ca.pfv.spmf.input.sequence_database_array_integers

Class SequenceDatabase

java.lang.Object

ca.pfv.spmf.input.sequence_database_array_integers.SequenceDatabase

public class SequenceDatabase
extends java.lang.Object

Implementation of a sequence database, where each sequence is implemented as an array of integers and should have a unique id.

See Also:

Sequence

Field Summary

Fields

Modifier and Type	Field and Description
int	maxItem largest item in this database
int	minItem smallest item in this database
int	tidsCount the number of sequences in this database

Constructor Summary

Constructors

Constructor and Description
SequenceDatabase()

Method Summary

Modifier and Type	Method and Description
void	addSequence(Sequence sequence) Method to add a sequence to this sequence database
void	addSequence(java.lang.String[] tokens) Method to process a line from the input file
java.util.List<Sequence>	getSequences() Get the sequences from this sequence database.
void	loadFile(java.lang.String path) Method to load a sequence database from a text file in SPMF format.
void	print() Print this sequence database to System.out.
void	printDatabaseStats() Print statistics about this database.
int	size() Get the sequence count in this database.
java.lang.String	toString() Return a string representation of this sequence database.

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

minItem

public int minItem

smallest item in this database

maxItem

public int maxItem

largest item in this database

tidsCount

public int tidsCount

the number of sequences in this database

Constructor Detail

SequenceDatabase

public SequenceDatabase()

Method Detail

loadFile

public void loadFile(java.lang.String path)
              throws java.io.IOException

Method to load a sequence database from a text file in SPMF format.

Parameters:

path - the input file path.

Throws:

java.io.IOException - exception if error while reading the file.

addSequence

public void addSequence(java.lang.String[] tokens)

Method to process a line from the input file

Parameters:

tokens - A list of tokens from the line (which were separated by spaces in the original file).

addSequence

public void addSequence(Sequence sequence)

Method to add a sequence to this sequence database

Parameters:

sequence - A sequence of type "Sequence".

print

public void print()

Print this sequence database to System.out.

printDatabaseStats

public void printDatabaseStats()

Print statistics about this database.

toString

public java.lang.String toString()

Return a string representation of this sequence database.

Overrides:

toString in class java.lang.Object

size

public int size()

Get the sequence count in this database.

Returns:

the sequence count.

getSequences

public java.util.List<Sequence> getSequences()

Get the sequences from this sequence database.

Returns:

A list of sequences (Sequence).