/* This file is part of Lemma, a geophysical modelling and inversion API.
 * More information is available at http://lemmasoftware.org
 */

/* This Source Code Form is subject to the terms of the Mozilla Public
 * License, v. 2.0. If a copy of the MPL was not distributed with this
 * file, You can obtain one at http://mozilla.org/MPL/2.0/.
 */

/**
 * @file
 * @date      01/27/2016 01:24:24 PM
 * @version   $Id$
 * @author    Trevor Irons (ti)
 * @email     tirons@egi.utah.edu
 * @copyright Copyright (c) 2016, University of Utah
 * @copyright Copyright (c) 2016, Trevor Irons & Lemma Software, LLC
 */

#include <vtkProbeFilter.h>
#include <vtkSTLReader.h>
#include <vtkUnstructuredGrid.h>
#include <vtkUnstructuredGridReader.h>
#include <vtkUnstructuredGridWriter.h>
#include <vtkGenericDataObjectReader.h>
#include <vtkXMLUnstructuredGridReader.h>
#include <vtkXMLUnstructuredGridWriter.h>
#include <vtkDoubleArray.h>
#include <vtkPointData.h>
#include <cmath>
#include <Eigen/Core>

int main(int argc, char**argv) {

    std::cout << "Mesh boundary assigment routine\n";
    if (argc<4) {
        std::cout << "usage:\n" << "./ResampleWithDataset  inMesh.vtu  boundaries.stl  outG.vtu" << std::endl;
        exit(EXIT_SUCCESS);
    }

    vtkUnstructuredGrid* uGrid;// = vtkUnstructuredGrid::New();

    std::string fn = argv[1];
    if(fn.substr(fn.find_last_of(".") + 1) == "vtk") {
        vtkGenericDataObjectReader* Reader = vtkGenericDataObjectReader::New();
            Reader->SetFileName(argv[1]);
            Reader->Update();
        if(Reader->IsFileUnstructuredGrid()) {
            std::cout << "Found Unstructured grid legacy file" << std::endl;
            uGrid = Reader->GetUnstructuredGridOutput();
        } else {
            std::cerr << "Unknown legacy format";
            exit(EXIT_FAILURE);
        }

    } else {
        vtkXMLUnstructuredGridReader* Reader = vtkXMLUnstructuredGridReader::New();
            std::cout << "Reading" << argv[1] << std::endl;
            Reader->SetFileName(argv[1]);
            Reader->Update();
            uGrid = Reader->GetOutput();
    }
        int nc = uGrid->GetNumberOfCells()  ;
        int nn = uGrid->GetNumberOfPoints()  ;

    std::cout << "Processing grid with nodes=" << nn << "\t cells=" << nc << "\n";

    vtkSTLReader* Stencil = vtkSTLReader::New();
        Stencil->SetFileName(argv[2]);
        Stencil->Update();


    vtkProbeFilter* Resample = vtkProbeFilter::New();
        //Resample->SetSourceData( uGrid );
        //Resample->SetInputData( Stencil->GetOutput() );
        Resample->SetInputData( uGrid );
        Resample->SetSourceData( Stencil->GetOutput() );
        Resample->SpatialMatchOn();
        Resample->SetValidPointMaskArrayName("HomogeneousDirichlet");
        Resample->Update();

    //std::cout << *Resample << std::endl;.

   std::cout << "Resampled grid, ncells=" << Resample->GetOutput()->GetNumberOfCells()
             << " npoints=" << Resample->GetOutput()->GetNumberOfPoints() << std::endl;

    vtkXMLUnstructuredGridWriter* Writer = vtkXMLUnstructuredGridWriter::New();
        Writer->SetInputData( Resample->GetOutput() );
        Writer->SetFileName( argv[3] );
        Writer->Write();

    Writer->Delete();
    Resample->Delete();
    //Reader->Delete();
    Stencil->Delete();

    //std::cout << *Stencil << std::endl;

}