//                                               -*- C++ -*-
/**
 *  @brief Sample cleaning classes
 *
 *  Copyright 2015-2026 EDF-Phimeca
 *
 *  This library is free software: you can redistribute it and/or modify
 *  it under the terms of the GNU Lesser General Public License as published by
 *  the Free Software Foundation, either version 3 of the License, or
 *  (at your option) any later version.
 *
 *  This library is distributed in the hope that it will be useful,
 *  but WITHOUT ANY WARRANTY; without even the implied warranty of
 *  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 *  GNU Lesser General Public License for more details.
 *
 *  You should have received a copy of the GNU Lesser General Public License
 *  along with this library.  If not, see <http://www.gnu.org/licenses/>.
 *
 */
#include "persalys/DataCleaning.hxx"

using namespace OT;

namespace PERSALYS
{
CLASSNAMEINIT(DataCleaning)

/* Sample-based constructor */
DataCleaning::DataCleaning(const Sample& sample)
  : Object()
  , sample_(sample)
  , median_(sample.getDimension())
  , mean_(sample.getDimension())
  , mad_(sample.getDimension())
  , geomMad_(0)
  , nanFounds_(sample.getDimension())
{
  analyseSample();
}

/* Removes Nans/Infs in sample */
void DataCleaning::removeAllNans()
{
  if(!sample_.getSize())
    return;
  Sample sample(0, sample_.getDimension());
  for(UnsignedInteger i = 0; i < sample_.getSize(); ++i)
  {
    Bool nanFound = false;
    for(UnsignedInteger j = 0; j < sample_.getDimension(); ++j)
    {
      if(!std::isfinite(sample_(i, j)))
      {
        nanFound = true;
        break;
      }
    }
    if(!nanFound)
      sample.add(sample_[i]);
  }
  sample_ = sample;
}

/* Replaces Nans/Infs in sample point by point values*/
void DataCleaning::replaceAllNans(const Point& point)
{
  if(!sample_.getSize())
    return;
  for(UnsignedInteger i = 0; i < sample_.getSize(); ++i)
  {
    for(UnsignedInteger j = 0; j < sample_.getDimension(); ++j)
    {
      if(!std::isfinite(sample_(i, j)))
      {
        sample_(i, j) = point[j];
      }
    }
  }
}

/* Removes Nans/Infs in sample column */
void DataCleaning::removeNansByColumn(const UnsignedInteger col)
{
  if(!sample_.getSize())
    return;
  Sample sample(0, sample_.getDimension());
  for(UnsignedInteger i = 0; i < sample_.getSize(); ++i)
  {
    if(std::isfinite(sample_(i, col)))
    {
      sample.add(sample_[i]);
    }
  }
  sample_ = sample;
}

/* Replaces Nans/Infs in sample column by value */
void DataCleaning::replaceNansByColumn(const UnsignedInteger col, const OT::Scalar& val)
{
  if(!sample_.getSize())
    return;
  for(UnsignedInteger i = 0; i < sample_.getSize(); ++i)
  {
    if(!std::isfinite(sample_(i, col)))
    {
      sample_(i, col) = val;
    }
  }
}

/* Computes sample median absolute deviation */
void DataCleaning::computeMAD()
{
  Sample tmp(sample_.getSize(), sample_.getDimension());
  for(UnsignedInteger i = 0; i < sample_.getSize(); ++i)
    for(UnsignedInteger j = 0; j < sample_.getDimension(); ++j)
      tmp(i, j) = std::abs(sample_(i, j) - median_[j]);
  mad_ = tmp.computeMedian();
}

/* Computes sample geometric median absolute deviation */
void DataCleaning::computeGeometricMAD()
{
  computeMAD();
  geomMad_ = mad_.norm();
}

/* Column by column sample analysis.
   Allows marginals mean/median computation by ignoring Nans/Infs
   Evaluates number of Nans/Infs for each marginal*/
void DataCleaning::analyseSample()
{
  if(!sample_.getSize())
    return;
  for(UnsignedInteger j = 0; j < sample_.getDimension(); ++j)
  {
    Sample sample = sample_.getMarginal(j);
    Sample cleanedSample(0, 1);
    for(UnsignedInteger i = 0; i < sample.getSize(); ++i)
    {
      if(!std::isfinite(sample(i, 0)))
      {
        nanFounds_[j]++;
      }
      else
      {
        cleanedSample.add(Point(1, sample(i, 0)));
      }
    }
    mean_[j] = cleanedSample.computeMean()[0];
    median_[j] = cleanedSample.computeMedian()[0];
  }
}

/* Sample accessor */
Sample DataCleaning::getSample() const
{
  return sample_;
}

/* Median accessor */
Point DataCleaning::getMedian() const
{
  return median_;
}

/* Mean accessor */
Point DataCleaning::getMean() const
{
  return mean_;
}

/* MAD accessor */
Point DataCleaning::getMAD() const
{
  return mad_;
}

/* Geom. MAD accessor */
Scalar DataCleaning::getGeometricMAD() const
{
  return geomMad_;
}

/* Returns number of Nans/Infs in each sample column */
Point DataCleaning::getNanNumbers() const
{
  return nanFounds_;
}
}
