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Merge branch 'develop' into features/JAL-1793VCF
[jalview.git]
/
src
/
jalview
/
ws
/
dbsources
/
PfamSeed.java
diff --git
a/src/jalview/ws/dbsources/PfamSeed.java
b/src/jalview/ws/dbsources/PfamSeed.java
index
2ea75af
..
33c39b1
100644
(file)
--- a/
src/jalview/ws/dbsources/PfamSeed.java
+++ b/
src/jalview/ws/dbsources/PfamSeed.java
@@
-20,15
+20,13
@@
*/
package jalview.ws.dbsources;
*/
package jalview.ws.dbsources;
-import jalview.ws.seqfetcher.DbSourceProxy;
-
/**
* flyweight class specifying retrieval of Seed alignments from PFAM
*
* @author JimP
*
*/
/**
* flyweight class specifying retrieval of Seed alignments from PFAM
*
* @author JimP
*
*/
-public class PfamSeed extends Pfam implements DbSourceProxy
+public class PfamSeed extends Pfam
{
public PfamSeed()
{
{
public PfamSeed()
{
@@
-40,9
+38,16
@@
public class PfamSeed extends Pfam implements DbSourceProxy
*
* @see jalview.ws.dbsources.Pfam#getPFAMURL()
*/
*
* @see jalview.ws.dbsources.Pfam#getPFAMURL()
*/
+ @Override
protected String getXFAMURL()
{
protected String getXFAMURL()
{
- return "http://pfam.sanger.ac.uk/family/alignment/download/format?alnType=seed&format=stockholm&order=t&case=l&gaps=default&entry=";
+ return "http://pfam.xfam.org/family/";
+ }
+
+ @Override
+ public String getXFAMURLSUFFIX()
+ {
+ return "/alignment/seed";
}
/*
}
/*
@@
-50,16
+55,19
@@
public class PfamSeed extends Pfam implements DbSourceProxy
*
* @see jalview.ws.seqfetcher.DbSourceProxy#getDbName()
*/
*
* @see jalview.ws.seqfetcher.DbSourceProxy#getDbName()
*/
+ @Override
public String getDbName()
{
return "PFAM (Seed)";
}
public String getDbName()
{
return "PFAM (Seed)";
}
+ @Override
public String getDbSource()
{
return jalview.datamodel.DBRefSource.PFAM; // archetype source
}
public String getDbSource()
{
return jalview.datamodel.DBRefSource.PFAM; // archetype source
}
+ @Override
public String getTestQuery()
{
return "PF03760";
public String getTestQuery()
{
return "PF03760";