Package org.biojava.bio.proteomics.aaindex

Class SimpleSymbolPropertyTableDB

java.lang.Object

org.biojava.bio.proteomics.aaindex.SimpleSymbolPropertyTableDB

All Implemented Interfaces:

SymbolPropertyTableDB

public class SimpleSymbolPropertyTableDB
extends Object
implements SymbolPropertyTableDB

A simple implementation of a symbol property table database.

Version:

$Revision$

Author:

Martin Szugat

Constructor Summary

Constructors

Constructor	Description
SimpleSymbolPropertyTableDB()	Initializes the database.
SimpleSymbolPropertyTableDB(SymbolPropertyTableIterator tableIterator)	Initializes the database by copying all symbol property tables from a given iterator into the database.

Method Summary

Modifier and Type	Method	Description
void	addTable(SymbolPropertyTable table)	Adds a symbol property table to the database.
Set	names()	Returns the set of unique table names.
int	numTables()	Returns the number of symbol property tables in the database.
SymbolPropertyTable	table(String name)	Returns the table with the specified name.
SymbolPropertyTableIterator	tableIterator()	Returns an iterator over SymbolPropertyTable objects.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

SimpleSymbolPropertyTableDB

public SimpleSymbolPropertyTableDB()

Initializes the database.

SimpleSymbolPropertyTableDB

public SimpleSymbolPropertyTableDB(SymbolPropertyTableIterator tableIterator)
                            throws BioException

Initializes the database by copying all symbol property tables from a given iterator into the database.

Parameters:

tableIterator - an iterator over symbol property tables.

Throws:

BioException - if the symbol property tables could not be iterated.

Method Detail

addTable

public void addTable(SymbolPropertyTable table)
              throws NullPointerException

Adds a symbol property table to the database. Overrides an existing table entry with the same name.

Parameters:

table - the symbol property table to add.

Throws:

NullPointerException - if table is null.

tableIterator

public SymbolPropertyTableIterator tableIterator()

Returns an iterator over SymbolPropertyTable objects.

Specified by:

tableIterator in interface SymbolPropertyTableDB

Returns:

a new iterator

numTables

public int numTables()

Returns the number of symbol property tables in the database.

Specified by:

numTables in interface SymbolPropertyTableDB

Returns:

the number of tables

table

public SymbolPropertyTable table(String name)
                          throws IllegalIDException,
                                 NullPointerException

Returns the table with the specified name.

Specified by:

table in interface SymbolPropertyTableDB

Parameters:

name - the name of the table

Returns:

the specified table

Throws:

IllegalIDException - if no symbol property table with the specified name could be found.

NullPointerException - if name is null.

names

public Set names()

Returns the set of unique table names.

Specified by:

names in interface SymbolPropertyTableDB

Returns:

a set containing strings