PT_compress.h File Reference

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Classes
class	PT_compressed

Typedefs
typedef unsigned char	uchar

Functions
size_t	count_uint_32 (uint32_t *seq, size_t seqsize, uint32_t cmp)
size_t	count_char (const unsigned char *seq, size_t seqsize, unsigned char c, uint32_t c4)
size_t	count_dots (const unsigned char *seq, int seqsize)
size_t	count_gaps (const unsigned char *seq, int seqsize)
size_t	count_gaps_and_dots (const unsigned char *seq, int seqsize)

Typedef Documentation

typedef unsigned char uchar

Definition at line 76 of file PT_compress.h.

Function Documentation

size_t count_uint_32 ( uint32_t *  seq, size_t  seqsize, uint32_t  cmp  )

inline

Definition at line 15 of file PT_compress.h.

Referenced by count_char().

size_t count_char ( const unsigned char *  seq, size_t  seqsize, unsigned char  c, uint32_t  c4  )

inline

Definition at line 21 of file PT_compress.h.

References count_uint_32().

Referenced by count_dots(), and count_gaps().

size_t count_dots ( const unsigned char *  seq, int  seqsize  )

inline

Definition at line 30 of file PT_compress.h.

References count_char().

Referenced by count_gaps_and_dots().

size_t count_gaps ( const unsigned char *  seq, int  seqsize  )

inline

Definition at line 31 of file PT_compress.h.

References count_char().

Referenced by count_gaps_and_dots(), and PT_compressed::createFrom().

size_t count_gaps_and_dots ( const unsigned char *  seq, int  seqsize  )

inline

Definition at line 33 of file PT_compress.h.

References count_dots(), count_gaps(), and pt_assert.

Referenced by PT_compressed::createFrom().