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JAL-2079 update URL for RFAM and PFAM sources
author
Jim Procter
<jprocter@issues.jalview.org>
Tue, 26 Apr 2016 15:57:05 +0000
(16:57 +0100)
committer
Jim Procter
<jprocter@issues.jalview.org>
Tue, 26 Apr 2016 16:42:57 +0000
(17:42 +0100)
src/jalview/ws/dbsources/PfamFull.java
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src/jalview/ws/dbsources/PfamSeed.java
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src/jalview/ws/dbsources/RfamFull.java
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src/jalview/ws/dbsources/RfamSeed.java
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diff --git
a/src/jalview/ws/dbsources/PfamFull.java
b/src/jalview/ws/dbsources/PfamFull.java
index
4f5b8f5
..
62b9686
100644
(file)
--- a/
src/jalview/ws/dbsources/PfamFull.java
+++ b/
src/jalview/ws/dbsources/PfamFull.java
@@
-40,7
+40,7
@@
public class PfamFull extends Pfam
@Override
protected String getXFAMURL()
{
@Override
protected String getXFAMURL()
{
- return "http://pfam.sanger.ac.uk/family/alignment/download/format?alnType=full&format=stockholm&order=t&case=l&gaps=default&entry=";
+ return "http://pfam.xfam.org/family/alignment/download/format?alnType=full&format=stockholm&order=t&case=l&gaps=default&entry=";
}
/*
}
/*
diff --git
a/src/jalview/ws/dbsources/PfamSeed.java
b/src/jalview/ws/dbsources/PfamSeed.java
index
be8f044
..
053953c
100644
(file)
--- a/
src/jalview/ws/dbsources/PfamSeed.java
+++ b/
src/jalview/ws/dbsources/PfamSeed.java
@@
-42,7
+42,7
@@
public class PfamSeed extends Pfam
@Override
protected String getXFAMURL()
{
@Override
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/alignment/download/format?alnType=seed&format=stockholm&order=t&case=l&gaps=default&entry=";
}
/*
}
/*
diff --git
a/src/jalview/ws/dbsources/RfamFull.java
b/src/jalview/ws/dbsources/RfamFull.java
index
e1e9e9a
..
3053363
100644
(file)
--- a/
src/jalview/ws/dbsources/RfamFull.java
+++ b/
src/jalview/ws/dbsources/RfamFull.java
@@
-42,7
+42,8
@@
public class RfamFull extends Rfam
@Override
protected String getXFAMURL()
{
@Override
protected String getXFAMURL()
{
- return "http://rfam.sanger.ac.uk/family/alignment/download/format?alnType=full&nseLabels=0&format=stockholm&acc=";
+ return "http://rfam.xfam.org/family/alignment/download/format?alnType=full&nseLabels=0&format=stockholm&acc=";
+
}
/*
}
/*
diff --git
a/src/jalview/ws/dbsources/RfamSeed.java
b/src/jalview/ws/dbsources/RfamSeed.java
index
2850fd5
..
c7851f2
100644
(file)
--- a/
src/jalview/ws/dbsources/RfamSeed.java
+++ b/
src/jalview/ws/dbsources/RfamSeed.java
@@
-42,7
+42,7
@@
public class RfamSeed extends Rfam
@Override
protected String getXFAMURL()
{
@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/alignment/download/format?alnType=seed&nseLabels=0&format=stockholm&acc=";
// Janelia Farms url
// "http://rfam.janelia.org/cgi-bin/getalignment?type=seed&fmt=stockholm&acc=";
}
// Janelia Farms url
// "http://rfam.janelia.org/cgi-bin/getalignment?type=seed&fmt=stockholm&acc=";
}