X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fext%2Fparadise%2FAnnotate3D.java;h=5b75206147a3fc549f58ed6f3cf31b03764450d4;hb=37de9310bec3501cbc6381e0c3dcb282fcaad812;hp=55c3c1dd4cf9342e75f38dad3af4d2158cef5f80;hpb=be32c14cd8e48fe0a207cd7030cb9cd46f894678;p=jalview.git
diff --git a/src/jalview/ext/paradise/Annotate3D.java b/src/jalview/ext/paradise/Annotate3D.java
index 55c3c1d..5b75206 100644
--- a/src/jalview/ext/paradise/Annotate3D.java
+++ b/src/jalview/ext/paradise/Annotate3D.java
@@ -45,13 +45,20 @@ import org.json.simple.parser.ParseException;
*
* @author jimp
*
- * History: v1.0 revised from original due to refactoring of
- * paradise-ubmc.u-strasbg.fr/webservices/annotate3d to
- * http://arn-ibmc.in2p3.fr/api/compute/2d?tool=rnaview
+ * @version v1.0 revised from original due to refactoring of
+ * paradise-ubmc.u-strasbg.fr/webservices/annotate3d to
+ * http://arn-ibmc.in2p3.fr/api/compute/2d?tool=rnaview
+ * See also testing URL from fjossinet:
+ * http://charn2-ibmc.u-strasbg.fr:8080/api/compute/2d
+ * If in doubt, check against the REST client at:
+ * https://github.com/fjossinet/RNA-Science
+ * -Toolbox/blob/master/pyrna/restclient.py
*/
public class Annotate3D
{
- private static String twoDtoolsURL = "http://arn-ibmc.in2p3.fr/api/compute/2d";
+ // also test with
+ // "http://charn2-ibmc.u-strasbg.fr:8080/api/compute/2d";
+ private static String twoDtoolsURL = "http://arn-ibmc.in2p3.fr/api/compute/2d?tool=rnaview";
private static ContentHandler createContentHandler()
{
@@ -137,7 +144,8 @@ public class Annotate3D
// return processJsonResponseFor(HttpClientUtils.doHttpUrlPost(twoDtoolsURL,
// vals));
ArrayList readers = new ArrayList();
- final BufferedReader postResponse = HttpClientUtils.doHttpUrlPost(twoDtoolsURL, vals, 0, 0);
+ final BufferedReader postResponse = HttpClientUtils.doHttpUrlPost(
+ twoDtoolsURL, vals, 0, 0);
readers.add(postResponse);
return readers.iterator();
@@ -190,14 +198,16 @@ public class Annotate3D
@Override
public void remove()
{
- throw new Error(MessageManager.getString("error.not_implemented_remove"));
+ throw new Error(
+ MessageManager.getString("error.not_implemented_remove"));
}
@Override
protected Object clone() throws CloneNotSupportedException
{
- throw new CloneNotSupportedException(MessageManager.getString("error.not_implemented_clone"));
+ throw new CloneNotSupportedException(
+ MessageManager.getString("error.not_implemented_clone"));
}
@Override
@@ -218,7 +228,10 @@ public class Annotate3D
};
} catch (Exception foo)
{
- throw new Exception(MessageManager.getString("exception.couldnt_parse_responde_from_annotated3d_server"), foo);
+ throw new Exception(
+ MessageManager
+ .getString("exception.couldnt_parse_responde_from_annotated3d_server"),
+ foo);
}
}