtr doc; |
| + xmlXPathContextPtr xpathCtx; |
| + int size; |
| + |
| + xmlInitParser(); |
| + LIBXML_TEST_VERSION |
| + |
| + /* Load XML document */ |
| + doc = xmlParseFile(argv[1]); |
| + if (doc == NULL) { |
| + fprintf(stderr, "Error: unable to parse file \"%s\"\n", argv[1]); |
| + return(-1); |
| + } |
| + |
| + /* Create xpath evaluation context */ |
| + xpathCtx = xmlXPathNewContext(doc); |
| + if(xpathCtx == NULL) { |
| + fprintf(stderr,"Error: unable to create new XPath context\n"); |
| + xmlFreeDoc(doc); |
| + return(-1); |
| + } |
| + |
| + for (int i=2; i<argc;i++){ |
| + size = getvalue(xpathCtx, BAD_CAST argv[i] , retval); |
| + printf ("-->size = %d value %s\n",size, getvalue(xpathCtx, BAD_CAST argv[i]) ); |
| + } |
| + |
| + xmlXPathFreeContext(xpathCtx); |
| + xmlFreeDoc(doc); |
| + xmlCleanupParser(); |
| + xmlMemoryDump(); |
| + return 0; |
| +} |
| + |
| + |
| +/** |
| + * getvalue: |
| + * @xpathCtx: the input xmlXPathContextPtr |
| + * @xpathExpr: the xpath expression for evaluation. |
| + * |
| + * evaluates XPath expression |
| + * |
| + * Returns node content |
| + */ |
| +int getvalue(xmlXPathContextPtr xpathCtx, const xmlChar* xpathExpr, std::vector<xmlChar *> &retval) { |
| + |
| + xmlXPathObjectPtr xpathObj; |
| + xmlNodeSetPtr nodes; |
| + xmlChar * ret=NULL; |
| + int size; |
| + int i; |
| + assert(xpathExpr); |
| + /* Evaluate xpath expression */ |
| + xpathObj = xmlXPathEvalExpression(xpathExpr, xpathCtx); |
| + if(xpathObj == NULL) { |
| + fprintf(stderr,"Error: unable to evaluate xpath expression \"%s\"\n", xpathExpr); |
| + return retval.size(); |
| + } |
| + |
| + nodes = xpathObj->nodesetval; |
| + size = (nodes) ? nodes->nodeNr : 0; |
| + for(i = 0; i< size; i++) { |
| + ret = xmlNodeGetContent(nodes->nodeTab[i]); |
| + if(ret) { |
| + retval.push_back(ret); |
| + printf("[%d] %s Return value: %s\n", i, xpathExpr, ret); |
| + } |
| + } |
| + |
| + /* Cleanup of XPath data */ |
| + xmlXPathFreeObject(xpathObj); |
| + |
| + return retval.size(); |
| +} |
| + |
| +xmlChar * getvalue(xmlXPathContextPtr xpathCtx, const xmlChar* xpathExpr, int which) { |
| + |
| + xmlXPathObjectPtr xpathObj; |
| + xmlNodeSetPtr nodes; |
| + xmlChar * ret=NULL; |
| + int size; |
| + int i; |
| + assert(xpathExpr); |
| + /* Evaluate xpath expression */ |
| + xpathObj = xmlXPathEvalExpression(xpathExpr, xpathCtx); |
| + if(xpathObj == NULL) { |
| + fprintf(stderr,"Error: unable to evaluate xpath expression \"%s\"\n", xpathExpr); |
| + return NULL; |
| + } |
| + |
| + nodes = xpathObj->nodesetval; |
| + size = (nodes) ? nodes->nodeNr : 0; |
| + for(i = 0; i< size; i++) { |
| + ret = xmlNodeGetContent(nodes->nodeTab[i]); |
| + if(ret) { |
| + printf("%s Return value: %s\n", xpathExpr, ret); |
| + return ret; |
| + } |
| + } |
| + |
| + /* Cleanup of XPath data */ |
| + xmlXPathFreeObject(xpathObj); |
| + |
| + return NULL; |
| +} |
| + |
| +#endif |
| Index: petrecofmf/fotovrh.cxx |
| =================================================================== |
| --- petrecofmf/fotovrh.cxx (nonexistent) |
| +++ petrecofmf/fotovrh.cxx (revision 113) |
| @@ -0,0 +1,63 @@ |
| +/* |
| + |
| +Skripta za kalibracijo visine fotovrhov |
| +Vhod: histogrami ADC vs sum |
| + |
| +Navodilo: |
| +1.klikni na GCUT toolbar |
| +2. poklikaj najvisji fotovrh v vsakem od histogramov . klikajh v vrstnem redu hoistogramov. |
| +3. zakljuci na zadnjem vrhu tako, da se enkrat kliknes na isto tocko |
| +4. ponovi vse za vse 4 fotopomnozevalke |
| + |
| +Izhod: Datoteka z visinami fotovrhov po kanalih |
| + |
| + .x fotovrh.cxx("fmfpet.root") |
| + |
| +*/ |
| + |
| +int fotovrh(char *fname, float max=100){ |
| + |
| +char cmd[256]; |
| +TFile *f= new TFile(fname); |
| + |
| +FILE *fp= fopen("fotovrh.dat","w"); |
| +if (!fp) return 0; |
| +for (int ipmt=0;ipmt<4;ipmt++){ |
| + sprintf(cmd,"c%d",ipmt); |
| + TCanvas *c= new TCanvas(cmd,cmd,1500,1000); |
| + |
| + c->ToggleToolBar(); |
| + c->Divide(4,4); |
| + |
| + for (int ch=0;ch<16;ch++){ |
| + c->cd(ch+1); |
| + sprintf(cmd,"adcvssumch%d",ipmt*16+ch); |
| + TH2 *h = (TH2 *) f->Get(cmd); |
| + if (!h) { |
| + cout << "Histogram not found " << cmd << endl; |
| + continue; |
| + } else { |
| + if (max>0) h->SetMaximum(max); |
| + h->Draw("colz"); |
| + } |
| + } |
| + |
| + c->WaitPrimitive("CUTG"); |
| + TCutG *mycutg = (TCutG*)gROOT->GetListOfSpecials()->FindObject("CUTG"); |
| + if (mycutg) { |
| + sprintf(cmd,"cutg%d",ipmt); |
| + mycutg->SetName(cmd); |
| + mycutg->Print(); |
| + int n= mycutg->GetN(); |
| + double x,y; |
| + for (int k=0;k<n-1;k++){ |
| + mycutg->GetPoint(k, x, y); |
| + printf("%d %f\n",k+ipmt*16,x); |
| + fprintf(fp,"%d %f\n",k+ipmt*16,x); |
| + } |
| + } |
| + |
| +} |
| +fclose(fp); |
| +return 0; |
| +} |
| Index: petrecofmf/calibration.cxx |
| =================================================================== |
| --- petrecofmf/calibration.cxx (nonexistent) |
| +++ petrecofmf/calibration.cxx (revision 113) |
| @@ -0,0 +1,77 @@ |
| +/* |
| + |
| +Skripta za kalibracijo pozicije kanalov |
| +Vhod: histogrami utezenih pozicij |
| + |
| +Navodilo: |
| +1.klikni na GCUT toolbar |
| +2.poklikaj vrhove vseh kristalov po vrstnem redu zgoraj levo->zgoraj desno ->spodaj desno |
| +3. zakljuci na zadnjem vrhu tako, da se enkrat kliknes na isto tocko |
| + |
| +Izhod: Datoteka s kalibracijskimi histogrami, kjer je st. entrijev enako stevilki kanala |
| + |
| + .x calibration.cxx("/tmp/pet.root","calibration.root") |
| + |
| +*/ |
| + |
| +int calibration(char *fname, char* fout){ |
| + |
| +char cmd[256]; |
| +TFile *f= new TFile(fname); |
| +TFile *fnew= new TFile(fout,"RECREATE"); |
| +for (int ii=0;ii<4;ii++){ |
| + sprintf(cmd,"c%d",ii); |
| + TCanvas *c= new TCanvas(cmd,cmd,1500,1000); |
| + sprintf(cmd,"pmt1%d",ii); |
| + TH2 *h = (TH2 *) f->Get(cmd); |
| + if (!h) { |
| + cout << "Histogram not found " << cmd << endl; |
| + continue; |
| + } else { |
| + |
| + } |
| + c->ToggleToolBar(); |
| + c->Divide(2,1); |
| + c->cd(1); |
| + h->Draw("colz"); |
| + sprintf(cmd,"pmt1%d_calib",ii); |
| + TH2F *h1= h->Clone(cmd); |
| + h1->Reset(); |
| + |
| + c->WaitPrimitive("CUTG"); |
| + TCutG *mycutg = (TCutG*)gROOT->GetListOfSpecials()->FindObject("CUTG"); |
| + if (mycutg) { |
| + sprintf(cmd,"cutg%d",ii); |
| + mycutg->SetName(cmd); |
| + mycutg->Print(); |
| + int n= mycutg->GetN(); |
| + double x,y; |
| + TAxis *xaxis = h1->GetXaxis(); |
| + TAxis *yaxis = h1->GetYaxis(); |
| + for (int i=0; i < xaxis->GetNbins();i++){ |
| + double x0=yaxis->GetBinCenter(i+1); |
| + for (int j=0; j < yaxis->GetNbins();j++){ |
| + double y0=yaxis->GetBinCenter(j+1); |
| + double rmin=1e10; |
| + int w=-1; |
| + for (int k=0;k<n;k++){ |
| + mycutg->GetPoint(k, x, y); |
| + double r2 = (x0-x)*(x0-x)+(y0-y)*(y0-y); |
| + if (r2<rmin || k==0 ) { |
| + w=k; |
| + rmin=r2; |
| + } |
| + |
| + } |
| + h1->Fill(x0,y0,w); |
| + } |
| + } |
| + c->cd(2); |
| + h1->Draw("colz"); |
| + h->Write(); |
| + mycutg->Write(); |
| + } |
| +} |
| +fnew->Write(); |
| +return 0; |
| +} |
| Index: petrecofmf/PETProjDataMgr.h |
| =================================================================== |
| --- petrecofmf/PETProjDataMgr.h (nonexistent) |
| +++ petrecofmf/PETProjDataMgr.h (revision 113) |
| @@ -0,0 +1,120 @@ |
| +// |
| +// ******************************************************************** |
| +// * License and Disclaimer * |
| +// * * |
| +// * The GAMOS software is copyright of the Copyright Holders of * |
| +// * the GAMOS Collaboration. It is provided under the terms and * |
| +// * conditions of the GAMOS Software License, included in the file * |
| +// * LICENSE and available at http://fismed.ciemat.es/GAMOS/license .* |
| +// * These include a list of copyright holders. * |
| +// * * |
| +// * Neither the authors of this software system, nor their employing * |
| +// * institutes,nor the agencies providing financial support for this * |
| +// * work make any representation or warranty, express or implied, * |
| +// * regarding this software system or assume any liability for its * |
| +// * use. Please see the license in the file LICENSE and URL above * |
| +// * for the full disclaimer and the limitation of liability. * |
| +// * * |
| +// * This code implementation is the result of the scientific and * |
| +// * technical work of the GAMOS collaboration. * |
| +// * By using, copying, modifying or distributing the software (or * |
| +// * any work based on the software) you agree to acknowledge its * |
| +// * use in resulting scientific publications, and indicate your * |
| +// * acceptance of all terms of the GAMOS Software license. * |
| +// ******************************************************************** |
| +// |
| + |
| +#ifndef PETProjDataMgr_h |
| +#define PETProjDataMgr_h |
| + |
| +/*--------------------------------------------------------------------------- |
| +ClassName: PETProjDataMgr |
| +Author: M. Canadas, P. Arce |
| +Changes: 01/11: creation |
| + |
| +------------------------------------------------------------------------- |
| +// Description |
| + |
| + PET output (List-mode X Y Z) into projection data (sinograms). |
| + |
| + Output data: Sinograms for PET image reconstruction. Interfile format, STIR compatible (.hs/.s), |
| + STIR Software for Tomographic Image Reconstruction: http://stir.sourceforge.net/main.htm |
| + |
| +-----------------------------------------------------------------------*/ |
| + |
| +#include <iostream> |
| +#include "TVector3.h" |
| +class TH2F; |
| + |
| +//#include <math.h> |
| +#include <map> |
| +#include <vector> |
| +#include <set> |
| +#include <string> |
| + |
| +class TH1; |
| +class TH2F; |
| +class TH3F; |
| +class TRandom3; |
| + |
| + typedef unsigned short SINO_TYPE; //!!NOTE: Check "Write_sino3D" (.hv file) if SINO_TYPE changes !! |
| + |
| +//------------------------------------------------------------------------ |
| +class PETProjDataMgr |
| +{ |
| + private: |
| + PETProjDataMgr(); |
| + int m_Debug; |
| + public: |
| + ~PETProjDataMgr(); |
| + |
| + //! Get the only instance |
| + static PETProjDataMgr* GetInstance(); |
| + void AddEvent(const TVector3& pos1, const TVector3& pos2); |
| + //void ReadFile(); |
| + //PETOutput ReadEvent( G4bool& bEof ); |
| + void SetProjection(int axialplane, TH2F*h); |
| + void WriteInterfile(); |
| + void SetNPlanes(int n){m_NOfPlanes=n;}; |
| + void SetNBin(int n){m_NOfBins=n;}; |
| + void SetNAng(int n){m_NOfAngles=n;}; |
| + void SetDebug(int n){m_Debug=n;}; |
| + void SetNumberOfChannels(int n){m_nch=n;}; |
| + void SetFilename( const char *fname){ m_Filename= TString(fname); }; |
| + void SetRingDiameter( double x){ m_RingDiameter = x; }; |
| + void SetAxialDistance( double x){ m_AxialDistance = x; }; |
| + TH2F *Phantom(int kaj); |
| + int FwdProject(TH2F *img, TH2F *h=NULL); |
| + int FwdProject(TH3F *img, TH3F *h=NULL); |
| + |
| + int FwdProject(double x,double y, double z, int nmax, TH1 *h=NULL); |
| + TVector3 Hits2Digits(const TVector3 &r); |
| + |
| +private: |
| + static PETProjDataMgr* m_Instance; |
| + |
| + double m_AxialDistance; |
| + double m_RingDiameter; |
| + int m_NOfPlanes; |
| + int m_NOfBins; |
| + int m_NOfAngles; |
| + int m_MaxRingDifference; |
| + int m_OutFormat; |
| + int m_nch; |
| + int m_TotalAxialPlanes; |
| + TString m_Filename; |
| + TRandom3 * m_rnd; |
| + //G4bool bDumpCout; |
| + |
| + SINO_TYPE ***m_projections; |
| + SINO_TYPE *m_Buffer; |
| + |
| + unsigned long int m_TotalCoincidences; |
| + unsigned long int m_TotalProjectionCoincidences; |
| + |
| + |
| + FILE *fp; |
| +}; |
| + |
| +#endif |
| + |