X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Fdbsources%2Fdas%2Fdatamodel%2FDasSourceRegistry.java;h=04a1b6054295dc59094406485a6c52f874e031cb;hb=b2f9a8d7bce642ff4011bc6d49e02bb0569fbb11;hp=cf782024e4326487e06d4693822d49e03bb4a08a;hpb=daf7e11e56c1c5d99c2c1bc0113f33d2f0375f93;p=jalview.git
diff --git a/src/jalview/ws/dbsources/das/datamodel/DasSourceRegistry.java b/src/jalview/ws/dbsources/das/datamodel/DasSourceRegistry.java
index cf78202..04a1b60 100644
--- a/src/jalview/ws/dbsources/das/datamodel/DasSourceRegistry.java
+++ b/src/jalview/ws/dbsources/das/datamodel/DasSourceRegistry.java
@@ -1,5 +1,20 @@
-/**
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.1)
+ * Copyright (C) 2014 The Jalview Authors
+ *
+ * This file is part of Jalview.
*
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see .
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
*/
package jalview.ws.dbsources.das.datamodel;
@@ -7,19 +22,12 @@ import java.net.HttpURLConnection;
import java.net.MalformedURLException;
import java.net.URL;
import java.util.ArrayList;
-import java.util.Collection;
import java.util.Enumeration;
import java.util.HashMap;
import java.util.Hashtable;
import java.util.List;
-import java.util.Map;
-import java.util.Set;
import java.util.StringTokenizer;
-import java.util.Vector;
-
-import javax.swing.JOptionPane;
-import org.apache.http.auth.InvalidCredentialsException;
import org.biodas.jdas.client.ConnectionPropertyProviderI;
import org.biodas.jdas.client.SourcesClient;
import org.biodas.jdas.client.threads.MultipleConnectionPropertyProviderI;
@@ -46,7 +54,7 @@ public class DasSourceRegistry implements DasSourceRegistryI,
private Hashtable localSources = null;
- public static String DEFAULT_REGISTRY = "http://www.dasregistry.org/das1/sources/";
+ public static String DEFAULT_REGISTRY = "http://www.dasregistry.org/das/";
/**
* true if thread is running and we are talking to DAS registry service
@@ -69,6 +77,14 @@ public class DasSourceRegistry implements DasSourceRegistryI,
DEFAULT_REGISTRY);
registry = DEFAULT_REGISTRY;
}
+ if (registry.lastIndexOf("sources.xml") == registry.length() - 11)
+ {
+ // no trailing sources.xml document for registry in JDAS
+ jalview.bin.Cache.setProperty(
+ jalview.bin.Cache.DAS_REGISTRY_URL,
+ registry = registry.substring(0,
+ registry.lastIndexOf("sources.xml")));
+ }
return registry;
}
@@ -82,7 +98,7 @@ public class DasSourceRegistry implements DasSourceRegistryI,
private List getDASSources()
{
- return getDASSources(getDasRegistryURL());
+ return getDASSources(getDasRegistryURL(), this);
}
/**
@@ -91,20 +107,42 @@ public class DasSourceRegistry implements DasSourceRegistryI,
* @param registryURL
* return sources from registryURL
*/
- private static List getDASSources(String registryURL)
+ private static List getDASSources(String registryURL,
+ MultipleConnectionPropertyProviderI registry)
{
try
{
URL url = new URL(registryURL);
org.biodas.jdas.client.SourcesClientInterface client = new SourcesClient();
- SOURCES sources = client.fetchDataRegistry(registryURL, null, null, null, null, null, null);
+ SOURCES sources = client.fetchDataRegistry(registryURL, null, null,
+ null, null, null, null);
List