[BioC] ENSG00000007968 broken

Wolfgang Huber huber at ebi.ac.uk
Fri Aug 29 19:22:33 CEST 2008


Dear Amanda

sessionInfo() ?

Also, please give a reproducible example (e.g. how did you construct the
object "mart"?)

 Bw Wolfgang

29/08/2008 02:42 Amanda Miotto scripsit
> When using
> ENSG00000007968
> GenomeGraphs breaks, giving the following. Works fine for everything else
> 
>> gene = new("Gene", id = "ENSG00000007968",type = "ensembl_gene_id",
> biomart = mart)
> V1
> 1
> <head>
> 2
> <meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
> 3
> <meta name="description" content="The European Bioinformatics Institute" />
> 4
> <meta name="author" content="EBI Web Team" />
> 5
> <meta http-equiv="Content-Language" content="en-GB" />
> 6
> <meta http-equiv="Window-target" content="_top" />
> 7
> <meta name="no-email-collection"
> content="http://www.unspam.com/noemailcollection/" />
> 8
> <title>EBI Web Application Failure messagee</title>
> 9
> <link rel="stylesheet" href="http://www.ebi.ac.uk/inc/css/contents.css"
> type="text/css" />
> 10
> <link rel="stylesheet" href="http://www.ebi.ac.uk/inc/css/userstyles.css"
> type="text/css" />
> 11
> <script src="http://www.ebi.ac.uk/inc/js/contents.js"
> type="text/javascript"></script>
> 12
> <link rel="SHORTCUT ICON" href="http://www.ebi.ac.uk/bookmark.ico" />
> 13
> </head>
> 14
> <body onload="if(navigator.userAgent.indexOf('MSIE') != -1)
> document.getElementById('head').allowTransparency = true;">
> 15
> <div class="headerdiv" id="headerdiv" style="position:absolute; z-index:
> 1;">
> 16             <iframe src="http://www.ebi.ac.uk/inc/head.html" name="head"
> id="head" frameborder="0" marginwidth="0px" marginheight="0px"
> scrolling="no" width="100%" style="position:absolute; z-index: 1; height:
> 57px;"></iframe>
> 17
> </div>
> 18
> <div class="contents" id="contents">
> 19
> <table class="contentspane" id="contentspane" summary="The main content
> pane of the page">
> 20
> <tr>
> 21
> <td class="contentsarea" id="contentsarea">
> 22                                                   <iframe
> src="http://www.ebi.ac.uk/errors/failure.html" name="downtime"
> frameborder="0" marginwidth="0px" marginheight="0px" scrolling="no"
> width="100%" height="320px"></iframe>
> 23
> </td>
> 24
> </tr>
> 25
> </table>
> 26
> <table class="footerpane" id="footerpane" summary="The main footer pane of
> the page">
> 27
> <tr>
> 28
> <td colspan ="4" class="footerrow">
> 29
> <div class="footerdiv" id="footerdiv"  style="z-index: 2">
> 30                                                 <iframe
> src="http://www.ebi.ac.uk/inc/foot.html" name="foot" frameborder="0"
> marginwidth="0px" marginheight="0px" scrolling="no"  height="22px"
> width="100%"  style="z-index:2;"/>
> 31
> </div>
> 32
> </td>
> 33
> </tr>
> 34
> </table>
> 35
> <script src="http://www.ebi.ac.uk/inc/js/footer.js"
> type="text/javascript"></script>
> 36
> </div>
> 37
> </body>
> 38
> </html>
> Error in getBM(c("structure_gene_stable_id",
> "structure_transcript_stable_id",  :
>   Number of columns in the query result doesn't equal number of attributes
> in query.  This is probably an internal error, please report.
> 
> 
> 
> 
> 
> Amanda Miotto
> a.miotto at griffith.edu.au
> 
> Software Engineer.
> Research Computing Services
> INFORMATION SERVICES
> Griffith University, NATHAN 4111, AUSTRALIA
> Phone:  +61 7 37354419  Fax:  +61 7 37356650
> Web:    http://eResearch.griffith.edu.au/
> 
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