pnm Namespace Reference

Classes
struct	I3
struct	Pore
struct	PoreNetwork
	The full pore network from one extraction: pores, the per-voxel segmentation (flat), and the label-adjacency connections. More...

Typedefs
using	Exec = Kokkos::DefaultExecutionSpace
using	Mem = Exec::memory_space

Functions
template<class T >
void	uploadVec (const std::vector< T > &h, const Kokkos::View< T *, Mem > &d)
	Bulk host->device upload of a whole std::vector via one deep_copy over an unmanaged host view — replaces the per-element create_mirror_view + fill loop (F3).
template<class V >
std::vector< typename V::value_type >	downloadN (const V &d, std::size_t count)
	Download the first count elements of a device view into a fresh std::vector via one deep_copy — replaces the create_mirror_view (whole view) + element loop (S2/G1), and only moves what is used.
int	get_idx (int x, int y, int z, I3 res)
std::vector< Pore >	extractPoresView (const Kokkos::View< float *, Mem > &sdf, std::array< int, 3 > resolution, std::array< float, 3 > origin, std::array< float, 3 > spacing)
std::vector< Pore >	extract_pores_k (const std::vector< float > &sdf_h, std::array< int, 3 > resolution, std::array< float, 3 > origin, std::array< float, 3 > spacing)
Kokkos::View< int *, Mem >	segmentVolumeView (const Kokkos::View< float *, Mem > &sdf, std::array< int, 3 > resolution, std::array< float, 3 > spacing)
std::vector< int >	segment_volume_k (const std::vector< float > &sdf_h, std::array< int, 3 > resolution, std::array< float, 3 > spacing)
std::vector< std::pair< int, int > >	extractTopologyView (const Kokkos::View< int *, Mem > &seg, std::array< int, 3 > resolution)
std::vector< std::pair< int, int > >	extract_topology_k (const std::vector< int > &seg_h, std::array< int, 3 > resolution)
PoreNetwork	extract_pore_network_k (const std::vector< float > &sdf_h, std::array< int, 3 > resolution, std::array< float, 3 > origin, std::array< float, 3 > spacing)

Typedef Documentation

Exec

using pnm::Exec = typedef Kokkos::DefaultExecutionSpace

Definition at line 31 of file pore_extraction.hpp.

Mem

using pnm::Mem = typedef Exec::memory_space

Definition at line 32 of file pore_extraction.hpp.

Function Documentation

uploadVec()

template<class T >

void pnm::uploadVec ( const std::vector< T > &  h, const Kokkos::View< T *, Mem > &  d  )

inline

Bulk host->device upload of a whole std::vector via one deep_copy over an unmanaged host view — replaces the per-element create_mirror_view + fill loop (F3).

d must already be sized to h.

Definition at line 38 of file pore_extraction.hpp.

Referenced by extract_pore_network_k(), extract_pores_k(), extract_topology_k(), and segment_volume_k().

downloadN()

template<class V >

std::vector< typename V::value_type > pnm::downloadN ( const V &  d, std::size_t  count  )

inline

Download the first count elements of a device view into a fresh std::vector via one deep_copy — replaces the create_mirror_view (whole view) + element loop (S2/G1), and only moves what is used.

Definition at line 50 of file pore_extraction.hpp.

Referenced by extract_pore_network_k(), extractPoresView(), extractTopologyView(), and segment_volume_k().

get_idx()

int pnm::get_idx	(	int	x,
		int	y,
		int	z,
		I3	res
	)

Definition at line 59 of file pore_extraction.hpp.

References pnm::I3::x, pnm::I3::y, and pnm::I3::z.

Referenced by extractPoresView(), extractTopologyView(), and segmentVolumeView().

extractPoresView()

std::vector< Pore > pnm::extractPoresView ( const Kokkos::View< float *, Mem > &  sdf, std::array< int, 3 >  resolution, std::array< float, 3 >  origin, std::array< float, 3 >  spacing  )

inline

Definition at line 69 of file pore_extraction.hpp.

References downloadN(), and get_idx().

Referenced by extract_pore_network_k(), and extract_pores_k().

extract_pores_k()

std::vector< Pore > pnm::extract_pores_k ( const std::vector< float > &  sdf_h, std::array< int, 3 >  resolution, std::array< float, 3 >  origin, std::array< float, 3 >  spacing  )

inline

Definition at line 143 of file pore_extraction.hpp.

References extractPoresView(), and uploadVec().

Referenced by NB_MODULE().

segmentVolumeView()

Kokkos::View< int *, Mem > pnm::segmentVolumeView ( const Kokkos::View< float *, Mem > &  sdf, std::array< int, 3 >  resolution, std::array< float, 3 >  spacing  )

inline

Definition at line 155 of file pore_extraction.hpp.

References get_idx().

Referenced by extract_pore_network_k(), and segment_volume_k().

segment_volume_k()

std::vector< int > pnm::segment_volume_k ( const std::vector< float > &  sdf_h, std::array< int, 3 >  resolution, std::array< float, 3 >  spacing  )

inline

Definition at line 378 of file pore_extraction.hpp.

References downloadN(), segmentVolumeView(), and uploadVec().

Referenced by NB_MODULE().

extractTopologyView()

std::vector< std::pair< int, int > > pnm::extractTopologyView ( const Kokkos::View< int *, Mem > &  seg, std::array< int, 3 >  resolution  )

inline

Definition at line 390 of file pore_extraction.hpp.

References downloadN(), and get_idx().

Referenced by extract_pore_network_k(), and extract_topology_k().

extract_topology_k()

std::vector< std::pair< int, int > > pnm::extract_topology_k ( const std::vector< int > &  seg_h, std::array< int, 3 >  resolution  )

inline

Definition at line 443 of file pore_extraction.hpp.

References extractTopologyView(), and uploadVec().

Referenced by NB_MODULE().

extract_pore_network_k()

PoreNetwork pnm::extract_pore_network_k ( const std::vector< float > &  sdf_h, std::array< int, 3 >  resolution, std::array< float, 3 >  origin, std::array< float, 3 >  spacing  )

inline

Definition at line 464 of file pore_extraction.hpp.

References pnm::PoreNetwork::connections, downloadN(), extractPoresView(), extractTopologyView(), pnm::PoreNetwork::pores, pnm::PoreNetwork::seg, segmentVolumeView(), and uploadVec().

Referenced by NB_MODULE().