source: trunk/src/STFITSImageWriter.cpp @ 1552

Last change on this file since 1552 was 1552, checked in by Malte Marquarding, 15 years ago

Enhancement Ticket #155; chnaged the wy output filenames are generated.
File size: 9.8 KB
Line 
1//#---------------------------------------------------------------------------
2//# STFITSImageWriter.cc: Class to write out single dish spectra as FITS images
3//#---------------------------------------------------------------------------
4//# Copyright (C) 2008
5//# ATNF
6//#
7//# This program is free software; you can redistribute it and/or modify it
8//# under the terms of the GNU General Public License as published by the Free
9//# Software Foundation; either version 2 of the License, or (at your option)
10//# any later version.
11//#
12//# This program is distributed in the hope that it will be useful, but
13//# WITHOUT ANY WARRANTY; without even the implied warranty of
14//# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU General
15//# Public License for more details.
16//#
17//# You should have received a copy of the GNU General Public License along
18//# with this program; if not, write to the Free Software Foundation, Inc.,
19//# 675 Massachusetts Ave, Cambridge, MA 02139, USA.
20//#
21//# Correspondence concerning this software should be addressed as follows:
22//#        Internet email: Malte.Marquarding@csiro.au
23//#        Postal address: Malte Marquarding,
24//#                        Australia Telescope National Facility,
25//#                        P.O. Box 76,
26//#                        Epping, NSW, 2121,
27//#                        AUSTRALIA
28//#
29//# $Id: $
30//#---------------------------------------------------------------------------
31
32#include <fitsio.h>
33#include <images/Images/TempImage.h>
34
35#include <lattices/Lattices/ArrayLattice.h>
36
37#include <measures/Measures/MEpoch.h>
38#include <measures/Measures/Stokes.h>
39
40#include <tables/Tables/Table.h>
41#include <tables/Tables/TableIter.h>
42#include <tables/Tables/TableRecord.h>
43#include <casa/Containers/RecordField.h>
44#include <tables/Tables/TableRow.h>
45#include <tables/Tables/ScalarColumn.h>
46#include <tables/Tables/ArrayColumn.h>
47
48
49#include <coordinates/Coordinates/CoordinateUtil.h>
50#include <coordinates/Coordinates/CoordinateSystem.h>
51#include <coordinates/Coordinates/SpectralCoordinate.h>
52#include <coordinates/Coordinates/DirectionCoordinate.h>
53#include <coordinates/Coordinates/StokesCoordinate.h>
54#include <coordinates/Coordinates/ObsInfo.h>
55
56#include <images/Images/ImageFITSConverter.h>
57#include <images/Images/TempImage.h>
58
59#include <lattices/Lattices/ArrayLattice.h>
60
61
62//#include "STDefs.h"
63#include "STHeader.h"
64#include "Scantable.h"
65#include "STFITSImageWriter.h"
66
67using namespace casa;
68using namespace asap;
69
70
71STFITSImageWriter::STFITSImageWriter() : isClass_(False)
72{;}
73
74STFITSImageWriter::~STFITSImageWriter()
75{;}
76
77
78Bool STFITSImageWriter::write(const Scantable& stable,
79                              const String& fileName)
80{
81
82// Get global Header from Table
83
84   STHeader hdr = stable.getHeader();
85
86// Column keywords
87
88   Table tab = stable.table();
89
90// Temps
91
92   const Unit RAD(String("rad"));
93
94// Open and write header file
95
96   String rootName(fileName);
97   if (rootName.length()==0) rootName = String("fits");
98   
99   ObsInfo oi;
100   oi.setTelescope(String(hdr.antennaname));
101   oi.setObserver(String(hdr.observer));
102   
103   uInt maxMem = 128;
104   Bool preferVelocity = False;
105   Bool opticalVelocity = False;
106   Int bitPix = -32;                     // FLoating point
107   Float minPix = 1.0;
108   Float maxPix = -1.0;
109   Bool overWrite = True;
110   Bool degLast = False;
111   Bool reallyVerbose = False;
112   String errMsg;
113
114
115  Block<String> cols(5);
116  cols[0] = String("SCANNO");
117  cols[1] = String("CYCLENO");
118  cols[2] = String("BEAMNO");
119  cols[3] = String("IFNO");
120  cols[4] = String("POLNO");
121  TableIterator iter(tab, cols);
122  // Open data file
123
124  while ( !iter.pastEnd() ) {
125    Table t = iter.table();
126    ROTableRow row(t);
127    const TableRecord& rec = row.get(0);
128    String dirtype = stable.getDirectionRefString();
129    ostringstream onstr;
130    if (rootName.length()==0) {
131      rootName = "fits";
132    }
133    if (tab.nrow() > 1) {
134      if (stable.nscan() > 1)
135        onstr << "_SCAN" << rec.asuInt("SCANNO");
136      if (stable.ncycle(rec.asuInt("SCANNO")) > 1)
137        onstr << "_CYCLE" << rec.asuInt("CYCLENO");
138      if (stable.nbeam(rec.asuInt("SCANNO")) > 1)
139        onstr << "_BEAM" << rec.asuInt("BEAMNO");
140      if (stable.nif(rec.asuInt("SCANNO")) > 1)
141        onstr << "_IF" << rec.asuInt("IFNO");
142      if (stable.npol(rec.asuInt("SCANNO")) > 1)
143        onstr << "_POL" << rec.asuInt("POLNO");
144    }
145    String fileName = rootName + String(onstr) + String(".fits");
146    int row0 = t.rowNumbers(tab)[0];
147
148    const MPosition& mp = stable.getAntennaPosition();
149    const MDirection& md = stable.getDirection(row0);
150    const MEpoch& me = stable.getEpoch(row0);
151    oi.setObsDate(me);
152   
153    const Double& rf = 
154      stable.molecules().getRestFrequency(rec.asuInt("MOLECULE_ID") );
155    SpectralCoordinate sC =
156      stable.frequencies().getSpectralCoordinate(md, mp, me, rf,
157                                                 rec.asuInt("FREQ_ID"));
158
159    Int polno = rec.asuInt("POLNO");
160    Stokes::StokesTypes stokes =
161      Stokes::type(stable.getPolarizationLabel(polno, stable.getPolType()));
162    Vector<Int> whichStokes(1);
163    whichStokes(0) = Int(stokes);
164    StokesCoordinate stC(whichStokes);
165
166
167    CoordinateSystem cSys;
168    Vector<Double> lonlat = md.getAngle().getValue();
169    DirectionCoordinate dC =
170      getDirectionCoordinate(stable.getDirectionRefString(),
171                             lonlat[0], lonlat[1]);
172    cSys.addCoordinate(sC);
173    cSys.addCoordinate(dC);
174    cSys.addCoordinate(stC);
175    cSys.setObsInfo(oi);
176   
177    Vector<Float> spec = rec.asArrayFloat("SPECTRA");
178    Vector<uChar> flag = rec.asArrayuChar("FLAGTRA");
179    Vector<Bool> bflag(flag.shape());
180    convertArray(bflag, flag);
181
182    // Create casacore Image
183    IPosition shp(4, 1);
184    shp(0)= spec.nelements();
185    TempImage<Float> tIm(shp, cSys);
186    tIm.put(spec);
187    ArrayLattice<Bool> latMask(shp);
188    IPosition where(4,0);
189    IPosition stride(4,1);
190    latMask.putSlice(!bflag, where, stride);
191    tIm.attachMask(latMask);
192    if (isClass_) {
193      preferVelocity = True;
194    }
195    Bool ok = ImageFITSConverter::ImageToFITS(errMsg, tIm, fileName,
196                                              maxMem, preferVelocity,
197                                              opticalVelocity, bitPix,
198                                              minPix, maxPix, overWrite,
199                                              degLast, reallyVerbose);
200    if (!ok) {
201      throw(AipsError(errMsg));
202    }
203   
204    int status = 0;
205    fitsfile *fptr;     
206    if( fits_open_file(&fptr, fileName.c_str(), READWRITE, &status) )
207      throw AipsError("Coudn't open fits file for modification");
208
209    if (isClass_) {
210      // Add CLASS specific information
211      // Apply hacks to fits file so it can be read by class
212      // modifications are
213      // CTYPE1 :  FREQ-XYZ -> FREQ
214      // CRVAL1 :  -> CRVAL1-RESTFREQ
215     
216      // Use preferVelocity which seems to work.
217      // When no restfrequency is given this will set up the correct
218      // frequency axis. Otherwise it uses a velocity axis
219      char ctyp[84];
220      fits_read_key(fptr, TSTRING, "CTYPE1", ctyp, NULL, &status);
221      if (String(ctyp).contains("FREQ", 0)) {
222        float restf,refval;
223        fits_read_key(fptr, TFLOAT, "CRVAL1",
224                      &refval, NULL, &status);
225        restf = 0.0;
226        if ( fits_update_key(fptr, TFLOAT, "CRVAL1", &restf,
227                             NULL, &status) ) {
228          throw AipsError("Couldn't modify CRVAL1");       
229        }
230        if ( fits_update_key(fptr, TFLOAT, "RESTFREQ", &refval,
231                             NULL, &status) ) {
232          throw AipsError("Couldn't modify RESTFREQ");       
233        }
234      } else {
235        float refval = sC.referenceValue()[0];
236        if ( fits_update_key(fptr, TFLOAT, "RESTFREQ", &refval,
237                             NULL, &status) ) {
238          throw AipsError("Couldn't modify RESTFREQ");       
239        }
240       
241      }
242    }
243
244    Float tsys = stable.getTsys(row0);
245    if ( fits_update_key(fptr, TFLOAT, "TSYS", &tsys,
246                         "System temperature", &status) ) {
247      throw AipsError("Couldn't modify TSYS");       
248    }
249    Float otime = Float(stable.getIntTime(row0));
250    if ( fits_update_key(fptr, TFLOAT, "OBSTIME", &otime,
251                         "Integration time", &status) ) {
252      throw AipsError("Couldn't modify OBSTIME");       
253    }
254   
255    const char* oname = stable.getSourceName(row0).c_str();
256    if ( fits_update_key(fptr, TSTRING, "OBJECT", (char *)oname,
257                         NULL, &status) ) {
258      throw AipsError("Couldn't modify OBJECT");       
259    }
260    Float elev = stable.getElevation(row0)/C::pi*180.0;
261    if ( fits_update_key(fptr, TFLOAT, "ELEVATIO", &elev,
262                         "Telescope elevation (degrees)", &status) ) {
263      throw AipsError("Couldn't modify ELEVATIO");       
264    }
265    Float azi = stable.getAzimuth(row0)/C::pi*180.0;
266    if ( fits_update_key(fptr, TFLOAT, "AZIMUTH", &azi,
267                         "Telescope azimuth (degrees)", &status) ) {
268      throw AipsError("Couldn't modify AZIMUTH");       
269    }
270    fits_close_file(fptr, &status);
271    ostringstream oss;
272    oss << "Wrote " << fileName;
273    pushLog(String(oss)); 
274    //pushLog(String(oss));
275    ++iter;
276  }
277  return True;
278}
279
280DirectionCoordinate
281STFITSImageWriter::getDirectionCoordinate(const String& reff,
282                                          Double lon, Double lat)
283{
284   
285   Projection proj(Projection::SIN);                   // What should we use ?
286   Matrix<Double> xForm(2,2);
287   xForm = 0.0; xForm.diagonal() = 1.0;
288   Vector<Double> incLonLat(2,0.0);
289   Vector<Double> refPixLonLat(2,0.0);
290   MDirection::Types mdt;
291   if (!MDirection::getType(mdt, reff)) {
292     throw(AipsError("Illegal Direction frame."));
293   }
294   return DirectionCoordinate(mdt, proj, lon, lat,
295                              incLonLat[0], incLonLat[1], xForm,
296                              refPixLonLat[0], refPixLonLat[1]);
297   
298}
299
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