#include <geant4/tree/geant4-10.6-release/examples/extended/medical/dna/pdb4dna/include/PDBmolecule.hh>

Collaboration diagram for Molecule:

Public Member Functions
	Molecule ()

	Molecule (string name, int copyNumber, const ThreeVector< double > &position, int strand)

	~Molecule ()

	Molecule ()
	First constructor.

	Molecule (const std::string &resName, int mNum)
	Second constructor.

	~Molecule ()
	Destructor.

Molecule *	GetNext ()
	information about molecule (not implemented)

Residue *	GetFirst ()
	Get the first Residue.

int	GetID ()
	Get number Molecule.

void	SetNext (Molecule *)
	Set the next Molecule.

void	SetFirst (Residue *)
	Set the first Residue.

Public Attributes
string	fName

string	fMaterial

int	fCopyNumber

int	fStrand

ThreeVector< double >	fPosition

double	fRadius

double	fRadiusWater

std::string	fMolName
	Molecule name.

int	fMolNum
	Molecule number.

double	fMinGlobZ

double	fMaxGlobZ

double	fMinGlobX

double	fMaxGlobX

double	fMinGlobY

double	fMaxGlobY

int	fCenterX
	"X center" of this Molecule (for rotation...)

int	fCenterY
	"Y center" of this Molecule (for rotation...)

int	fCenterZ
	"Z center" of this Molecule (for rotation...)

int	fDistCenterMax
	dist from center to most away most of the molecule

int	fNbResidue
	Number of residue inside the molecule.

Private Attributes
Molecule *	fpNext
	Header of the next Molecule (usage before vector)

Residue *	fpFirst
	Header of the first Residue (usage before vector)

Detailed Description

Molecule Class.

This Class define Molecule model ...

Definition at line 55 of file molecule.C.

View newest version in sPHENIX GitHub at line 55 of file molecule.C

Constructor & Destructor Documentation

Molecule::Molecule ( )

inline

Definition at line 58 of file molecule.C.

View newest version in sPHENIX GitHub at line 58 of file molecule.C

Molecule::Molecule	(	string	name,
		int	copyNumber,
		const ThreeVector< double > &	position,
		int	strand
	)

inline

Definition at line 59 of file molecule.C.

View newest version in sPHENIX GitHub at line 59 of file molecule.C

Molecule::~Molecule ( )

inline

Definition at line 68 of file molecule.C.

View newest version in sPHENIX GitHub at line 68 of file molecule.C

Molecule::Molecule ( )

First constructor.

Molecule::Molecule	(	const std::string &	resName,
		int	mNum
	)

Second constructor.

Definition at line 53 of file PDBmolecule.cc.

View newest version in sPHENIX GitHub at line 53 of file PDBmolecule.cc

References fCenterX, fCenterY, fCenterZ, fDistCenterMax, fMaxGlobX, fMaxGlobY, fMaxGlobZ, fMinGlobX, fMinGlobY, fMinGlobZ, fMolName, fMolNum, fNbResidue, fpFirst, and fpNext.

Molecule::~Molecule ( )

inline

Destructor.

Definition at line 65 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 65 of file PDBmolecule.hh

Member Function Documentation

Residue * Molecule::GetFirst ( )

Get the first Residue.

Definition at line 81 of file PDBmolecule.cc.

View newest version in sPHENIX GitHub at line 81 of file PDBmolecule.cc

References fpFirst.

Referenced by DetectorConstruction::AtomisticView(), PDBlib::ComputeMatchEdepDNA(), PDBlib::ComputeNbNucleotidsPerStrand(), and PDBlib::ComputeNucleotideBarycenters().

Here is the caller graph for this function:

int Molecule::GetID ( )

Get number Molecule.

Definition at line 88 of file PDBmolecule.cc.

View newest version in sPHENIX GitHub at line 88 of file PDBmolecule.cc

References fMolNum.

Molecule * Molecule::GetNext ( )

information about molecule (not implemented)

Get the next molecule

Definition at line 74 of file PDBmolecule.cc.

View newest version in sPHENIX GitHub at line 74 of file PDBmolecule.cc

References fpNext.

Referenced by DetectorConstruction::AtomisticView(), PDBlib::ComputeBoundingVolumeParams(), PDBlib::ComputeMatchEdepDNA(), PDBlib::ComputeNbNucleotidsPerStrand(), and PDBlib::ComputeNucleotideBarycenters().

Here is the caller graph for this function:

void Molecule::SetFirst ( Residue * resFirst )

Set the first Residue.

Definition at line 102 of file PDBmolecule.cc.

View newest version in sPHENIX GitHub at line 102 of file PDBmolecule.cc

References fpFirst.

Referenced by PDBlib::Load().

Here is the caller graph for this function:

void Molecule::SetNext ( Molecule * moleculeNext )

Set the next Molecule.

Definition at line 95 of file PDBmolecule.cc.

View newest version in sPHENIX GitHub at line 95 of file PDBmolecule.cc

References fpNext.

Referenced by PDBlib::Load().

Here is the caller graph for this function:

Member Data Documentation

int Molecule::fCenterX

"X center" of this Molecule (for rotation...)

Definition at line 90 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 90 of file PDBmolecule.hh

Referenced by PDBlib::Load(), and Molecule().

int Molecule::fCenterY

"Y center" of this Molecule (for rotation...)

Definition at line 91 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 91 of file PDBmolecule.hh

Referenced by PDBlib::Load(), and Molecule().

int Molecule::fCenterZ

"Z center" of this Molecule (for rotation...)

Definition at line 92 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 92 of file PDBmolecule.hh

Referenced by PDBlib::Load(), and Molecule().

int Molecule::fCopyNumber

Definition at line 72 of file molecule.C.

View newest version in sPHENIX GitHub at line 72 of file molecule.C

int Molecule::fDistCenterMax

dist from center to most away most of the molecule

Definition at line 93 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 93 of file PDBmolecule.hh

Referenced by Molecule().

string Molecule::fMaterial

Definition at line 71 of file molecule.C.

View newest version in sPHENIX GitHub at line 71 of file molecule.C

double Molecule::fMaxGlobX

Definition at line 86 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 86 of file PDBmolecule.hh

Referenced by PDBlib::ComputeBoundingVolumeParams(), PDBlib::Load(), and Molecule().

double Molecule::fMaxGlobY

Definition at line 88 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 88 of file PDBmolecule.hh

Referenced by PDBlib::ComputeBoundingVolumeParams(), PDBlib::Load(), and Molecule().

double Molecule::fMaxGlobZ

Definition at line 84 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 84 of file PDBmolecule.hh

Referenced by PDBlib::ComputeBoundingVolumeParams(), PDBlib::Load(), and Molecule().

double Molecule::fMinGlobX

Definition at line 85 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 85 of file PDBmolecule.hh

Referenced by PDBlib::ComputeBoundingVolumeParams(), PDBlib::Load(), and Molecule().

double Molecule::fMinGlobY

Definition at line 87 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 87 of file PDBmolecule.hh

Referenced by PDBlib::ComputeBoundingVolumeParams(), PDBlib::Load(), and Molecule().

double Molecule::fMinGlobZ

Definition at line 83 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 83 of file PDBmolecule.hh

Referenced by PDBlib::ComputeBoundingVolumeParams(), PDBlib::Load(), and Molecule().

std::string Molecule::fMolName

Molecule name.

Definition at line 80 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 80 of file PDBmolecule.hh

Referenced by Molecule().

int Molecule::fMolNum

Molecule number.

Definition at line 81 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 81 of file PDBmolecule.hh

Referenced by GetID(), and Molecule().

string Molecule::fName

Definition at line 70 of file molecule.C.

View newest version in sPHENIX GitHub at line 70 of file molecule.C

int Molecule::fNbResidue

Number of residue inside the molecule.

Definition at line 94 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 94 of file PDBmolecule.hh

Referenced by PDBlib::Load(), and Molecule().

Residue* Molecule::fpFirst

private

Header of the first Residue (usage before vector)

Definition at line 98 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 98 of file PDBmolecule.hh

Referenced by GetFirst(), Molecule(), and SetFirst().

Molecule* Molecule::fpNext

private

Header of the next Molecule (usage before vector)

Definition at line 97 of file PDBmolecule.hh.

View newest version in sPHENIX GitHub at line 97 of file PDBmolecule.hh

Referenced by GetNext(), Molecule(), and SetNext().

ThreeVector<double> Molecule::fPosition

Definition at line 75 of file molecule.C.

View newest version in sPHENIX GitHub at line 75 of file molecule.C

double Molecule::fRadius

Definition at line 77 of file molecule.C.

View newest version in sPHENIX GitHub at line 77 of file molecule.C

double Molecule::fRadiusWater

Definition at line 78 of file molecule.C.

View newest version in sPHENIX GitHub at line 78 of file molecule.C

int Molecule::fStrand

Definition at line 73 of file molecule.C.

View newest version in sPHENIX GitHub at line 73 of file molecule.C

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

geant4/tree/geant4-10.6-release/examples/extended/medical/dna/dnadamage1/molecule.C
geant4/tree/geant4-10.6-release/examples/extended/medical/dna/pdb4dna/include/PDBmolecule.hh
geant4/tree/geant4-10.6-release/examples/extended/medical/dna/pdb4dna/src/PDBmolecule.cc

Public Member Functions

Public Attributes

Private Attributes

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation