<div dir="ltr">Thank you, all seems to be well with the US site! Must have a been a weekend hiccup.<div><br></div><div>Cheers,</div><div>Paul</div></div><div class="gmail_extra"><br clear="all"><div><br><div>--</div><div>Paul Rigor</div>
<div><a href="http://www.ics.uci.edu/~prigor" target="_blank">http://www.ics.uci.edu/~prigor</a></div><div><div>"What we observe is not nature itself, but nature exposed to our method of questioning" ~ Werner Karl Heisenberg</div>
</div><div><br></div></div>
<br><br><div class="gmail_quote">On Sat, Feb 15, 2014 at 1:01 PM, Thomas Maurel <span dir="ltr"><<a href="mailto:maurel@ebi.ac.uk" target="_blank">maurel@ebi.ac.uk</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div style="word-wrap:break-word">Dear Paul,<div><br></div><div>The BiomaRt package from Bioconductor is pointing to <a href="http://www.biomart.org/" target="_blank">www.biomart.org</a> by default (which seems to be down at the moment), could you please report this issue to the <a href="http://biomart.org" target="_blank">biomart.org</a> user list (<a href="mailto:biomart-users@googlegroups.com" target="_blank">biomart-users@googlegroups.com</a>) as we don't look after the <a href="http://biomart.org" target="_blank">biomart.org</a> website.</div>
<div>In the meantime, you can change your host to <a href="http://ensembl.org/" target="_blank">ensembl.org</a> to access out data by doing the following:</div><blockquote style="margin:0 0 0 40px;border:none;padding:0px">
ensembl <- useMart(biomart="ENSEMBL_MART_ENSEMBL", host="<a href="http://www.ensembl.org/" target="_blank">www.ensembl.org</a>", path="/biomart/martservice")</blockquote><div><br></div><div>
Hope this helps,</div><div>Regards,</div><div>Thomas<div><div class="h5"><br><div><div>On 15 Feb 2014, at 20:40, Paul Rigor <<a href="mailto:paul.rigor@uci.edu" target="_blank">paul.rigor@uci.edu</a>> wrote:</div><br>
<blockquote type="cite"><div dir="ltr">That's odd. Both the website and webservices are unavailable. And from the biomart R package, I receive the following error message:<div><br></div><div><pre style="font-family:Monaco,monospace;font-size:12px;outline:none;border:none;margin-top:0px;margin-bottom:0px;line-height:17.399999618530273px;color:rgb(255,255,255);background-color:rgb(50,50,50);white-space:pre-wrap!important">
> ensembl = useMart("ensembl",dataset="mmusculus_gene_ensembl")
Request to BioMart web service failed. Verify if you are still connected to the internet. Alternatively the BioMart web service is temporarily down. Check <a href="http://www.biomart.org/" target="_blank">http://www.biomart.org</a> and verify if this website is available.
<span>Error: XML content does not seem to be XML: </span></pre></div><div><br></div><div>Anyone else encounter this issue? I should probably ping the BioConductor folks, but this was working until yesterday (Friday, 2/14/2014) afternoon.</div>
<div><br></div><div>Thanks,</div><div>Paul</div><div><br></div></div><div class="gmail_extra"><br clear="all"><div><br><div>--</div><div>Paul Rigor</div><div><a href="http://www.ics.uci.edu/~prigor" target="_blank">http://www.ics.uci.edu/~prigor</a></div>
<div>"What we observe is not nature itself, but nature exposed to our method of questioning" ~ Werner Karl Heisenberg</div><div><br></div></div>
<br><br><div class="gmail_quote">On Sat, Feb 15, 2014 at 10:45 AM, steve trevanion <span dir="ltr"><<a href="mailto:st3@sanger.ac.uk" target="_blank">st3@sanger.ac.uk</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div bgcolor="#FFFFFF" text="#000000">
Hi Paul,<br>
<br>
It's also OK for me, as is the uswest mirror. What error message are
you getting ?<br>
<br>
Steve<br>
<br>
<div>On 15/02/14 17:39, Paul Rigor wrote:<br>
</div>
<blockquote type="cite">
<div dir="ltr">Hi Andy,
<div>Unfortunately, it's still down =\ </div>
<div>~Paul</div>
</div>
<div class="gmail_extra"><div><br clear="all">
<div><br>
<div>--</div>
<div>Paul Rigor</div>
<div><a href="http://www.ics.uci.edu/%7Eprigor" target="_blank">http://www.ics.uci.edu/~prigor</a></div>
<div>
<div>"What we observe is not nature itself, but nature
exposed to our method of questioning" ~ Werner Karl
Heisenberg</div>
</div>
<div><br>
</div>
</div>
<br>
<br>
</div><div><div><div class="gmail_quote">On Sat, Feb 15, 2014 at 9:17 AM, Andy
Yates <span dir="ltr"><<a href="mailto:ayates@ebi.ac.uk" target="_blank">ayates@ebi.ac.uk</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div dir="auto">
<div>Hi Paul</div>
<div><br>
</div>
<div>I've not seen anything wrong with it from here in the
uk. Is it behaving better for you now?</div>
<div><br>
</div>
<div>Andy<br>
<br>
Sent from my tablet</div>
<div>
<div>
<div><br>
On 15 Feb 2014, at 01:22, Paul Rigor <<a href="mailto:paul.rigor@uci.edu" target="_blank">paul.rigor@uci.edu</a>>
wrote:<br>
<br>
</div>
<blockquote type="cite">
<div>
<div dir="ltr">Dear all,
<div>Just wondering if anyone else is having
trouble accessing biomart? I'm attempting to
access from southern California.</div>
<div>Thanks!</div>
<div>Paul<br clear="all">
<div><br>
<div>--</div>
<div>
Paul Rigor</div>
<div><a href="http://www.ics.uci.edu/%7Eprigor" target="_blank">http://www.ics.uci.edu/~prigor</a></div>
<div>
<div>"What we observe is not nature
itself, but nature exposed to our method
of questioning" ~ Werner Karl Heisenberg</div>
</div>
<div><br>
</div>
</div>
</div>
</div>
</div>
</blockquote>
</div>
</div>
<blockquote type="cite">
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<span style="border-collapse:separate;border-spacing:0px"><div style="word-wrap:break-word"><span style="border-spacing:0px;text-indent:0px;letter-spacing:normal;font-variant:normal;text-align:-webkit-auto;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;font-size:medium;white-space:normal;font-family:Helvetica;word-spacing:0px"><div style="word-wrap:break-word">
<span style="border-spacing:0px;text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;font-size:medium;white-space:normal;font-family:Helvetica;word-spacing:0px"><div style="word-wrap:break-word">
<span style="border-spacing:0px;text-indent:0px;letter-spacing:normal;font-variant:normal;font-style:normal;font-weight:normal;line-height:normal;border-collapse:separate;text-transform:none;font-size:medium;white-space:normal;font-family:Helvetica;word-spacing:0px"><div style="word-wrap:break-word">
<div>--</div><div>Thomas Maurel<br>Bioinformatician - Ensembl Production Team<br>European Bioinformatics Institute (EMBL-EBI)<br>European Molecular Biology Laboratory<br>Wellcome Trust Genome Campus<br>Hinxton<br>Cambridge CB10 1SD<br>
United Kingdom</div></div></span></div></span></div></span></div></span>
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