PT_Traversal Class Reference

Public Member Functions
	PT_Traversal (const char *oligo_, int needed_positions_, int accept_mismatches_, FamilyStat &fam_stat_)
void	mark_matching (POS_TREE2 *pt) const
int	operator() (const DataLoc &loc) const
int	operator() (const AbsLoc &loc) const

Static Public Member Functions
static void	restrictMatchesToRegion (int start, int end, int oligo_len)
static void	unrestrictMatchesToRegion ()

Detailed Description

Definition at line 112 of file PT_family.cxx.

Constructor & Destructor Documentation

PT_Traversal::PT_Traversal ( const char *  oligo_, int  needed_positions_, int  accept_mismatches_, FamilyStat &  fam_stat_  )

inline

Definition at line 161 of file PT_family.cxx.

Referenced by operator()().

Member Function Documentation

static void PT_Traversal::restrictMatchesToRegion ( int  start, int  end, int  oligo_len  )

inlinestatic

Definition at line 154 of file PT_family.cxx.

Referenced by find_family().

static void PT_Traversal::unrestrictMatchesToRegion ( )

inlinestatic

Definition at line 157 of file PT_family.cxx.

Referenced by find_family().

void PT_Traversal::mark_matching

(

POS_TREE2 *

pt

)

const

Traverse pos(sub)tree through matching branches and increment 'match_count'

Definition at line 212 of file PT_family.cxx.

References POS_TREE2::is_node(), mark_matching(), pt_assert, PT_BASES, PT_N, and PT_read_son().

Referenced by find_family(), and mark_matching().

int PT_Traversal::operator() ( const DataLoc &  loc ) const

inline

Increment match_count for matched postree-tips

Definition at line 171 of file PT_family.cxx.

References PT_Traversal().

int PT_Traversal::operator() ( const AbsLoc &  loc ) const

inline

Increment match_count for matched postree-tips

Definition at line 179 of file PT_family.cxx.

References PT_Traversal().

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

• PROBE/PT_family.cxx