BioChain Class Reference

#include <BioChain.h>

Inheritance diagram for BioChain:

List of all members.

Public Member Functions
	BioChain ()
virtual	~BioChain ()
	BioChain (const string &)
	BioChain (const string &, char)
	BioChain (const unsigned long &atnumber, const string &atname, const string &resname, const char &ch, const long &resnumber, const float &x1, const float &y1, const float &z1, const float &oc1, const float &bf1, const string &atrec)
	BioChain (const char &chid, vector< BioResidue >)
void	setChainId (const char &ch)
long	getLastResidueNumber () const
string	getLastResidueName () const
char	getChainId () const
bool	findChainId (const char &)
BioResidue &	getLastResidue ()
vector< BioResidue >	getResidues ()
unsigned int	getNumberOfResidues () const
unsigned int	getNumberOfAtoms () const
int	getResidueIndex (const long &) const
BioResidue	getResidue (const int &)
BioChain	getChainSegment (const long &first, const long &last)
BioChain	getChainSegment (const long &first, const long &last, const string &atname)
void	pushResidue (const BioResidue &)
void	pushResidue (const unsigned long &atnumber, const string &atname, const string &resname, const long &resnum, const float &x1, const float &y1, const float &z1, const float &oc1, const float &bf1, const string &)
BioChain	eraseHydrogen ()
void	showChain (ostream &=cout)
void	showChainSegment (const long &, const long &, ostream &=cout)
void	showChainSegment (const long &, const long &, const string &atname, ostream &=cout)
BioPoint	getCentroid ()
BioPoint	getCentroid (const string &)
vector< float >	getNormalizedBfactors ()
void	setNormalizedBfactors ()
float	getAverageBfactor ()
float	getDistance (const int &, const string &, const float &, const float &, const float &)
float	getDistance (const int &, const int &, const float &, const float &, const float &)
float	getDistance (const int &, const string &, const BioAtom &)
float	getDistance (const int &, const int &, const BioAtom &)
void	showSphereAnAtom (const unsigned int &, const string &, ostream &=cout, const float &=2.3, const float &=3.2)
void	showSphereAnAtom (const unsigned int &, const unsigned int &, ostream &=cout, const float &=2.3, const float &=3.2)
Protected Attributes
vector< BioResidue >	residue
char	chainId_
Friends
ostream &	operator<< (ostream &os, BioChain &ip)

---

Constructor & Destructor Documentation

BioChain::BioChain

(

)

virtual BioChain::~BioChain

(

)

[virtual]

BioChain::BioChain

(

const string &

)

BioChain::BioChain	(	const string &	,
		char
	)

BioChain::BioChain	(	const unsigned long &	atnumber,
		const string &	atname,
		const string &	resname,
		const char &	ch,
		const long &	resnumber,
		const float &	x1,
		const float &	y1,
		const float &	z1,
		const float &	oc1,
		const float &	bf1,
		const string &	atrec
	)

BioChain::BioChain	(	const char &	chid,
		vector< BioResidue >
	)

---

Member Function Documentation

BioChain BioChain::eraseHydrogen

(

)

Reimplemented in BioProteinChain.

bool BioChain::findChainId

(

const char &

)

float BioChain::getAverageBfactor

(

)

BioPoint BioChain::getCentroid

(

)

BioPoint BioChain::getCentroid

(

const string &

)

char BioChain::getChainId

(

)

const

BioChain BioChain::getChainSegment	(	const long &	first,
		const long &	last
	)

Reimplemented in BioProteinChain.

BioChain BioChain::getChainSegment	(	const long &	first,
		const long &	last,
		const string &	atname
	)

Reimplemented in BioProteinChain.

float BioChain::getDistance	(	const int &	,
		const string &	,
		const float &	,
		const float &	,
		const float &
	)

float BioChain::getDistance	(	const int &	,
		const int &	,
		const float &	,
		const float &	,
		const float &
	)

float BioChain::getDistance	(	const int &	,
		const string &	,
		const BioAtom &
	)

float BioChain::getDistance	(	const int &	,
		const int &	,
		const BioAtom &
	)

BioResidue& BioChain::getLastResidue

(

)

string BioChain::getLastResidueName

(

)

const

long BioChain::getLastResidueNumber

(

)

const

vector<float> BioChain::getNormalizedBfactors

(

)

unsigned int BioChain::getNumberOfAtoms

(

)

const

unsigned int BioChain::getNumberOfResidues

(

)

const

BioResidue BioChain::getResidue

(

const int &

)

int BioChain::getResidueIndex

(

const long &

)

const

vector<BioResidue> BioChain::getResidues

(

)

void BioChain::pushResidue

(

const BioResidue &

)

void BioChain::pushResidue	(	const unsigned long &	atnumber,
		const string &	atname,
		const string &	resname,
		const long &	resnum,
		const float &	x1,
		const float &	y1,
		const float &	z1,
		const float &	oc1,
		const float &	bf1,
		const string &
	)

void BioChain::setChainId

(

const char &

ch

)

void BioChain::setNormalizedBfactors

(

)

void BioChain::showChain

(

ostream &

= cout

)

void BioChain::showChainSegment	(	const long &	,
		const long &	,
		ostream &	= cout
	)

void BioChain::showChainSegment	(	const long &	,
		const long &	,
		const string &	atname,
		ostream &	= cout
	)

void BioChain::showSphereAnAtom	(	const unsigned int &	,
		const string &	,
		ostream &	= cout,
		const float &	= 2.3,
		const float &	= 3.2
	)

void BioChain::showSphereAnAtom	(	const unsigned int &	,
		const unsigned int &	,
		ostream &	= cout,
		const float &	= 2.3,
		const float &	= 3.2
	)

---

Friends And Related Function Documentation

ostream& operator<<	(	ostream &	os,
		BioChain &	ip
	)		[friend]

---

Member Data Documentation

char BioChain::chainId_ [protected]

vector<BioResidue> BioChain::residue [protected]

---

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

• BioChain.h