From 359282f422c257c41a06f219501b219a9a1967b6 Mon Sep 17 00:00:00 2001 From: Jim Procter Date: Tue, 26 Apr 2016 16:57:05 +0100 Subject: [PATCH] JAL-2079 update URL for RFAM and PFAM sources --- src/jalview/ws/dbsources/PfamFull.java | 2 +- src/jalview/ws/dbsources/PfamSeed.java | 2 +- src/jalview/ws/dbsources/RfamFull.java | 3 ++- src/jalview/ws/dbsources/RfamSeed.java | 2 +- 4 files changed, 5 insertions(+), 4 deletions(-) diff --git a/src/jalview/ws/dbsources/PfamFull.java b/src/jalview/ws/dbsources/PfamFull.java index 4f5b8f5..62b9686 100644 --- 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() { - 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 --- 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() { - 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 --- 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() { - 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 --- 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() { - 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="; } -- 1.7.10.2