source: trunk/src/ScantableWrapper.h@ 2897

//
// C++ Interface: Scantable
//
// Description:
//
//
// Author: Malte Marquarding <asap@atnf.csiro.au>, (C) 2006
//
// Copyright: See COPYING file that comes with this distribution
//
//
#ifndef ASAPSCANTABLEWRAPPER_H
#define ASAPSCANTABLEWRAPPER_H

#include <iostream>
#include <string>
#include <vector>

#include <casa/Arrays/Vector.h>

#include "MathUtils.h"
#include "Scantable.h"
#include "STCoordinate.h"
#include "STFit.h"
#include "STFitEntry.h"

namespace asap {
/**
  * This class contains and wraps a CountedPtr<Scantable>, as the CountedPtr
  * class does not provide the dor operator which is need for references
  * in boost::python
  * see Scantable for interfce description
  *
  * @brief The main ASAP data container wrapper
  * @author Malte Marquarding
  * @date 2006-02-23
  * @version 2.0a
*/
class ScantableWrapper {

public:
  explicit ScantableWrapper( const std::string& name,
                    int type=0)
  {
    casa::Table::TableType tp = casa::Table::Memory;
    if ( type == 1 ) tp = casa::Table::Plain;
    table_ = new Scantable(name, tp);
  }

  explicit ScantableWrapper(int type=0)
  {
    casa::Table::TableType tp = casa::Table::Memory;
    if ( type == 1) tp = casa::Table::Plain;
    table_= new Scantable(tp);
  }

  explicit ScantableWrapper(casa::CountedPtr<Scantable> cp) : table_(cp) {;}

  ScantableWrapper(const ScantableWrapper& mt) :
    table_(mt.getCP()) {;}

  ~ScantableWrapper()
  {
  }

  void assign(const ScantableWrapper& mt)
    { table_= mt.getCP(); }

  ScantableWrapper copy() {
    return ScantableWrapper(new Scantable(*(this->getCP()), false));
  }

  std::vector<float> getSpectrum( int whichrow=0,
                                  const std::string& poltype="" ) const {
    return table_->getSpectrum(whichrow, poltype);
  }
  //  std::string getPolarizationLabel(bool linear, bool stokes, bool linPol, int polIdx) const {
  // Boost fails with 4 arguments.
  std::string getPolarizationLabel(int index, const std::string& ptype) const {
    return table_->getPolarizationLabel(index, ptype);
  }

  std::vector<double> getAbcissa(int whichrow=0) const
    { return table_->getAbcissa(whichrow); }

  std::string getAbcissaLabel(int whichrow=0) const
    { return table_->getAbcissaLabel(whichrow); }

  float getTsys(int whichrow=0) const
    { return table_->getTsys(whichrow); }

  std::vector<float> getTsysSpectrum(int whichrow=0) const
    { return table_->getTsysSpectrum(whichrow); }

  void setTsys(const std::vector<float>& newvals, int whichrow=-1)
  { return table_->setTsys(newvals, whichrow); }

  //std::string getTime(int whichrow=0) const
  //  { return table_->getTime(whichrow); }
  std::string getTime(int whichrow=0, int prec = 0) const
    { return table_->getTime(whichrow, true, casa::uInt(prec)); }

  double getIntTime(int whichrow=0) const
    { return table_->getIntTime(whichrow); }

  std::string getDirectionString(int whichrow=0) const
    { return table_->getDirectionString(whichrow); }

  std::string getFluxUnit() const { return table_->getFluxUnit(); }

  void setFluxUnit(const std::string& unit) { table_->setFluxUnit(unit); }

  void setInstrument(const std::string& name) {table_->setInstrument(name);}
  void setFeedType(const std::string& ftype) {table_->setFeedType(ftype);}

  std::vector<bool> getMask(int whichrow=0) const
    { return table_->getMask(whichrow); }

  /**
  void flag(const std::vector<bool>& msk=std::vector<bool>())
    { table_->flag(msk); }
  **/
  /**
  void flag(const std::vector<bool>& msk=std::vector<bool>(), bool unflag=false)
    { table_->flag(msk, unflag); }
  **/
  void flag(int whichrow=-1, const std::vector<bool>& msk=std::vector<bool>(), bool unflag=false)
    { table_->flag(whichrow, msk, unflag); }

  void flagRow(const std::vector<casa::uInt>& rows=std::vector<casa::uInt>(), bool unflag=false)
    { table_->flagRow(rows, unflag); }

  bool getFlagRow(int whichrow=0) const
    { return table_->getFlagRow(whichrow); }

  void clip(const casa::Float uthres, const casa::Float dthres, bool clipoutside=true, bool unflag=false)
    { table_->clip(uthres, dthres, clipoutside, unflag); }

  std::vector<bool> getClipMask(int whichrow, const casa::Float uthres, const casa::Float dthres, bool clipoutside, bool unflag) const
    { return table_->getClipMask(whichrow, uthres, dthres, clipoutside, unflag); }

  std::string getSourceName(int whichrow=0) const
    { return table_->getSourceName(whichrow); }

  float getElevation(int whichrow=0) const
    { return table_->getElevation(whichrow); }

  float getAzimuth(int whichrow=0) const
    { return table_->getAzimuth(whichrow); }

  float getParAngle(int whichrow=0) const
    { return table_->getParAngle(whichrow); }


  void setSpectrum(std::vector<float> spectrum, int whichrow=0)
    { table_->setSpectrum(spectrum, whichrow); }

  std::vector<uint> getIFNos() { return table_->getIFNos(); }
  int getIF(int whichrow) const {return table_->getIF(whichrow);}
  std::vector<uint> getBeamNos() { return table_->getBeamNos(); }
  int getBeam(int whichrow) const {return table_->getBeam(whichrow);}
  std::vector<uint> getPolNos() { return table_->getPolNos(); }
  int getPol(int whichrow) const {return table_->getPol(whichrow);}
  std::vector<uint> getCycleNos() { return table_->getCycleNos(); }
  int getCycle(int whichrow) const {return table_->getCycle(whichrow);}
  std::vector<uint> getScanNos() { return table_->getScanNos(); }
  int getScan(int whichrow) const {return table_->getScan(whichrow);}
  std::vector<uint> getMolNos() { return table_->getMolNos();}

  STSelector getSelection() const { return table_->getSelection(); }
  void setSelection(const STSelector& sts)
    { return table_->setSelection(sts);}

  std::string getPolType() const { return table_->getPolType(); }

  int nif(int scanno=-1) const {return table_->nif(scanno);}
  int nbeam(int scanno=-1) const {return table_->nbeam(scanno);}
  int npol(int scanno=-1) const {return table_->npol(scanno);}
  int nchan(int ifno=-1) const {return table_->nchan(ifno);}
  int nscan() const {return table_->nscan();}
  int nrow() const {return table_->nrow();}
  int ncycle(int scanno) const {return table_->ncycle(scanno);}

  void makePersistent(const std::string& fname)
    { table_->makePersistent(fname); }

  void setSourceType(int stype)
    { table_->setSourceType(stype); }

  void setSourceName(const std::string& name)
    { table_->setSourceName(name); }

  void shift(int npix)
  { table_->shift(npix); }

/**
  commented out by TT
  void setRestFrequencies(double rf, const std::string& name,
                          const std::string& unit)
    { table_->setRestFrequencies(rf, name, unit); }
**/
  void setRestFrequencies(vector<double> rf, const vector<std::string>& name,
                          const std::string& unit)
    { table_->setRestFrequencies(rf, name, unit); }

/*
  void setRestFrequencies(const std::string& name) {
    table_->setRestFrequencies(name);
  }
*/

/*
  std::vector<double> getRestFrequencies() const
    { return table_->getRestFrequencies(); }
*/
  std::vector<double> getRestFrequency(int id) const
    { return table_->getRestFrequency(id); }

  void setCoordInfo(std::vector<string> theinfo) {
    table_->setCoordInfo(theinfo);
  }
  std::vector<string> getCoordInfo() const {
    return table_->getCoordInfo();
  }

  void setDirection(const std::string& refstr="")
    { table_->setDirectionRefString(refstr); }

  casa::CountedPtr<Scantable> getCP() const {return table_;}
  Scantable* getPtr() {return &(*table_);}

  //  std::string summary() const {
  //  return table_->summary();
  //  }
  void summary(const std::string& filename="") {
    //std::string summary(const std::string& filename="") const {
    table_->summary(filename);
  }

  std::string listHeader() const {
    return table_->headerSummary();
  }

  std::vector<std::string> getHistory(int nrow=-1, int start=0) const
    { return table_->getHistory(nrow, start); }

  uint historyLength() {
    return table_->historyLength();
  }

  void dropHistory() { table_->dropHistory(); }

  void addHistory(const std::string& hist)
    { table_->addHistory(hist); }

  void addFit(const STFitEntry& fit, int row)
    { table_->addFit(fit, row); }

  STFitEntry getFit(int whichrow) const
  { return table_->getFit(whichrow); }

  void calculateAZEL() { table_->calculateAZEL(); }

  std::vector<std::string> columnNames() const
    { return table_->columnNames(); }

  std::string getAntennaName() const
    { return table_->getAntennaName(); }

  int checkScanInfo(const vector<int>& scanlist) const
    { return table_->checkScanInfo(scanlist); }
 
  std::vector<double> getDirectionVector(int whichrow) const
    { return table_->getDirectionVector(whichrow); }

  void parallactify(bool flag)
    { table_->parallactify(flag); }

  STCoordinate getCoordinate(int row) {
    return STCoordinate(table_->getSpectralCoordinate(row));
  }

  std::vector<float> getWeather(int whichrow) const
    { return table_->getWeather(whichrow); }

  void reshapeSpectrum( int nmin, int nmax )
  { table_->reshapeSpectrum( nmin, nmax ); }

  void regridSpecChannel( double dnu, int nchan )
  { table_->regridSpecChannel( dnu, nchan ); }

  std::vector<std::string> applyBaselineTable(const std::string& bltable, const bool returnfitresult, const std::string& outbltable, const bool outbltableexists, const bool overwrite)
  { return table_->applyBaselineTable(bltable, returnfitresult, outbltable, outbltableexists, overwrite); }
  std::vector<std::string> subBaseline(const std::vector<std::string>& blinfo, const bool returnfitresult, const std::string& outbltable, const bool outbltableexists, const bool overwrite)
  { return table_->subBaseline(blinfo, returnfitresult, outbltable, outbltableexists, overwrite); }
  void polyBaseline(const std::vector<bool>& mask, int order, float clipthresh, int clipniter, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="")
  { table_->polyBaseline(mask, order, clipthresh, clipniter, getresidual, showprogress, outlog, blfile, bltable); }

  void autoPolyBaseline(const std::vector<bool>& mask, int order, float clipthresh, int clipniter, const std::vector<int>& edge, float threshold=5.0, int chan_avg_limit=1, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="")
  { table_->autoPolyBaseline(mask, order, clipthresh, clipniter, edge, threshold, chan_avg_limit, getresidual, showprogress, outlog, blfile, bltable); }

  void chebyshevBaseline(const std::vector<bool>& mask, int order, float clipthresh, int clipniter, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="")
  { table_->chebyshevBaseline(mask, order, clipthresh, clipniter, getresidual, showprogress, outlog, blfile, bltable); }

  void autoChebyshevBaseline(const std::vector<bool>& mask, int order, float clipthresh, int clipniter, const std::vector<int>& edge, float threshold=5.0, int chan_avg_limit=1, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="")
  { table_->autoChebyshevBaseline(mask, order, clipthresh, clipniter, edge, threshold, chan_avg_limit, getresidual, showprogress, outlog, blfile, bltable); }

  void cubicSplineBaseline(const std::vector<bool>& mask, int npiece, float clipthresh, int clipniter, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="")
  { table_->cubicSplineBaseline(mask, npiece, clipthresh, clipniter, getresidual, showprogress, outlog, blfile, bltable); }

  void autoCubicSplineBaseline(const std::vector<bool>& mask, int npiece, float clipthresh, int clipniter, const std::vector<int>& edge, float threshold=5.0, int chan_avg_limit=1, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="")
  { table_->autoCubicSplineBaseline(mask, npiece, clipthresh, clipniter, edge, threshold, chan_avg_limit, getresidual, showprogress, outlog, blfile, bltable); }

  void sinusoidBaseline(const std::vector<bool>& mask, const std::string& fftinfo, const std::vector<int>& addwn, const std::vector<int>& rejwn, float clipthresh, int clipniter, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="")
  { table_->sinusoidBaseline(mask, fftinfo, addwn, rejwn, clipthresh, clipniter, getresidual, showprogress, outlog, blfile, bltable); }

  void autoSinusoidBaseline(const std::vector<bool>& mask, const std::string& fftinfo, const std::vector<int>& addwn, const std::vector<int>& rejwn, float clipthresh, int clipniter, const std::vector<int>& edge, float threshold=5.0, int chan_avg_limit=1, bool getresidual=true, const std::string& showprogress="true,1000", const bool outlog=false, const std::string& blfile="", const std::string& bltable="")
  { table_->autoSinusoidBaseline(mask, fftinfo, addwn, rejwn, clipthresh, clipniter, edge, threshold, chan_avg_limit, getresidual, showprogress, outlog, blfile, bltable); }

  float getRms(const std::vector<bool>& mask, int whichrow)
  { return table_->getRms(mask, whichrow); }

  std::string formatBaselineParams(const std::vector<float>& params, const std::vector<bool>& fixed, float rms, const std::string& masklist, int whichrow, bool verbose=false, bool csvformat=false)
  { return table_->formatBaselineParams(params, fixed, rms, -1, masklist, whichrow, verbose, csvformat); }

  std::string formatPiecewiseBaselineParams(const std::vector<int>& ranges, const std::vector<float>& params, const std::vector<bool>& fixed, float rms, const std::string& masklist, int whichrow, bool verbose=false, bool csvformat=false)
  { return table_->formatPiecewiseBaselineParams(ranges, params, fixed, rms, -1, masklist, whichrow, verbose, csvformat); }

  bool isAllChannelsFlagged(int whichrow=0) const
  { return table_->isAllChannelsFlagged(casa::uInt(whichrow)); }

  std::vector<float> execFFT(int whichrow, const std::vector<bool>& mask, bool getRealImag=false, bool getAmplitudeOnly=false)
  { return table_->execFFT(whichrow, mask, getRealImag, getAmplitudeOnly); }

  std::vector<uint> getMoleculeIdColumnData() const
  { return table_->getMoleculeIdColumnData(); }
  void setMoleculeIdColumnData(const std::vector<uint>& molids)
  { table_->setMoleculeIdColumnData(molids); }

  std::vector<uint> getRootTableRowNumbers() const
  { return table_->getRootTableRowNumbers(); }

  double calculateModelSelectionCriteria(const std::string& valname, const std::string& blfunc, int order, const std::vector<bool>& inMask, int whichrow, bool useLineFinder, const std::vector<int>& edge, float threshold, int chanAvgLimit)
  { return table_->calculateModelSelectionCriteria(valname, blfunc, order, inMask, whichrow, useLineFinder, edge, threshold, chanAvgLimit); }

  void dropXPol() { table_->dropXPol(); }

private:
  casa::CountedPtr<Scantable> table_;
};

} // namespace
#endif