owltools.idmap

Class IDMappingPIRParser

java.lang.Object

owltools.idmap.AbstractMappingParser

owltools.idmap.IDMappingPIRParser

public class IDMappingPIRParser
extends AbstractMappingParser

Parses the IDMapping file available here: ftp://ftp.pir.georgetown.edu/databases/idmapping/idmapping.tb.gz

Author:

cjm

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	IDMappingPIRParser.Types

Field Summary

Fields

Modifier and Type	Field and Description
IDMappingPIRParser.Types[]	COL_SUBSET
Set<Integer>	colIxSubset
static IDMappingPIRParser.Types[]	COLS
Map<Integer,Set<String>>	filterWhere
IDMapHandler	handler
Map<IDMappingPIRParser.Types,Integer>	typeIxMap

Constructor Summary

Constructors

Constructor and Description
IDMappingPIRParser()

Method Summary

Methods

Modifier and Type	Method and Description
boolean	next()
void	parse(Reader reader)
boolean	process(String[] colVals)

Methods inherited from class owltools.idmap.AbstractMappingParser

parse, parse

Methods inherited from class java.lang.Object

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

Field Detail

COLS

public static IDMappingPIRParser.Types[] COLS

COL_SUBSET

public IDMappingPIRParser.Types[] COL_SUBSET

colIxSubset

public Set<Integer> colIxSubset

typeIxMap

public Map<IDMappingPIRParser.Types,Integer> typeIxMap

filterWhere

public Map<Integer,Set<String>> filterWhere

handler

public IDMapHandler handler

Constructor Detail

IDMappingPIRParser

public IDMappingPIRParser()

Method Detail

next

public boolean next()
             throws IOException

Throws:

IOException

process

public boolean process(String[] colVals)

parse

public void parse(Reader reader)
           throws IOException

Specified by:

parse in class AbstractMappingParser

Throws:

IOException