Package org.dishevelled.bio.protein.uniprot

Class UniprotEntrySummaryReader

java.lang.Object

org.dishevelled.bio.protein.uniprot.UniprotEntrySummaryReader

@Immutable
public final class UniprotEntrySummaryReader
extends Object

Streaming UniProt XML reader that extracts entry summaries.

Since:

2.5

Author:

Michael Heuer

Method Summary

Modifier and Type	Method	Description
(package private) static String	classifyOrganism(String lineage)	Classify an organism type from the specified lineage.
static void	stream(Reader reader, EntrySummaryListener callback)	Stream UniProt XML from the specified reader and extract entry summaries.

Methods inherited from class java.lang.Object

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

Method Details

stream

public static void stream(Reader reader,
 EntrySummaryListener callback)
                   throws IOException

Stream UniProt XML from the specified reader and extract entry summaries.

Parameters:

reader - UniProt XML reader to read from, must not be null

callback - entry summary callback, must not be null

Throws:

IOException - if an I/O error occurs

classifyOrganism

static String classifyOrganism(String lineage)

Classify an organism type from the specified lineage.

Parameters:

lineage - lineage, must not be null

Returns:

an organism type from the specified lineage