Hi Tom, could you send me your MConfigurator XML please? (I am assuming you are using 08 rc6?)
a On Mon, Aug 6, 2012 at 7:18 AM, Tom Hait <[email protected]> wrote: > Hi Arek, > > Thank you very much for your reply and help. > It seems that when running ./dist/scripts/martconfigurator.sh in my > terminal the GUI works. > When importing from ensembl all the organisms using "ADD SOURCE" it also > works. > When trying to configure the "root" of hsapiens_gene_ensembl_config - > there are yellow triangles on the Attributes and Filters. > Also after saving .xml file and opening a server trying to configure the > attributes and filters via web doesn't give any results. > > Thanks, > > Tom. > On Sun, Aug 5, 2012 at 7:39 PM, Arek Kasprzyk <[email protected]>wrote: > >> Hi Tom, >> can you confirm that the portal is running ok on your laptop, ei you can >> click on the GUI and get your queries working interactively? >> >> is it just the programmatic access that is the problem? >> >> a >> >> On Sun, Aug 5, 2012 at 10:38 AM, Tom Hait <[email protected]> wrote: >> >>> Hello, >>> >>> My name is Tom and i'm a student in bioinformatics. >>> I installed biomart version 0.8 as instructed in page 5 of the manual. >>> than I tried to run some examples: >>> exapmle 1 from page 75 - query.xml >>> I got the result: >>> *<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" " >>> http://www.w3.org/TR/html4/loose.dtd";>* *<HTML><HEAD><META >>> HTTP-EQUIV="Content-Type" CONTENT="text/html; charset=iso-8859-1">* >>> *<TITLE>ERROR: >>> The requested URL could not be retrieved</TITLE>* *<STYLE >>> type="text/css"><!--BODY{background-color:#ffffff;font-family:verdana,sans-serif}PRE{font-family:sans-serif}--></STYLE> >>> * *</HEAD><BODY>* *<H1>ERROR</H1>* *<H2>The requested URL could not be >>> retrieved</H2>* *<HR noshade size="1px">* *<P>* *While trying to >>> retrieve the URL:* *<A HREF="http://localhost:9000/martservice/results";> >>> http://localhost:9000/martservice/results</A>* *<P>* *The following >>> error was encountered:* *<UL>* *<LI>* *<STRONG>* *Connection to >>> 127.0.0.1 Failed* *</STRONG>* *</UL>* >>> it couldn't connect to biomart server. >>> than i tried to run the example from page 92 and the results are that it >>> couldn't find the relevant packages - portal.java, query.java etc. >>> >>> I will appreciate any kind of help, >>> >>> Best regards, >>> >>> Tom. >>> >>> _______________________________________________ >>> Users mailing list >>> [email protected] >>> https://lists.biomart.org/mailman/listinfo/users >>> >>> >> >> >> -- >> Arek Kasprzyk, MD, MSc, PhD >> BioMart Project Lead >> www.biomart.org >> > >
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