Hi Isaac,
I think the issue is with the openid4java library we are using for OpenID
communication.
If you have the source code available you can try inserting the following code
in the org.biomart.api.rest.UserResource class, at the beginning of the
constructor (before instantiating ConsumerManager).
String proxyHost = System.getProperty( "http.proxyHost",
System.getProperty("socksProxyHost") );
String proxyPort = System.getProperty( "http.proxyPort",
System.getProperty("socksProxyPort") );
if (proxyHost != null && proxyPort != null) {
org.openid4java.util.ProxyProperties proxyProps = new
org.openid4java.util.ProxyProperties();
proxyProps.setProxyHostName(proxyHost);
proxyProps.setProxyPort( Integer.parseInt(proxyPort) );
org.openid4java.util.HttpClientFactory.setProxyProperties(proxyProps);
}
http://code.google.com/p/openid4java/wiki/ConsumerForwardProxy
-jack
From: Isaac cano <[email protected]<mailto:[email protected]>>
Date: Thu, 13 Oct 2011 04:04:28 -0400
To: Jack Hsu <[email protected]<mailto:[email protected]>>
Cc: BioMart Users <[email protected]<mailto:[email protected]>>
Subject: Re: [BioMart Users] OpenID -- Error 400 - Bad request
Hi Jack,
Thanks for your answer. I assume then that the openID functionality is also
supported when using proxy settings. I'll continue investigating why I can't
use the openID functionality when using proxies, both HTTP or SOCKS (other
communications such us accessing to other marts works for me when setting the
proxy).
Thanks!
Isaac
2011/10/11 Jack Hsu <[email protected]<mailto:[email protected]>>
Hi Isaac,
BioMart only supports proxy settings that is built into Java networking.
(http://download.oracle.com/javase/6/docs/technotes/guides/net/proxies.html)
It may be the case here that the default Java settings are not enough to use
the SOCKS proxy server. We currently don't have a way to support proxy settings
beyond through JVM system properties.
-jack
From: Isaac cano <[email protected]<mailto:[email protected]>>
Date: Tue, 11 Oct 2011 04:53:48 -0400
To: BioMart Users <[email protected]<mailto:[email protected]>>
Subject: [BioMart Users] OpenID -- Error 400 - Bad request
Dear BioMart users,
I'm running BioMart 0.8 RC6 in a server that is connected to Internet through a
proxy/socks server. I've configured the biomart.all.properties xml file with
the corresponding proxy/socks setting and every connection from/to our BioMart
server to other marts like Ensembl is working but the OpenID functionality is
not. I receive the following error messages to the error log file:
2011-10-11 10:58:49,908 WARN [31538514@qtp-31278839-8:RealmVerifier.java:107]:
RP discovery / realm validation disabled;
2011-10-11 10:58:49,912 INFO
[31538514@qtp-31278839-8:ConsumerManager.java:286]: Associations disabled.
2011-10-11 10:58:49,912 WARN [31538514@qtp-31278839-8:RealmVerifier.java:107]:
RP discovery / realm validation disabled;
2011-10-11 10:58:49,918 INFO [31538514@qtp-31278839-8:Discovery.java:128]:
Starting discovery on URL identifier: https://www.google.com/accounts/o8/id
2011-10-11 10:58:50,023 INFO
[31538514@qtp-31278839-8:HttpMethodDirector.java:438]: I/O exception
(java.net.SocketException) caught when processing request: Can't connect to
SOCKS proxy:Connection refused
And the corresponding message that is shown in the biomart portal (openID
pop-up) is the following:
<html> <head> <meta http-equiv="Content-Type" content="text/html;
charset=ISO-8859-1"/> <title>Error 400 Bad Request</title> </head>
<body><h2>HTTP ERROR 400</h2> <p>Problem accessing /martservice/user/auth.
Reason: <pre> Bad Request</pre></p><hr /><i><small>Powered by
Jetty://</small></i><br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/>
<br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> <br/> </body> </html>
Is the OpendID functionality supported in the current release when using
proxy/socks servers?
Thanks in advance,
--
Isaac Cano
Bioinformatics
Linkcare Health Services SL
C/Villarroel 170
08036 - Barcelona
Tel.: (+34)932 275 400, ext.
4182<tel:%28%2B34%29932%20275%20400%2C%20ext.%204182>\4523
Mobile: (+34) 666 186 748<tel:%28%2B34%29%20666%20186%20748>
Fax: (+34) 932 275 455<tel:%28%2B34%29%20932%20275%20455>
[email protected]<mailto:[email protected]>
--
Isaac Cano
Bioinformatics
Linkcare Health Services SL
C/Villarroel 170
08036 - Barcelona
Tel.: (+34)932 275 400, ext. 4182\4523
Mobile: (+34) 666 186 748
Fax: (+34) 932 275 455
[email protected]<mailto:[email protected]>
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