rostlab::blast Namespace Reference

Classes
class	parser_error
class	parser_driver
	Blast (default, -m 0) output parser. More...
class	location
	Abstract a location. More...
class	parser
	A Bison parser. More...
class	position
	Abstract a position. More...
class	stack
class	slice
	Present a slice of the top of a stack. More...
struct	round
	Data specific to an iterated blast round. More...
struct	hsp
	High-scoring segment pair. More...
struct	hit
	Blast hit. More...
struct	oneline
	One-line description. More...
struct	result
	Blast result for one query. More...

Functions
location	operator+ (location res, const location &end)
	Join two location objects to create a location. More...
location &	operator+= (location &res, int width)
	Change end position in place. More...
location	operator+ (location res, int width)
	Change end position. More...
location &	operator-= (location &res, int width)
	Change end position in place. More...
location	operator- (const location &begin, int width)
	Change end position. More...
bool	operator== (const location &loc1, const location &loc2)
	Compare two location objects. More...
bool	operator!= (const location &loc1, const location &loc2)
	Compare two location objects. More...
template<typename YYChar >
std::basic_ostream< YYChar > &	operator<< (std::basic_ostream< YYChar > &ostr, const location &loc)
	Intercept output stream redirection. More...
position &	operator+= (position &res, int width)
	Add and assign a position. More...
position	operator+ (position res, int width)
	Add two position objects. More...
position &	operator-= (position &res, int width)
	Add and assign a position. More...
position	operator- (position res, int width)
	Add two position objects. More...
bool	operator== (const position &pos1, const position &pos2)
	Compare two position objects. More...
bool	operator!= (const position &pos1, const position &pos2)
	Compare two position objects. More...
template<typename YYChar >
std::basic_ostream< YYChar > &	operator<< (std::basic_ostream< YYChar > &ostr, const position &pos)
	Intercept output stream redirection. More...

Function Documentation

bool rostlab::blast::operator!= ( const location &  loc1, const location &  loc2  )

inline

Compare two location objects.

Definition at line 155 of file blast-parser-location.h.

bool rostlab::blast::operator!= ( const position &  pos1, const position &  pos2  )

inline

Compare two position objects.

Definition at line 159 of file blast-parser-position.h.

location rostlab::blast::operator+ ( location  res, const location &  end  )

inline

Join two location objects to create a location.

Definition at line 115 of file blast-parser-location.h.

position rostlab::blast::operator+ ( position  res, int  width  )

inline

Add two position objects.

Definition at line 127 of file blast-parser-position.h.

location rostlab::blast::operator+ ( location  res, int  width  )

inline

Change end position.

Definition at line 129 of file blast-parser-location.h.

position& rostlab::blast::operator+= ( position &  res, int  width  )

inline

Add and assign a position.

Definition at line 119 of file blast-parser-position.h.

location& rostlab::blast::operator+= ( location &  res, int  width  )

inline

Change end position in place.

Definition at line 122 of file blast-parser-location.h.

location rostlab::blast::operator- ( const location &  begin, int  width  )

inline

Change end position.

Definition at line 141 of file blast-parser-location.h.

position rostlab::blast::operator- ( position  res, int  width  )

inline

Add two position objects.

Definition at line 141 of file blast-parser-position.h.

position& rostlab::blast::operator-= ( position &  res, int  width  )

inline

Add and assign a position.

Definition at line 134 of file blast-parser-position.h.

location& rostlab::blast::operator-= ( location &  res, int  width  )

inline

Change end position in place.

Definition at line 135 of file blast-parser-location.h.

template<typename YYChar >

std::basic_ostream<YYChar>& rostlab::blast::operator<< ( std::basic_ostream< YYChar > &  ostr, const location &  loc  )

inline

Intercept output stream redirection.

Parameters

ostr	the destination output stream
loc	a reference to the location to redirect

Avoid duplicate information.

Definition at line 168 of file blast-parser-location.h.

template<typename YYChar >

std::basic_ostream<YYChar>& rostlab::blast::operator<< ( std::basic_ostream< YYChar > &  ostr, const position &  pos  )

inline

Intercept output stream redirection.

Parameters

ostr	the destination output stream
pos	a reference to the position to redirect

Definition at line 170 of file blast-parser-position.h.

bool rostlab::blast::operator== ( const position &  pos1, const position &  pos2  )

inline

Compare two position objects.

Definition at line 148 of file blast-parser-position.h.

bool rostlab::blast::operator== ( const location &  loc1, const location &  loc2  )

inline

Compare two location objects.

Definition at line 148 of file blast-parser-location.h.