vg::WFANode Struct Reference

Public Member Functions
	WFANode (const gbwtgraph::CachedGBWTGraph &graph, const gbwt::SearchState &state, pos_t target, std::uint32_t parent)
size_t	length () const
bool	is_leaf () const
bool	expanded () const
MatchPos	find_pos (size_t type, int32_t score, int32_t diagonal, const MatchPos::PathList &path) const
void	update (size_t type, int32_t score, int32_t diagonal, const MatchPos &pos)
void	update (size_t type, int32_t score, int32_t diagonal, uint32_t seq_offset, uint32_t node_offset)
void	match_forward (const std::string &sequence, MatchPos &pos) const

Public Attributes
gbwt::vector_type	path
gbwt::SearchState	state
std::string	node_sequence
std::uint32_t	parent
std::vector< std::uint32_t >	children
std::uint32_t	target_offset
bool	dead_end
std::array< hash_map< WFAPoint::key_type, WFAPoint::value_type >, 3 >	wavefronts

Static Public Attributes
constexpr static size_t	TARGET_LENGTH = 1024
constexpr static size_t	MATCHES = 0
constexpr static size_t	INSERTIONS = 1
constexpr static size_t	DELETIONS = 2

Private Member Functions
bool	append_node (const gbwtgraph::CachedGBWTGraph &graph, gbwt::SearchState next, pos_t target)

Constructor & Destructor Documentation

WFANode()

vg::WFANode::WFANode ( const gbwtgraph::CachedGBWTGraph &  graph, const gbwt::SearchState &  state, pos_t  target, std::uint32_t  parent  )

inline

Member Function Documentation

append_node()

bool vg::WFANode::append_node ( const gbwtgraph::CachedGBWTGraph &  graph, gbwt::SearchState  next, pos_t  target  )

inlineprivate

expanded()

bool vg::WFANode::expanded ( ) const

inline

find_pos()

MatchPos vg::WFANode::find_pos ( size_t  type, int32_t  score, int32_t  diagonal, const MatchPos::PathList &  path  ) const

inline

is_leaf()

bool vg::WFANode::is_leaf ( ) const

inline

length()

size_t vg::WFANode::length ( ) const

inline

match_forward()

void vg::WFANode::match_forward ( const std::string &  sequence, MatchPos &  pos  ) const

inline

update() [1/2]

void vg::WFANode::update ( size_t  type, int32_t  score, int32_t  diagonal, const MatchPos &  pos  )

inline

update() [2/2]

void vg::WFANode::update ( size_t  type, int32_t  score, int32_t  diagonal, uint32_t  seq_offset, uint32_t  node_offset  )

inline

Member Data Documentation

children

std::vector<std::uint32_t> vg::WFANode::children

dead_end

bool vg::WFANode::dead_end

DELETIONS

constexpr static size_t vg::WFANode::DELETIONS = 2

staticconstexpr

INSERTIONS

constexpr static size_t vg::WFANode::INSERTIONS = 1

staticconstexpr

MATCHES

constexpr static size_t vg::WFANode::MATCHES = 0

staticconstexpr

node_sequence

std::string vg::WFANode::node_sequence

parent

std::uint32_t vg::WFANode::parent

path

gbwt::vector_type vg::WFANode::path

state

gbwt::SearchState vg::WFANode::state

TARGET_LENGTH

constexpr static size_t vg::WFANode::TARGET_LENGTH = 1024

staticconstexpr

target_offset

std::uint32_t vg::WFANode::target_offset

wavefronts

std::array<hash_map<WFAPoint::key_type, WFAPoint::value_type>, 3> vg::WFANode::wavefronts

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The documentation for this struct was generated from the following file:

• src/gbwt_extender.cpp