org.proteios.core
Class LsidElement

java.lang.Object
  org.proteios.core.LsidElement

public class LsidElement
extends Object

Nested Class Summary

protected static class

LsidElement.SequenceRetriever This class will retrieve the data from a given LSID.

Constructor Summary

LsidElement(String name, String identifier_name)

Method Summary

protected String	calculateLsid()
String	getAccession_number() hibernate.property column="`accession_number`"
String	getIdentifier_name()
String	getLsid() hibernate.property column="`lsid`"
String	getName()
URL	getURL() Will return a URL to an online resource where more info on the protein can be found.
void	setAccession_number(String acc)

Methods inherited from class java.lang.Object

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

Constructor Detail

LsidElement

public LsidElement(String name,
                   String identifier_name)

Method Detail

getName

public String getName()

getIdentifier_name

public String getIdentifier_name()

getLsid

public String getLsid()

hibernate.property column="`lsid`"

getAccession_number

public String getAccession_number()

hibernate.property column="`accession_number`"

setAccession_number

public void setAccession_number(String acc)

calculateLsid

protected String calculateLsid()

getURL

public URL getURL()
           throws BaseException

Will return a URL to an online resource where more info on the protein can be found. Requires that the LSID contains a URN of the format "urn:lsid:thep.lu.se:uniprot:*". For now it will only work with uniprot entries.

Returns:

URL from lsid or null if no lsid.

Throws:

BaseException