org.biojava.nbio.structure.scop

Class BerkeleyScopInstallation

java.lang.Object

org.biojava.nbio.structure.scop.ScopInstallation

org.biojava.nbio.structure.scop.BerkeleyScopInstallation

All Implemented Interfaces:

LocalScopDatabase, ScopDatabase

public class BerkeleyScopInstallation
extends ScopInstallation

SCOPe: The Structural Classification of Proteins (extended) at Berkeley Lab and UC Berkeley (http://scop.berkeley.edu/).

This provides updates to the MRC SCOP hierarchical classification.

Field Summary

Fields

Modifier and Type	Field and Description
static Map<String,String[]>	EQUIVALENT_VERSIONS A map from SCOP version names which the Berkeley server offers as a download to an array of equivalent deprecated SCOP version names.

Fields inherited from class org.biojava.nbio.structure.scop.ScopInstallation

claFileName, comFileName, DEFAULT_VERSION, desFileName, FILESPLIT, hieFileName, NEWLINE, SCOP_DOWNLOAD, SCOP_DOWNLOAD_ALTERNATE, scopVersion

Constructor Summary

Constructors

Constructor and Description
BerkeleyScopInstallation()

Method Summary

Methods inherited from class org.biojava.nbio.structure.scop.ScopInstallation

addMirror, downloadClaFile, downloadComFile, downloadDesFile, downloadFileFromRemote, downloadHieFile, ensureClaInstalled, ensureComInstalled, ensureDesInstalled, ensureHieInstalled, filterByClassificationId, filterByDescription, filterByDomainName, getByCategory, getCacheLocation, getClaFilename, getComFilename, getComments, getDesFilename, getDomainByScopID, getDomainsForPDB, getHieFilename, getMirrors, getScopDescriptionBySunid, getScopDomainsBySunid, getScopNode, getScopVersion, getTree, nullifyComments, setCacheLocation, setScopVersion

Methods inherited from class java.lang.Object

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

Field Detail

EQUIVALENT_VERSIONS

public static final Map<String,String[]> EQUIVALENT_VERSIONS

A map from SCOP version names which the Berkeley server offers as a download to an array of equivalent deprecated SCOP version names.

Constructor Detail

BerkeleyScopInstallation

public BerkeleyScopInstallation()