Hi Jack, sure, whatever works correctly for you. thank you a
On Thu, Oct 13, 2011 at 2:53 PM, Jack Hsu <[email protected]> wrote: > Hi Arek, > > We'll have to do a bit more testing before making any commits to rc6 and > rc7. > > Seems like there may be some problems with SOCKS proxy, even with the > proposed solution. > > -jack > > From: Arek Kasprzyk <[email protected]> > Date: Thu, 13 Oct 2011 11:45:52 -0400 > To: Jack Hsu <[email protected]> > Cc: Isaac cano <[email protected]>, BioMart Users <[email protected]> > > Subject: Re: [BioMart Users] OpenID -- Error 400 - Bad request > > Hi Jack, > perhaps it would be useful to add this small fix into rc6 so other users > could also benefit from it? > > > a > > > On Thu, Oct 13, 2011 at 10:15 AM, Jack Hsu <[email protected]> wrote: > >> 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]> >> Date: Thu, 13 Oct 2011 04:04:28 -0400 >> To: Jack Hsu <[email protected]> >> Cc: BioMart Users <[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]> >> >>> 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]> >>> Date: Tue, 11 Oct 2011 04:53:48 -0400 >>> To: BioMart Users <[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\4523 >>> Mobile: (+34) 666 186 748 >>> Fax: (+34) 932 275 455 >>> [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] >> >> >> _______________________________________________ >> Users mailing list >> [email protected] >> https://lists.biomart.org/mailman/listinfo/users >> >> >
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