void writeARMap(ColorMap*& map, const string& filename, const vector<EUVImage*>& images, ParameterSection& parameters, bool compressed)
{
/*! Clean everything above the radius */
map->nullifyAboveRadius(1.);
/*! We get the map of aggregated AR */
ColorMap* aggregatedMap = parameters["projection"].is_set() ? getAggregatedARMap(map, parameters["cleaning"], parameters["aggregation"], parameters["projection"]) : getAggregatedARMap(map, parameters["cleaning"], parameters["aggregation"], "none");
if(parameters["aggregated"])
{
delete map;
map = aggregatedMap;
}
else
{
/*! Color the pixels using the aggregated map */
for (unsigned j = 0; j < aggregatedMap->NumberPixels(); ++j)
{
if(map->pixel(j) == 1)
{
map->pixel(j) = aggregatedMap->pixel(j);
}
}
}
#if defined DEBUG
map->writeFits(filenamePrefix + "all.fits");
#endif
/*! Erase the small regions */
if(parameters["useRawArea"])
map->thresholdRegionsByRawArea(parameters["minimalSize"]);
else
map->thresholdRegionsByRealArea(parameters["minimalSize"]);
#if defined DEBUG
map->writeFits(filenamePrefix + "large.fits");
#endif
/*! We write the map of AR to the fits file */
FitsFile file(filename, FitsFile::overwrite);
map->writeFits(file, compressed ? FitsFile::compress : 0, "ActiveRegionMap");
/*! We write some info about the map creation */
Header header = map->getHeader();
fillHeaderAR(header, parameters);
file.writeHeader(header);
/*! We get the regions */
vector<Region*> regions = getRegions(map);
/*! We write the regions to the fits file */
file.writeTable("Regions");
writeRegions(file, regions);
/*! We get the chaincode and write them to the fits file */
if(parameters["chaincodeMaxPoints"].as<int>() > 0)
{
#if defined DEBUG
ColorMap chaincode_map(map);
#endif
file.writeTable("ChainCodes");
for (unsigned r = 0; r < regions.size(); ++r)
{
vector<PixLoc> chaincode = regions[r]->chainCode(aggregatedMap, parameters["chaincodeMinPoints"], parameters["chaincodeMaxPoints"], parameters["chaincodeMaxDeviation"]);
file.writeColumn(toString(regions[r]->Id(),7), chaincode);
#if defined DEBUG
for (unsigned c = 0; c < chaincode.size(); ++c)
{
chaincode_map.drawCircle(chaincode[c], 3, r+10);
}
#endif
}
#if defined DEBUG
chaincode_map.writeFits(filenamePrefix + "chaincodes.fits");
#endif
}
/*! We write intensities statistics relative to image */
for(unsigned i = 0; i < images.size(); ++i)
{
EUVImage* image = images[i];
/*! We get the stats of the AR */
vector<RegionStats*> regions_stats = getRegionStats(map, image, regions);
/*! We write the AR Stats into the fits */
file.writeTable(image->Channel()+"_ActiveRegionStats");
writeRegions(file, regions_stats);
/*! We write some info about the image in the header of the table */
Header tableHeader;
tableHeader.set("CHANNEL", image->Channel(), "Channel of the intensity image.");
tableHeader.set("WAVELNTH", image->Wavelength(), "Wavelength of the intensity image.");
tableHeader.set("DATE-OBS", image->ObservationDate(), "Observation Date of the intensity image.");
tableHeader.set("INSTRUME", image->Instrument(), "Instrument of the intensity image.");
const Header& imageHeader = image->getHeader();
if(imageHeader.has("LVL_NUM"))
tableHeader.set("LVL_NUM", imageHeader.get<float>("LVL_NUM"), "Level number of the intensity image.");
if(imageHeader.has("DATE"))
tableHeader.set("DATE", imageHeader.get<string>("DATE"), "Creation date of the intensity image.");
if(imageHeader.has("QUALITY"))
tableHeader.set("QUALITY", imageHeader.get<unsigned>("QUALITY"), "Quality level of the intensity image.");
file.writeHeader(tableHeader);
#if defined VERBOSE
cout<<"ActiveRegionStats Table"<<endl;
if(regions_stats.size() > 0)
cout<<regions_stats[0]->toString("|", true)<<endl;
else
cout<<"Empty"<<endl;
for (unsigned r = 0; r < regions_stats.size(); ++r)
{
cout<<regions_stats[r]->toString("|")<<endl;
}
#endif
for (unsigned r = 0; r < regions_stats.size(); ++r)
{
delete regions_stats[r];
}
}
/*! We cleanup */
for (unsigned r = 0; r < regions.size(); ++r)
{
delete regions[r];
}
if(map != aggregatedMap)
delete aggregatedMap;
}
