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/*
 * CartDecomposition.hpp
 *
 *  Created on: Aug 15, 2014
 *      Author: Pietro Incardona
 */

#ifndef CARTDECOMPOSITION_HPP
#define CARTDECOMPOSITION_HPP

#include "config.h"
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#include "VCluster.hpp"
#include "Graph/CartesianGraphFactory.hpp"
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#include "Decomposition.hpp"
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#include "Vector/map_vector.hpp"
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#include <vector>
#include <initializer_list>
#include "SubdomainGraphNodes.hpp"
#include "metis_util.hpp"
#include "dec_optimizer.hpp"
#include "Space/Shape/Box.hpp"
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#include "Space/Shape/Point.hpp"
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#include "NN/CellList/CellDecomposer.hpp"
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#include <unordered_map>
#include "NN/CellList/CellList.hpp"
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#include "Space/Ghost.hpp"
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#include "common.hpp"
#include "ie_loc_ghost.hpp"
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#include "ie_ghost.hpp"
#include "nn_processor.hpp"
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#include "util/se_util.hpp"
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#include "util/mathutil.hpp"
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#define CARTDEC_ERROR 2000lu

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/**
 * \brief This class decompose a space into subspaces
 *
 * \tparam dim is the dimensionality of the physical domain we are going to decompose.
 * \tparam T type of the space we decompose, Real, Integer, Complex ...
 * \tparam Memory Memory factory used to allocate memory
 * \tparam Domain Structure that contain the information of your physical domain
 *
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 * Given an N-dimensional space, this class decompose the space into a Cartesian grid of small
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 * sub-sub-domain. To each sub-sub-domain is assigned an id that identify at which processor is
 * assigned (in general the union of all the sub-sub-domain assigned to a processor is
 * simply connected space), a second step merge several sub-sub-domain with same id into bigger region
 *  sub-domain. Each sub-domain has an extended space called ghost part
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 *
 * Assuming that VCluster.getProcessUnitID(), equivalent to the MPI processor rank, return the processor local
 * processor id, we define
 *
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 * * local processor: processor rank
 * * local sub-domain: sub-domain given to the local processor
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 * * external ghost box: (or ghost box) are the boxes that compose the ghost space of the processor, or the
 *   boxes produced expanding every local sub-domain by the ghost extension and intersecting with the sub-domain
 *   of the other processors
 * * Near processors are the processors adjacent to the local processor, where with adjacent we mean all the processor
 *   that has a non-zero intersection with the ghost part of the local processor, or all the processors that
 *   produce non-zero external boxes with the local processor, or all the processor that should communicate
 *   in case of ghost data synchronization
 * * internal ghost box: is the part of ghost of the near processor that intersect the space of the
 *       processor, or the boxes produced expanding the sub-domain of the near processors with the local sub-domain
 * * Near processor sub-domain: is a sub-domain that live in the a near (or contiguous) processor
 * * Near processor list: the list of all the near processor of the local processor (each processor has a list
 *                        of the near processor)
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 * * Local ghosts interal or external are all the ghosts that does not involve inter-processor communications
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 *
 * \see calculateGhostBoxes() for a visualization of internal and external ghost boxes
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 *
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 * ### Create a Cartesian decomposition object on a Box space, distribute, calculate internal and external ghost boxes
 * \snippet CartDecomposition_unit_test.hpp Create CartDecomposition
 *
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 */

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template<unsigned int dim, typename T, typename Memory=HeapMemory, template<unsigned int, typename> class Domain=Box>
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class CartDecomposition : public ie_loc_ghost<dim,T>, public nn_prcs<dim,T> , public ie_ghost<dim,T>
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{
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public:
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	//! Type of the domain we are going to decompose
	typedef T domain_type;

	//! It simplify to access the SpaceBox element
	typedef SpaceBox<dim,T> Box;

private:

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	//! This is the key type to access  data_s, for example in the case of vector
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	//! acc_key is size_t
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	typedef typename openfpm::vector<SpaceBox<dim,T>,Memory,openfpm::vector_grow_policy_default,openfpm::vect_isel<SpaceBox<dim,T>>::value >::access_key acc_key;
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	//! the set of all local sub-domain as vector
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	openfpm::vector<SpaceBox<dim,T>> sub_domains;
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	//! for each sub-domain, contain the list of the neighborhood processors
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	openfpm::vector<openfpm::vector<long unsigned int> > box_nn_processor;

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	//! Structure that contain for each sub-sub-domain box the processor id
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	//! exist for efficient global communication
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	openfpm::vector<size_t> fine_s;

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	//! Structure that store the cartesian grid information
	grid_sm<dim,void> gr;
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	//! Structure that decompose your structure into cell without creating them
	//! useful to convert positions to CellId or sub-domain id in this case
	CellDecomposer_sm<dim,T> cd;
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	//! rectangular domain to decompose
	Domain<dim,T> domain;

	//! Box Spacing
	T spacing[dim];

	//! Runtime virtual cluster machine
	Vcluster & v_cl;

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	// Smallest subdivision on each direction
	::Box<dim,T> ss_box;

	::Box<dim,T> bbox;
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	// Heap memory receiver
	HeapMemory hp_recv;

	// vector v_proc
	openfpm::vector<size_t> v_proc;

	// reference counter of the object in case is shared between object
	long int ref_cnt;

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	// ghost info
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	Ghost<dim,T> ghost;

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	// Boundary condition info
	size_t bc[dim];

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	/*! \brief Constructor, it decompose and distribute the sub-domains across the processors
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	 *
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     * \param v_cl Virtual cluster, used internally for communications
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     *
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	 */
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	void CreateDecomposition(Vcluster & v_cl, const size_t (& bc)[dim])
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	{
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#ifdef SE_CLASS1
		if (&v_cl == NULL)
		{
			std::cerr << __FILE__ << ":" << __LINE__ << " error VCluster instance is null, check that you ever initialized it \n";
			ACTION_ON_ERROR()
		}
#endif
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		// Calculate the total number of box and and the spacing
		// on each direction
		// Get the box containing the domain
		SpaceBox<dim,T> bs = domain.getBox();

		for (unsigned int i = 0; i < dim ; i++)
		{
			// Calculate the spacing
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			spacing[i] = (bs.getHigh(i) - bs.getLow(i)) / gr.size(i);
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		}

		// Here we use METIS
		// Create a cartesian grid graph
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		CartesianGraphFactory<dim,Graph_CSR<nm_part_v,nm_part_e>> g_factory_part;
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		// the graph has only non perdiodic boundary conditions
		size_t bc_o[dim];
		for (size_t i = 0 ; i < dim ; i++)
			bc_o[i] = NON_PERIODIC;

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		// sub-sub-domain graph
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		Graph_CSR<nm_part_v,nm_part_e> gp = g_factory_part.template construct<NO_EDGE,T,dim-1>(gr.getSize(),domain,bc_o);
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		// Get the number of processing units
		size_t Np = v_cl.getProcessingUnits();

		// Get the processor id
		long int p_id = v_cl.getProcessUnitID();

		// Convert the graph to metis
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		Metis<Graph_CSR<nm_part_v,nm_part_e>> met(gp,Np);
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		// decompose
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		met.decompose<nm_part_v::id>();
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		// fill the structure that store the processor id for each sub-domain
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		fine_s.resize(gr.size());
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		// Optimize the decomposition creating bigger spaces
		// And reducing Ghost over-stress
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		dec_optimizer<dim,Graph_CSR<nm_part_v,nm_part_e>> d_o(gp,gr.getSize());
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		// set of Boxes produced by the decomposition optimizer
		openfpm::vector<::Box<dim,size_t>> loc_box;

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		// optimize the decomposition
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		d_o.template optimize<nm_part_v::sub_id,nm_part_v::id>(gp,p_id,loc_box,box_nn_processor,bc);
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		// Initialize ss_box and bbox
		if (loc_box.size() >= 0)
		{
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			SpaceBox<dim,size_t> sub_dc = loc_box.get(0);
			SpaceBox<dim,T> sub_d(sub_dc);
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			sub_d.mul(spacing);
			sub_d.expand(spacing);

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			// Fixing sub-domains to cover all the domain

			// Fixing sub_d
			// if (loc_box) is a the boundary we have to ensure that the box span the full
			// domain (avoiding rounding off error)
			for (size_t i = 0 ; i < dim ; i++)
			{
				if (sub_dc.getHigh(i) == cd.getGrid().size(i) - 1)
				{
					sub_d.setHigh(i,domain.getHigh(i));
				}
			}

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			// add the sub-domain
			sub_domains.add(sub_d);

			ss_box = sub_d;
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			ss_box -= ss_box.getP1();
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			bbox = sub_d;
		}

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		// convert into sub-domain
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		for (size_t s = 1 ; s < loc_box.size() ; s++)
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		{
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			SpaceBox<dim,size_t> sub_dc = loc_box.get(s);
			SpaceBox<dim,T> sub_d(sub_dc);
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			// re-scale and add spacing (the end is the starting point of the next domain + spacing)
			sub_d.mul(spacing);
			sub_d.expand(spacing);
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			// Fixing sub-domains to cover all the domain

			// Fixing sub_d
			// if (loc_box) is a the boundary we have to ensure that the box span the full
			// domain (avoiding rounding off error)
			for (size_t i = 0 ; i < dim ; i++)
			{
				if (sub_dc.getHigh(i) == cd.getGrid().size(i) - 1)
				{
					sub_d.setHigh(i,domain.getHigh(i));
				}
			}

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			// add the sub-domain
			sub_domains.add(sub_d);
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			// Calculate the bound box
			bbox.enclose(sub_d);

			// Create the smallest box contained in all sub-domain
			ss_box.contained(sub_d);
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		}
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		nn_prcs<dim,T>::create(box_nn_processor, sub_domains);
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		nn_prcs<dim,T>::refine_ss_box(ss_box);
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		nn_prcs<dim,T>::applyBC(domain,ghost,bc);
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		// fill fine_s structure
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		// fine_s structure contain the processor id for each sub-sub-domain
		// with sub-sub-domain we mean the sub-domain decomposition before
		// running dec_optimizer (before merging sub-domains)
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		auto it = gp.getVertexIterator();

		while (it.isNext())
		{
			size_t key = it.get();

			// fill with the fine decomposition
			fine_s.get(key) = gp.template vertex_p<nm_part_v::id>(key);

			++it;
		}
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		Initialize_geo_cell_lists();
	}

	/*! \brief Initialize geo_cell lists
	 *
	 *
	 *
	 */
	void Initialize_geo_cell_lists()
	{
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		// Get the smallest sub-division on each direction
		::Box<dim,T> unit = getSmallestSubdivision();
		// Get the processor bounding Box
		::Box<dim,T> bound = getProcessorBounds();

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		// calculate the sub-divisions
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		size_t div[dim];
		for (size_t i = 0 ; i < dim ; i++)
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			div[i] = (size_t)((bound.getHigh(i) - bound.getLow(i)) / unit.getHigh(i));
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		// Create shift
		Point<dim,T> orig;

		// p1 point of the Processor bound box is the shift
		for (size_t i = 0 ; i < dim ; i++)
			orig.get(i) = bound.getLow(i);

		// Initialize the geo_cell structure
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		ie_ghost<dim,T>::Initialize_geo_cell(domain,div,orig);
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		// Initialize shift vectors
		ie_ghost<dim,T>::generateShiftVectors(domain);
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	}

	/*! \brief Create the subspaces that decompose your domain
	 *
	 */
	void CreateSubspaces()
	{
		// Create a grid where each point is a space
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		grid_sm<dim,void> g(div);
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		// create a grid_key_dx iterator
		grid_key_dx_iterator<dim> gk_it(g);

		// Divide the space into subspaces
		while (gk_it.isNext())
		{
			//! iterate through all subspaces
			grid_key_dx<dim> key = gk_it.get();

			//! Create a new subspace
			SpaceBox<dim,T> tmp;

			//! fill with the Margin of the box
			for (int i = 0 ; i < dim ; i++)
			{
				tmp.setHigh(i,(key.get(i)+1)*spacing[i]);
				tmp.setLow(i,key.get(i)*spacing[i]);
			}

			//! add the space box
			sub_domains.add(tmp);

			// add the iterator
			++gk_it;
		}
	}

public:

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	//! Increment the reference counter
	void incRef()
	{ref_cnt++;}

	//! Decrement the reference counter
	void decRef()
	{ref_cnt--;}

	//! Return the reference counter
	long int ref()
	{
		return ref_cnt;
	}

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	/*! \brief Cartesian decomposition constructor
	 *
     * \param v_cl Virtual cluster, used internally to handle or pipeline communication
	 *
	 */
	CartDecomposition(Vcluster & v_cl)
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	:nn_prcs<dim,T>(v_cl),v_cl(v_cl),ref_cnt(0)
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	{
		// Reset the box to zero
		bbox.zero();
	}
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	/*! \brief Cartesian decomposition copy constructor
	 *
     * \param cart object to copy
	 *
	 */
	CartDecomposition(const CartDecomposition<dim,T,Memory,Domain> & cart)
	:nn_prcs<dim,T>(cart.v_cl),v_cl(cart.v_cl),ref_cnt(0)
	{
		this->operator=(cart);
	}

	/*! \brief Cartesian decomposition copy constructor
	 *
     * \param cart object to copy
	 *
	 */
	CartDecomposition(CartDecomposition<dim,T,Memory,Domain> && cart)
	:nn_prcs<dim,T>(cart.v_cl),v_cl(cart.v_cl),ref_cnt(0)
	{
		this->operator=(cart);
	}

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	//! Cartesian decomposition destructor
	~CartDecomposition()
	{}

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//	openfpm::vector<size_t> ids;
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	/*! \brief class to select the returned id by ghost_processorID
	 *
	 */
	class box_id
	{
	public:
		/*! \brief Return the box id
		 *
		 * \param p structure containing the id informations
		 * \param b_id box_id
		 *
		 * \return box id
		 *
		 */
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		inline static size_t id(p_box<dim,T> & p, size_t b_id)
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		{
			return b_id;
		}
	};

	/*! \brief class to select the returned id by ghost_processorID
	 *
	 */
	class processor_id
	{
	public:
		/*! \brief Return the processor id
		 *
		 * \param p structure containing the id informations
		 * \param b_id box_id
		 *
		 * \return processor id
		 *
		 */
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		inline static size_t id(p_box<dim,T> & p, size_t b_id)
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		{
			return p.proc;
		}
	};

	/*! \brief class to select the returned id by ghost_processorID
	 *
	 */
	class lc_processor_id
	{
	public:
		/*! \brief Return the near processor id
		 *
		 * \param p structure containing the id informations
		 * \param b_id box_id
		 *
		 * \return local processor id
		 *
		 */
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		inline static size_t id(p_box<dim,T> & p, size_t b_id)
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		{
			return p.lc_proc;
		}
	};

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	/*! \brief class to select the returned id by ghost_processorID
	 *
	 */
	class shift_id
	{
	public:
		/*! \brief Return the shift id
		 *
		 * \param p structure containing the id informations
		 * \param b_id box_id
		 *
		 * \return shift_id id
		 *
		 */
		inline static size_t id(p_box<dim,T> & p, size_t b_id)
		{
			return p.shift_id;
		}
	};

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	/*! \brief Apply boundary condition to the point
	 *
	 * \param p Point to apply the boundary condition
	 *
	 */
	void applyPointBC(float (& pt)[dim]) const
	{
		for (size_t i = 0 ; i < dim ; i++)
		{
			if (bc[i] == PERIODIC)
				pt[i] = openfpm::math::periodic_l(pt[i],domain.getHigh(i),domain.getLow(i));
		}
	}

	/*! \brief Apply boundary condition to the point
	 *
	 * \param p Point to apply the boundary condition
	 *
	 */
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	bool applyPointBC(Point<dim,T> & pt) const
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	{
		for (size_t i = 0 ; i < dim ; i++)
		{
			if (bc[i] == PERIODIC)
				pt.get(i) = openfpm::math::periodic_l(pt.get(i),domain.getHigh(i),domain.getLow(i));
		}
	}

	/*! \brief Apply boundary condition to the point
	 *
	 * \param encapsulated object
	 *
	 */
	template<typename Mem> void applyPointBC(encapc<1,Point<dim,T>,Mem> && pt) const
	{
		for (size_t i = 0 ; i < dim ; i++)
		{
			if (bc[i] == PERIODIC)
				pt.template get<0>()[i] = openfpm::math::periodic_l(pt.template get<0>()[i],domain.getHigh(i),domain.getLow(i));
		}
	}

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	/*! It calculate the internal ghost boxes
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	 *
	 * Example: Processor 10 calculate
	 * B8_0 B9_0 B9_1 and B5_0
	 *
	 *
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	 *
	 \verbatim

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+----------------------------------------------------+
|                                                    |
|                 Processor 8                        |
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|                 Sub+domain 0                       +-----------------------------------+
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|                                                    |                                   |
|                                                    |                                   |
++--------------+---+---------------------------+----+        Processor 9                |
 |              |   |     B8_0                  |    |        Subdomain 0                |
 |              +------------------------------------+                                   |
 |              |   |                           |    |                                   |
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 |              |   |                           |B9_0|                                   |
 |              | B |    Local processor        |    |                                   |
 | Processor 5  | 5 |    Subdomain 0            |    |                                   |
 | Subdomain 0  | _ |                           +----------------------------------------+
 |              | 0 |                           |    |                                   |
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 |              |   |                           |    |                                   |
 |              |   |                           |    |        Processor 9                |
 |              |   |                           |B9_1|        Subdomain 1                |
 |              |   |                           |    |                                   |
 |              |   |                           |    |                                   |
 |              |   |                           |    |                                   |
 +--------------+---+---------------------------+----+                                   |
                                                     |                                   |
                                                     +-----------------------------------+

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 \endverbatim

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       and also
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       G8_0 G9_0 G9_1 G5_0 (External ghost boxes)
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      +----------------------------------------------------+
      |                 Processor 8                        |
      |                 Subdomain 0                        +-----------------------------------+
      |                                                    |                                   |
      |           +---------------------------------------------+                              |
      |           |         G8_0                           |    |                              |
+-----+---------------+------------------------------------+    |   Processor 9                |
|                 |   |                                    |    |   Subdomain 0                |
|                 |   |                                    |G9_0|                              |
|                 |   |                                    |    |                              |
|                 |   |                                    |    |                              |
|                 |   |        Local processor             |    |                              |
|  Processor 5    |   |        Sub+domain 0                |    |                              |
|  Subdomain 0    |   |                                    +-----------------------------------+
|                 |   |                                    |    |                              |
|                 | G |                                    |    |                              |
|                 | 5 |                                    |    |   Processor 9                |
|                 | | |                                    |    |   Subdomain 1                |
|                 | 0 |                                    |G9_1|                              |
|                 |   |                                    |    |                              |
|                 |   |                                    |    |                              |
+---------------------+------------------------------------+    |                              |
                  |                                        |    |                              |
                  +----------------------------------------+----+------------------------------+
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 \endverbatim

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	 *
	 *
	 *
	 * \param ghost margins for each dimensions (p1 negative part) (p2 positive part)
	 *
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	 *
	 \verbatim
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                ^ p2[1]
                |
                |
           +----+----+
           |         |
           |         |
p1[0]<-----+         +----> p2[0]
           |         |
           |         |
           +----+----+
                |
                v  p1[1]

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     \endverbatim

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	 *
	 *
	 */
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	void calculateGhostBoxes()
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	{
#ifdef DEBUG
		// the ghost margins are assumed to be smaller
		// than one sub-domain

		for (size_t i = 0 ; i < dim ; i++)
		{
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			if (fabs(ghost.template getLow(i)) >= ss_box.getHigh(i) || ghost.template getHigh(i) >= ss_box.getHigh(i))
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			{
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				std::cerr << "Error " << __FILE__ << ":" << __LINE__  << " : Ghost are bigger than one sub-domain" << "\n";
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			}
		}
#endif

		// Intersect all the local sub-domains with the sub-domains of the contiguous processors

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		// create the internal structures that store ghost information
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		ie_ghost<dim,T>::create_box_nn_processor_ext(v_cl,ghost,sub_domains,box_nn_processor,*this);
		ie_ghost<dim,T>::create_box_nn_processor_int(v_cl,ghost,sub_domains,box_nn_processor,*this);
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		// ebox must come after ibox (in this case)
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		ie_loc_ghost<dim,T>::create(sub_domains,domain,ghost,bc);
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		// get the smallest sub-domain dimension on each direction
		for (size_t i = 0 ; i < dim ; i++)
		{
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			if (fabs(ghost.template getLow(i)) >= ss_box.getHigh(i) || ghost.template getHigh(i) >= ss_box.getHigh(i))
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			{
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				std::cerr << "Error " << __FILE__ << ":" << __LINE__  << " : Ghost are bigger than one sub-domain" << "\n";
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			}
		}
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	}

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	/*! \brief It create another object that contain the same decomposition information but with different ghost boxes
	 *
	 * \param g ghost
	 *
	 * \return a duplicated decomposition with different ghost boxes
	 *
	 */
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	CartDecomposition<dim,T,Memory,Domain> duplicate(const Ghost<dim,T> & g) const
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	{
		CartDecomposition<dim,T,Memory,Domain> cart(v_cl);

		cart.box_nn_processor = box_nn_processor;
		cart.sub_domains = sub_domains;
		cart.fine_s = fine_s;

		cart.gr = gr;
		cart.cd = cd;
		cart.domain = domain;
		std::copy(spacing,spacing+3,cart.spacing);

		//! Runtime virtual cluster
		cart.v_cl = v_cl;

		cart.bbox = bbox;
		cart.ss_box = ss_box;
		cart.ghost = g;

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		for (size_t i = 0 ; i < dim ; i++)
			cart.bc[i] = bc[i];

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		(static_cast<nn_prcs<dim,T> &>(cart)).create(box_nn_processor, sub_domains);
		(static_cast<nn_prcs<dim,T> &>(cart)).applyBC(domain,ghost,bc);
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		cart.Initialize_geo_cell_lists();
		cart.calculateGhostBoxes();
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		return cart;
	}

	/*! \brief It create another object that contain the same information and act in the same way
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	 *
	 * \return a duplicated decomposition
	 *
	 */
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	CartDecomposition<dim,T,Memory,Domain> duplicate() const
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	{
		CartDecomposition<dim,T,Memory,Domain> cart(v_cl);

		(static_cast<ie_loc_ghost<dim,T>*>(&cart))->operator=(static_cast<ie_loc_ghost<dim,T>>(*this));
		(static_cast<nn_prcs<dim,T>*>(&cart))->operator=(static_cast<nn_prcs<dim,T>>(*this));
		(static_cast<ie_ghost<dim,T>*>(&cart))->operator=(static_cast<ie_ghost<dim,T>>(*this));

		cart.sub_domains = sub_domains;
		cart.box_nn_processor = box_nn_processor;
		cart.fine_s = fine_s;
		cart.gr = gr;
		cart.cd = cd;
		cart.domain = domain;
		std::copy(spacing,spacing+3,cart.spacing);

		//! Runtime virtual cluster
		cart.v_cl = v_cl;

		cart.ghost = ghost;

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		cart.bbox = bbox;
		cart.ss_box = ss_box;

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		for (size_t i = 0 ; i < dim ; i++)
			cart.bc[i] = this->bc[i];

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		return cart;
	}

	/*! \brief Copy the element
	 *
	 * \param cart element to copy
	 *
	 */
	CartDecomposition<dim,T,Memory,Domain> & operator=(const CartDecomposition & cart)
	{
		static_cast<ie_loc_ghost<dim,T>*>(this)->operator=(static_cast<ie_loc_ghost<dim,T>>(cart));
		static_cast<nn_prcs<dim,T>*>(this)->operator=(static_cast<nn_prcs<dim,T>>(cart));
		static_cast<ie_ghost<dim,T>*>(this)->operator=(static_cast<ie_ghost<dim,T>>(cart));

		sub_domains = cart.sub_domains;
		box_nn_processor = cart.box_nn_processor;
		fine_s = cart.fine_s;
		gr = cart.gr;
		cd = cart.cd;
		domain = cart.domain;
		std::copy(cart.spacing,cart.spacing+3,spacing);

		//! Runtime virtual cluster
		v_cl = cart.v_cl;

		ghost = cart.ghost;

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		bbox = cart.bbox;
		ss_box = cart.ss_box;

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		for (size_t i = 0 ; i < dim ; i++)
			bc[i] = cart.bc[i];

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		return *this;
	}

	/*! \brief Copy the element, move semantic
	 *
	 * \param cart element to copy
	 *
	 */
	CartDecomposition<dim,T,Memory,Domain> & operator=(CartDecomposition && cart)
	{
		static_cast<ie_loc_ghost<dim,T>*>(this)->operator=(static_cast<ie_loc_ghost<dim,T>*>(cart));
		static_cast<nn_prcs<dim,T>*>(this)->operator=(static_cast<nn_prcs<dim,T>*>(cart));
		static_cast<ie_ghost<dim,T>*>(this)->operator=(static_cast<ie_ghost<dim,T>*>(cart));

		sub_domains.swap(cart.sub_domains);
		box_nn_processor.swap(cart.box_nn_processor);
		fine_s.swap(cart.fine_s);
		gr = cart.gr;
		cd = cart.cd;
		domain = cart.domain;
		std::copy(cart.spacing,cart.spacing+3,spacing);

		//! Runtime virtual cluster
		v_cl = cart.v_cl;

		ghost = cart.ghost;

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		cart.bbox = bbox;
		cart.ss_box = ss_box;

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		for (size_t i = 0 ; i < dim ; i++)
			cart.bc[i] = bc[i];

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		return *this;
	}

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	/*! \brief The default grid size
	 *
	 *  The default grid is always an isotropic grid that adapt with the number of processors,
	 *  it define in how many cell it will be divided the space for a particular required minimum
	 *  number of sub-domain
	 *
	 */
	static size_t getDefaultGrid(size_t n_sub)
	{
		// Calculate the number of sub-sub-domain on
		// each dimension
		return openfpm::math::round_big_2(pow(n_sub,1.0/dim));
	}

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	/*! \brief Given a point return in which processor the particle should go
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	 *
	 * \return processorID
	 *
	 */
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	template<typename Mem, typename ofb> size_t inline processorID(encapc<1, Point<dim,T>, Mem> p)
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	{
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		return fine_s.get(cd.template getCell<ofb>(p));
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	}

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	/*! \brief Given a point return in which processor the particle should go
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	 *
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	 * \return processorID
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	 *
	 */
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	size_t inline processorID(const Point<dim,T> &p) const
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	{
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		return fine_s.get(cd.getCell(p));
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	}

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	/*! \brief Given a point return in which processor the particle should go
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	 *
	 * \return processorID
	 *
	 */
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	size_t inline processorID(const T (&p)[dim]) const
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	{
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		return fine_s.get(cd.getCell(p));
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	}

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	/*! \brief Given a point return in which processor the particle should go
	 *
	 * Boundary conditions are considered
	 *
	 * \return processorID
	 *
	 */
	template<typename Mem> size_t inline processorIDBC(encapc<1, Point<dim,T>, Mem> p)
	{
		Point<dim,T> pt = p;
		applyPointBC(pt);

		return fine_s.get(cd.getCell(pt));
	}

	/*! \brief Given a point return in which processor the particle should go
	 *
	 * Boundary conditions are considered
	 *
	 * \return processorID
	 *
	 */
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	template<typename ofb> size_t inline processorIDBC(const Point<dim,T> &p) const
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	{
		Point<dim,T> pt = p;
		applyPointBC(pt);

		return fine_s.get(cd.getCell(p));
	}

	/*! \brief Given a point return in which processor the particle should go
	 *
	 * Boundary consition are considered
	 *
	 * \return processorID
	 *
	 */
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	template<typename ofb> size_t inline processorIDBC(const T (&p)[dim]) const
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	{
		Point<dim,T> pt = p;
		applyPointBC(pt);

		return fine_s.get(cd.getCell(p));
	}

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	/*! \brief Get the smallest subdivision of the domain on each direction
	 *
	 * \return a box p1 is set to zero
	 *
	 */
	const ::Box<dim,T> & getSmallestSubdivision()
	{
		return ss_box;
	}

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	/*! \brief Set the parameter of the decomposition
	 *
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     * \param div_ storing into how many domain to decompose on each dimension
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     * \param domain_ domain to decompose
	 *
	 */
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	void setParameters(const size_t (& div_)[dim], Domain<dim,T> domain_, const size_t (& bc)[dim] ,const Ghost<dim,T> & ghost)
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	{
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		// set the boundary conditions
		for (size_t i = 0 ; i < dim ; i++)
			this->bc[i] = bc[i];

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		// set the ghost
		this->ghost = ghost;
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		// Set the decomposition parameters

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		gr.setDimensions(div_);
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		domain = domain_;
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		cd.setDimensions(domain,div_,0);
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		//! Create the decomposition

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		CreateDecomposition(v_cl,bc);
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	}

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	/*! \brief Get the number of local sub-domains
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	 *
	 * \return the number of sub-domains
	 *
	 */
	size_t getNLocalHyperCube()
	{
		return sub_domains.size();
	}

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	/*! \brief Get the local sub-domain
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	 *
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	 * \param i (each local processor can have more than one sub-domain)
	 * \return the sub-domain
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	 *
	 */
	SpaceBox<dim,T> getLocalHyperCube(size_t lc)
	{
		// Create a space box
		SpaceBox<dim,T> sp;

		// fill the space box

		for (size_t k = 0 ; k < dim ; k++)
		{
			// create the SpaceBox Low and High
			sp.setLow(k,sub_domains.template get<Box::p1>(lc)[k]);
			sp.setHigh(k,sub_domains.template get<Box::p2>(lc)[k]);
		}

		return sp;
	}

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	/*! \brief Get the local sub-domain with ghost extension
	 *
	 * \param i (each local processor can have more than one sub-domain)
	 * \return the sub-domain
	 *
	 */
	SpaceBox<dim,T> getSubDomainWithGhost(size_t lc)
	{
		// Create a space box
		SpaceBox<dim,T> sp = sub_domains.get(lc);

		// enlarge with ghost
		sp.enlarge(ghost);

		return sp;
	}

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	/*! \brief Return the structure that store the physical domain
	 *
	 * \return The physical domain
	 *
	 */
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	const Domain<dim,T> & getDomain()
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	{
		return domain;
	}

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	/*! \brief Check if the particle is local
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	 *
	 * \warning if the particle id outside the domain the result is unreliable
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	 *
	 * \param p object position
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	 *
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	 * \return true if it is local
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	 *
	 */
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	template<typename Mem> bool isLocal(const encapc<1, Point<dim,T>, Mem> p) const
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	{
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		return processorID<Mem>(p) == v_cl.getProcessUnitID();
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	}
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	/*! \brief Check if the particle is local
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	 *
	 * \warning if the particle id outside the domain the result is unreliable
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	 *
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	 * \param p object position
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	 *
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	 * \return true if it is local
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	 *
	 */
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	bool isLocal(const T (&pos)[dim]) const
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	{
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		return processorID(pos) == v_cl.getProcessUnitID();
	}
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	/*! \brief Check if the particle is local considering boundary conditions
	 *
	 * \warning if the particle id outside the domain and non periodic the result
	 *          is unreliable
	 *
	 *
	 * \param p object position
	 *
	 * \return true if it is local
	 *
	 */
	template<typename Mem> bool isLocalBC(const encapc<1, Point<dim,T>, Mem> p, const size_t (& bc)[dim]) const
	{
		Point<dim,T> pt = p;

		for (size_t i = 0 ; i < dim ; i++)
		{
			if (bc[i] == PERIODIC)
				pt.get(i) = openfpm::math::periodic_l(p.template get<0>()[i],domain.getHigh(i),domain.getLow(i));
		}

		return processorID<Mem>(pt) == v_cl.getProcessUnitID();
	}

	/*! \brief Check if the particle is local considering boundary conditions
	 *
	 * \param p object position
	 *
	 * \return true if it is local
	 *
	 */
	bool isLocalBC(const T (&p)[dim], const size_t (& bc)[dim]) const
	{
		Point<dim,T> pt = p;

		for (size_t i = 0 ; i < dim ; i++)
		{
			if (pt.get(0) < -0.1)
			{
				int debug = 0;
				debug++;
			}

			if (bc[i] == PERIODIC)
				pt.get(i) = openfpm::math::periodic_l(p[i],domain.getHigh(i),domain.getLow(i));
		}

		return processorID(pt) == v_cl.getProcessUnitID();
	}

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	/*! \brief Return the bounding box containing union of all the sub-domains for the local processor
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	 *
	 * \return The bounding box
	 *
	 */
	::Box<dim,T> & getProcessorBounds()
	{
		return bbox;
	}
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	////////////// Functions to get decomposition information ///////////////

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	/*! \brief Write the decomposition as VTK file
	 *
	 * The function generate several files
	 *
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	 * * subdomains_X.vtk domain for the local processor (X) as union of sub-domain
	 * * subdomains_adjacent_X.vtk sub-domains adjacent to the local processor (X)
	 * * internal_ghost_X.vtk Internal ghost boxes for the local processor (X)
	 * * external_ghost_X.vtk External ghost boxes for the local processor (X)
	 * * local_internal_ghost_X.vtk internal local ghost boxes for the local processor (X)
	 * * local_external_ghost_X.vtk external local ghost boxes for the local processor (X)
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	 *
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	 * where X is the local processor rank
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	 *
	 * \param output directory where to write the files
	 *
	 */
	bool write(std::string output) const
	{
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		//! subdomains_X.vtk domain for the local processor (X) as union of sub-domain
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		VTKWriter<openfpm::vector<::SpaceBox<dim,T>>,VECTOR_BOX> vtk_box1;
		vtk_box1.add(sub_domains);
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		vtk_box1.write(output + std::string("subdomains_") + std::to_string(v_cl.getProcessUnitID()) + std::string(".vtk"));
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		nn_prcs<dim,T>::write(output);
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		ie_ghost<dim,T>::write(output,v_cl.getProcessUnitID());
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		ie_loc_ghost<dim,T>::write(output,v_cl.getProcessUnitID());
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		return true;
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	}
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	/*! \brief Get the Virtual Cluster machine
	 *
	 * \return the Virtual cluster machine
	 *
	 */
	Vcluster & getVC() const
	{
#ifdef SE_CLASS2
		check_valid(this,8);
#endif
		return v_cl;
	}

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	/*! \brief function to check the consistency of the information of the decomposition
	 *
	 * \return false if is inconsistent
	 *
	 */
	bool check_consistency()
	{
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		if (ie_loc_ghost<dim,T>::check_consistency(getNLocalHyperCube()) == false)
			return false;
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		return true;
	}
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	void debugPrint()
	{
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		std::cout << "Subdomains\n";
		for (size_t p = 0 ; p < sub_domains.size() ; p++)
		{
			std::cout << ::SpaceBox<dim,T>(sub_domains.get(p)).toString() << "\n";
		}

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		std::cout << "External ghost box\n";
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		for (size_t p = 0 ; p < nn_prcs<dim,T>::getNNProcessors() ; p++)
		{
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			for (size_t i = 0 ; i < ie_ghost<dim,T>::getProcessorNEGhost(p) ; i++)
1142
			{
incardon's avatar
incardon committed
1143
				std::cout << ie_ghost<dim,T>::getProcessorEGhostBox(p,i).toString() << "   prc=" << nn_prcs<dim,T>::IDtoProc(p) << "   id=" << ie_ghost<dim,T>::getProcessorEGhostId(p,i) << "\n";
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			}
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		}
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		std::cout << "Internal ghost box\n";
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		for (size_t p = 0 ; p < nn_prcs<dim,T>::getNNProcessors() ; p++)
		{