rostlab::blast Namespace Reference

Classes
struct	hit
	Blast hit. More...
struct	hsp
	High-scoring segment pair. More...
class	location
	Two points in a source file. More...
struct	oneline
	One-line description. More...
class	parser
	A Bison parser. More...
class	parser_driver
	Blast (default, -m 0) output parser. More...
class	parser_error
class	position
	A point in a source file. More...
struct	result
	Blast result for one query. More...
struct	round
	Data specific to an iterated blast round. More...

Functions
position &	operator+= (position &res, int width)
	Add width columns, in place. More...
position	operator+ (position res, int width)
	Add width columns. More...
position &	operator-= (position &res, int width)
	Subtract width columns, in place. More...
position	operator- (position res, int width)
	Subtract width columns. 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...
location &	operator+= (location &res, const location &end)
	Join two locations, in place. More...
location	operator+ (location res, const location &end)
	Join two locations. More...
location &	operator+= (location &res, int width)
	Add width columns to the end position, in place. More...
location	operator+ (location res, int width)
	Add width columns to the end position. More...
location &	operator-= (location &res, int width)
	Subtract width columns to the end position, in place. More...
location	operator- (location res, int width)
	Subtract width columns to the 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...

Function Documentation

operator!=() [1/2]

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

inline

Compare two position objects.

Definition at line 161 of file blast-parser-location.h.

operator!=() [2/2]

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

inline

Compare two location objects.

Definition at line 291 of file blast-parser-location.h.

operator+() [1/3]

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

inline

Add width columns.

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

operator+() [2/3]

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

inline

Join two locations.

Definition at line 252 of file blast-parser-location.h.

operator+() [3/3]

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

inline

Add width columns to the end position.

Definition at line 265 of file blast-parser-location.h.

operator+=() [1/3]

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

inline

Add width columns, in place.

Definition at line 121 of file blast-parser-location.h.

operator+=() [2/3]

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

inline

Join two locations, in place.

Definition at line 245 of file blast-parser-location.h.

operator+=() [3/3]

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

inline

Add width columns to the end position, in place.

Definition at line 258 of file blast-parser-location.h.

operator-() [1/2]

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

inline

Subtract width columns.

Definition at line 143 of file blast-parser-location.h.

operator-() [2/2]

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

inline

Subtract width columns to the end position.

Definition at line 277 of file blast-parser-location.h.

operator-=() [1/2]

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

inline

Subtract width columns, in place.

Definition at line 136 of file blast-parser-location.h.

operator-=() [2/2]

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

inline

Subtract width columns to the end position, in place.

Definition at line 271 of file blast-parser-location.h.

operator<<() [1/2]

template<typename YYChar >

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

Intercept output stream redirection.

Parameters

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

Definition at line 172 of file blast-parser-location.h.

operator<<() [2/2]

template<typename YYChar >

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

Intercept output stream redirection.

Parameters

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

Avoid duplicate information.

Definition at line 304 of file blast-parser-location.h.

operator==() [1/2]

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

inline

Compare two position objects.

Definition at line 150 of file blast-parser-location.h.

operator==() [2/2]

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

inline

Compare two location objects.

Definition at line 284 of file blast-parser-location.h.