/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9)
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b2)
* Copyright (C) 2015 The Jalview Authors
*
* This file is part of Jalview.
*/
package jalview.ws.dbsources;
-import jalview.ws.seqfetcher.DbSourceProxy;
-
/**
* Flyweight class specifying retrieval of Seed family alignments from RFAM
*
* @author Lauren Michelle Lui
*
*/
-public class RfamSeed extends Rfam implements DbSourceProxy
+public class RfamSeed extends Rfam
{
public RfamSeed()
{
*
* @see jalview.ws.dbsources.Rfam#getRFAMURL()
*/
+ @Override
protected String getXFAMURL()
{
- return "http://rfam.sanger.ac.uk/family/alignment/download/format?alnType=seed&nseLabels=0&format=stockholm&acc=";
+ return "http://rfam.xfam.org/family/";
// Janelia Farms url
// "http://rfam.janelia.org/cgi-bin/getalignment?type=seed&fmt=stockholm&acc=";
}
+ @Override
+ public String getXFAMURLSUFFIX()
+ {
+ return "/alignment";
+ }
+
/*
* (non-Javadoc)
*
* @see jalview.ws.seqfetcher.DbSourceProxy#getDbName()
*/
+ @Override
public String getDbName()
{
return "RFAM (Seed)";
}
+ @Override
public String getDbSource()
{
return getDbName(); // so we have unique DbSource string.
}
+ @Override
public String getTestQuery()
{
return "RF00014";
} // http://rfam.janelia.org/cgi-bin/getdesc?acc=RF00014
+ @Override
public String getDbVersion()
{
return null;