harlem Class List

Here are the classes, structs, unions and interfaces with brief descriptions:

AltChemState	Class to define an alternative protonation (or redox) state of the AtomList
AtomCollection	< Abstract class for Atom Collection
AtomIterator	Abstract class for an iterator on collections of atoms
AtomIteratorMolecule	Atom iterator class to browse atoms of the molecule
AtomIteratorMolSet	Atom iterator class to browse atoms of the molecular set
AtomIteratorMolSet_const	Const Atom iterator class to browse atoms of the molecular set
AtomList	Class to define a list of atoms
AtomListIterator	Atom iterator class to browse atoms of the Atom List
AtomListIteratorMolSet	Iterator class to browse Named Atom lists of the molecular set
AtomNode	Axxiliary class for attaching missing atoms
BiblDB	< Class to access my Bibliographic Database from HARLEM
BondIteratorMolecule	Bond iterator class to browse bonds of the molecule
BondIteratorMolSet	Bond iterator class to browse bonds of the molecular set
Canvas3D	Class to define Window to Plot 3D Images
CGridDlg	< Class that contain grid control
ChemGroup	Class to define Chemical(Functional) Atom Group object
ChemGroupIterator	Iterator class to browse Chemical Groups of the molecular set
CmdParser	Class to process RASMOL-like text commands
ComputerAccount	Class to describe Remote Computer Account
DNAIntCrdDlg	< Class to Manipulate Nucleic Acids Internal Coordinates
ElectrostMod	Class to perform continuum electrostatic calculations on the grid
ETCoupl	The module to perform computations of donor/acceptor ET coupling
ETPath	< class for coupling path between two nodes
Expr	Class to define logical or arithmetical expression
Fortran_matrix< T >	A simple 1-based, column oriented Matrix class
GauBasisSet	Class to represent Gaussian Basis Set in HARLEM
GauFile	Class to represent Gaussian RWF file and its IO operations:
GauShell
HaAtBasDB	< Class to define database of quantum chemical gaussian basis sets in HARLEM
HaAtom	Class to define Atom object
HaAtomBasis
HaAtomBasisRef	Class to define Atom Basis Reference to extract Atom Basis from the database:
HaBond	Class to define Bond object
HaChain	< Class to define chain of residues
HaCompMod	Parent class for computational modules in HARLEM
HaDalton	Class to control Quantum Chemical calculations using Dalton program
HaField3D	Class for a scalar field on a rectangular grid
HaGaussian	Class to control quantum chemical calculations with the GAUSSIAN program
HaGrp4MatID	< class for ID of 4-group index matrix
HaHBond	Class to define Hydrogen Bond object
HaInterMolMod	Class to simulate docking between two molecules
HaMat_double	Class for two-dimensional matrix of doubles
HaMatDB	Class to define Database of group-group submatricies
HaMinimizer	Class to minimize a function of multiple variables
HaMolecule	Class to define a single Molecule object
HaMolMechMod	Computational module to perform Molecular Mechanics computations
HaMolSet	Class to describe a collection of molecules - Central Class of HARLEM
HaMolView	Class for 3D representation of a set of molecules
HaOper1e	Class for general 1e operator
HaOperGrad	Operator Delta ( Gradient)
HaOperKinEner	Kinetic Energy Operator
HaOperR	Electric Dipole moment operator
HaOperRDelt	Operator R X Grad ( -i Magnetic moment operator)
HaOperT	Class for kinetic energy operator
HaOperV	Class to potential energy operator
HaQCMod	Class to perform quantum chemical calculations on the molecule
HaResDB	Class to define Residue Database
HaResidue	Class to define Residue in a polymer or bioplymer chain
HarlemApp	Class for the HARLEM application
HaRPAHam	Class to define CIS or RPA Hamiltonian
HaRPAResolv	Class to define CIS or RPA Resolvent operator
HaRPAvec	< Class to define RPA vector
HaString	Character string object in HARLEM based on STL string
HaSurface	Class to define surface build from triangles
HaVec_double	Class for a numerical array of doubles
HBondIteratorMolSet	Bond iterator class to browse Hydrogen Bonds of the molecular set
IntCrdNode	Internal coordinate node to specify
MatPoint	Point with a mass, charge and VdW parameters usually associated with an atom
MMBond	Valence bond in the Molecular mechanics model
MMDihedral	Dihedral Angle in Molecular Mechanics Module
MMNonBndParam	Non-bonded (VdW) parameter in Molecular Mechanics model
MMValAngle	Valence Angle in Molecular Mechanics Module
MolMechDlg	Dialog Class to control Molecular Mechanics module
MultiVarFunctor	Abstract class for function of multiple variables - use as parent class to use with minimizers
NuclAcidDlg	Class for Interface to Nucleic Acid Modeling module
NuclAcidMod	Computational module to model Nucleic Acids
NumVector< T >	Numerical vector class
Object3D	Class to define 3D objects that can be displayed and manipulated
Partition	< Class for the partion of atoms of the Molecular Set into cubic sections to speed up some algorithm requiring cycles on nearby atoms
PointCollection	Abstract class of collections(group) of points in 3D space
PointIterator	Abstract class for an iterator on collections of points in 3D space (3D vectors)
Poly	Polygon class for plotting
PtrDoubleMap	Map of pointers to real numbers
PtrDoubleMap_itr	Iterator class of a map of pointers to real numbers
PtrPtrMap	Map of pointers to pointers
PtrPtrMap_itr	Iterator class of a map of pointers to pointers
ResidueIteratorMolecule	Residue iterator class to browse residues of the molecule
ResidueIteratorMolSet	Residue iterator class to browse residues of the molecular set
ShadeDesc	Class to define a basic color
ShadeRef	Class that desribe position the basic color(shade) in the array of shades Shade[] and in array of colors Lut[]
StrDoubleMap	Map of strings to real numbers
StrDoubleMap_itr	Iterator class of a map of strings to real numbers
StrStrMap	Map of strings to strings
StrStrMap_itr	Iterator class of a map of strings to strings
StrVec	Class for a vector of strings
Vec3D	Class to define 3D vector or a point in 3D space
Vert	Vertice of a polygon for plotting

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