core::io::serialization Namespace Reference

Classes
struct	BUFFER

Functions
bool	is_pseudoresidue (const conformation::Residue &residue)
static void	swap_bytes (char *, unsigned int)
void	write_bytes (char *x, unsigned int n, BUFFER &buf)
	Helper functions to read/write raw memory. More...
void	read_bytes (char *x, unsigned int n, BUFFER &buf)
template<typename T >
static void	write_bytes (T x, BUFFER &buf)
	Helper functions to read/write any single primitive type. More...
template<typename T >
static void	read_bytes (T &x, BUFFER &buf)
void	write_binary (char x, BUFFER &buf)
	Read/write a single primitive type to a buf. More...
void	read_binary (char &x, BUFFER &buf)
void	write_binary (bool x, BUFFER &buf)
void	read_binary (bool &x, BUFFER &buf)
void	write_binary (unsigned int x, BUFFER &buf)
void	read_binary (unsigned int &x, BUFFER &buf)
void	write_binary (float x, BUFFER &buf)
void	read_binary (float &x, BUFFER &buf)
void	write_binary (double x, BUFFER &buf)
void	read_binary (double &x, BUFFER &buf)
void	write_binary (const utility::vector1_bool &x, BUFFER &buf)
	Read/write simple structure to a buf. More...
void	read_binary (utility::vector1_bool &x, BUFFER &buf)
void	write_binary (const std::vector< std::string > &x, BUFFER &buf)
void	read_binary (std::vector< std::string > &x, BUFFER &buf)
void	write_binary (const std::string &x, BUFFER &buf)
void	read_binary (std::string &x, BUFFER &buf)
void	write_binary (const core::Vector &x, BUFFER &buf)
void	read_binary (core::Vector &x, BUFFER &buf)
void	check_binary_unsigned_int (unsigned int x, BUFFER &buf)
	Utility read/write. More...
void	write_binary_chars (const char *x, BUFFER &buf)
void	check_binary_chars (const char *x, BUFFER &buf)
void	write_binary (const core::pose::Pose &pose, BUFFER &buf)
	Read/Write a pose to a file. More...
void	read_binary (core::pose::Pose &pose, BUFFER &buf)

Function Documentation

check_binary_chars()

void core::io::serialization::check_binary_chars	(	const char *	x,
		BUFFER &	buf
	)

References read_binary(), and THROW_EXCEPTION.

Referenced by read_binary().

check_binary_unsigned_int()

void core::io::serialization::check_binary_unsigned_int	(	unsigned int	x,
		BUFFER &	buf
	)

Utility read/write.

References read_binary(), and THROW_EXCEPTION.

Referenced by read_binary().

is_pseudoresidue()

bool core::io::serialization::is_pseudoresidue

(

const conformation::Residue &

residue

)

References core::conformation::Residue::aa(), and core::chemical::aa_vrt.

read_binary() [1/10]

void core::io::serialization::read_binary	(	bool &	x,
		BUFFER &	buf
	)

References read_bytes().

read_binary() [2/10]

void core::io::serialization::read_binary	(	char &	x,
		BUFFER &	buf
	)

Referenced by check_binary_chars(), check_binary_unsigned_int(), and read_binary().

read_binary() [3/10]

void core::io::serialization::read_binary	(	core::pose::Pose &	pose,
		BUFFER &	buf
	)

References core::pose::Pose::append_residue_by_bond(), core::pose::Pose::append_residue_by_jump(), check_binary_chars(), check_binary_unsigned_int(), core::pose::Pose::clear(), core::pose::Pose::conformation(), core::pose::Pose::fold_tree(), core::conformation::Conformation::insert_chain_ending(), core::pose::is_lower_terminus(), core::chemical::ResidueTypeBase::is_polymer(), core::kinematics::FoldTree::num_jump(), read_binary(), core::pose::Pose::residue_type(), core::pose::Pose::set_jump(), core::pose::Pose::set_secstruct(), core::pose::Pose::set_xyz(), core::pose::Pose::size(), THROW_EXCEPTION, and protocols::kinmatch::xyz().

read_binary() [4/10]

void core::io::serialization::read_binary	(	core::Vector &	x,
		BUFFER &	buf
	)

References read_binary().

read_binary() [5/10]

void core::io::serialization::read_binary	(	double &	x,
		BUFFER &	buf
	)

References read_bytes().

read_binary() [6/10]

void core::io::serialization::read_binary	(	float &	x,
		BUFFER &	buf
	)

References read_bytes().

read_binary() [7/10]

void core::io::serialization::read_binary	(	std::string &	x,
		BUFFER &	buf
	)

References read_binary().

read_binary() [8/10]

void core::io::serialization::read_binary	(	std::vector< std::string > &	x,
		BUFFER &	buf
	)

References read_binary().

read_binary() [9/10]

void core::io::serialization::read_binary	(	unsigned int &	x,
		BUFFER &	buf
	)

References read_bytes().

read_binary() [10/10]

void core::io::serialization::read_binary	(	utility::vector1_bool &	x,
		BUFFER &	buf
	)

References read_binary().

read_bytes() [1/2]

void core::io::serialization::read_bytes	(	char *	x,
		unsigned int	n,
		BUFFER &	buf
	)

References core::io::serialization::BUFFER::read(), swap_bytes(), and THROW_EXCEPTION.

Referenced by read_binary(), and read_bytes().

read_bytes() [2/2]

template<typename T >

static void core::io::serialization::read_bytes ( T &  x, BUFFER &  buf  )

static

References read_bytes().

swap_bytes()

static void core::io::serialization::swap_bytes ( char *  , unsigned int    )

static

Helper function to write all binary files as little endian. If the current architecture is big endian, swap the bytes.

Referenced by read_bytes(), and write_bytes().

write_binary() [1/10]

void core::io::serialization::write_binary	(	bool	x,
		BUFFER &	buf
	)

References write_bytes().

write_binary() [2/10]

void core::io::serialization::write_binary	(	char	x,
		BUFFER &	buf
	)

Read/write a single primitive type to a buf.

Referenced by write_binary(), and write_binary_chars().

write_binary() [3/10]

void core::io::serialization::write_binary	(	const core::pose::Pose &	pose,
		BUFFER &	buf
	)

Read/Write a pose to a file.

References core::conformation::Residue::atoms(), core::conformation::Residue::chain(), core::pose::Pose::fold_tree(), core::pose::Pose::jump(), core::chemical::ResidueTypeBase::mode(), core::chemical::ResidueTypeBase::name(), core::pose::Pose::num_jump(), core::pose::Pose::residue(), core::pose::Pose::secstruct(), core::pose::Pose::size(), core::chemical::string_from_type_set_mode(), core::conformation::Residue::type(), write_binary(), and write_binary_chars().

write_binary() [4/10]

void core::io::serialization::write_binary	(	const core::Vector &	x,
		BUFFER &	buf
	)

References write_binary().

write_binary() [5/10]

void core::io::serialization::write_binary	(	const std::string &	x,
		BUFFER &	buf
	)

References write_binary().

write_binary() [6/10]

void core::io::serialization::write_binary	(	const std::vector< std::string > &	x,
		BUFFER &	buf
	)

References write_binary().

write_binary() [7/10]

void core::io::serialization::write_binary	(	const utility::vector1_bool &	x,
		BUFFER &	buf
	)

Read/write simple structure to a buf.

Read/write simple structure to a file.

References write_binary().

write_binary() [8/10]

void core::io::serialization::write_binary	(	double	x,
		BUFFER &	buf
	)

References write_bytes().

write_binary() [9/10]

void core::io::serialization::write_binary	(	float	x,
		BUFFER &	buf
	)

References write_bytes().

write_binary() [10/10]

void core::io::serialization::write_binary	(	unsigned int	x,
		BUFFER &	buf
	)

References write_bytes().

write_binary_chars()

void core::io::serialization::write_binary_chars	(	const char *	x,
		BUFFER &	buf
	)

References write_binary().

Referenced by write_binary().

write_bytes() [1/2]

void core::io::serialization::write_bytes	(	char *	x,
		unsigned int	n,
		BUFFER &	buf
	)

Helper functions to read/write raw memory.

References swap_bytes(), THROW_EXCEPTION, and core::io::serialization::BUFFER::write().

Referenced by write_binary(), and write_bytes().

write_bytes() [2/2]

template<typename T >

static void core::io::serialization::write_bytes ( T  x, BUFFER &  buf  )

static

Helper functions to read/write any single primitive type.

References write_bytes().