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<p>Dear Thomas,</p>
<p>You're right it works now!<br>
</p>
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library(biomaRt)<br>
ensembl <- useMart("ENSEMBL_MART_ENSEMBL",
dataset="drerio_gene_ensembl", host="jul2016.archive.ensembl.org")
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<![endif]--><!--StartFragment--><!--EndFragment--><br>
<br>
Thanks! <br>
Julien<br>
<br>
<div class="moz-cite-prefix">On 8/31/16 10:59 AM, Thomas Maurel
wrote:<br>
</div>
<blockquote
cite="mid:BD6B1F4B-82ED-44F2-9A44-BC54390298FF@ebi.ac.uk"
type="cite">
<meta http-equiv="Content-Type" content="text/html;
charset=windows-1252">
Dear Julien,
<div class=""><br class="">
</div>
<div class="">Our ensembl gene mart via the R package seems to be
working fine for me this morning:</div>
<div class=""><br class="">
</div>
<div class="">> mart <-
useMart("ENSEMBL_MART_ENSEMBL",dataset="hsapiens_gene_ensembl",host="<a
moz-do-not-send="true" href="http://www.ensembl.org" class="">www.ensembl.org</a>")</div>
<div class="">
<div class="">>
getBM(attributes=c('ensembl_gene_id','ensembl_transcript_id','description'),filters
= 'ensembl_gene_id', values = 'ENSG00000252303', mart = mart)</div>
<div class=""> ensembl_gene_id ensembl_transcript_id
description</div>
<div class="">1 ENSG00000252303 ENST00000516494 RNA, U6
small nuclear 280, pseudogene [Source:HGNC
Symbol;Acc:HGNC:47243]</div>
</div>
<div class=""><br class="">
</div>
<div class="">Could you please let me know:</div>
<blockquote style="margin: 0 0 0 40px; border: none; padding:
0px;" class="">
<div class="">1) The mart that you are using</div>
<div class="">2) The ensembl website that you are pointing to</div>
<div class="">3) The error that you are getting</div>
</blockquote>
<div class=""><br class="">
</div>
<div class="">Thanks a lot,</div>
<div class="">Regards,</div>
<div class="">Thomas</div>
<div class="">
<div>
<blockquote type="cite" class="">
<div class="">On 31 Aug 2016, at 07:51, Julien Roux <<a
moz-do-not-send="true" href="mailto:julien.roux@unil.ch"
class="">julien.roux@unil.ch</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">
<div class="">Dear Ensembl team,<br class="">
<br class="">
Thanks for bringing the website up, it was missed a lot!
;)<br class="">
<br class="">
This morning I have trouble to connect to the database
via the R package BiomaRt (the web version of biomart
works just fine). Is this related to the downtime?<br
class="">
<br class="">
Best,<br class="">
<br class="">
Julien<br class="">
<br class="">
-- <br class="">
Julien Roux<br class="">
Department of Ecology and Evolution, University of
Lausanne, Switzerland<br class="">
<a moz-do-not-send="true"
href="http://www.unil.ch/dee/home/menuinst/people/post-docs--associates/dr-julien-roux.html"
class="">http://www.unil.ch/dee/home/menuinst/people/post-docs--associates/dr-julien-roux.html</a><br
class="">
Tel: +41 78 700 2931<br class="">
Twitter: @_julien_roux<br class="">
<br class="">
<br class="">
_______________________________________________<br
class="">
Dev mailing list <a class="moz-txt-link-abbreviated" href="mailto:Dev@ensembl.org">Dev@ensembl.org</a><br class="">
Posting guidelines and subscribe/unsubscribe info:
<a class="moz-txt-link-freetext" href="http://lists.ensembl.org/mailman/listinfo/dev">http://lists.ensembl.org/mailman/listinfo/dev</a><br
class="">
Ensembl Blog: <a class="moz-txt-link-freetext" href="http://www.ensembl.info/">http://www.ensembl.info/</a><br class="">
</div>
</div>
</blockquote>
</div>
<br class="">
<div class="">
<div class="">
<div class="" style="orphans: 2; widows: 2;">--</div>
<div class="" style="orphans: 2; widows: 2;">Thomas Maurel<br
class="">
Bioinformatician - Ensembl Production Team<br class="">
European Bioinformatics Institute (EMBL-EBI)<br class="">
European Molecular Biology Laboratory<br class="">
Wellcome Trust Genome Campus<br class="">
Hinxton<br class="">
Cambridge CB10 1SD<br class="">
United Kingdom</div>
</div>
</div>
<br class="">
</div>
<br>
<fieldset class="mimeAttachmentHeader"></fieldset>
<br>
<pre wrap="">_______________________________________________
Dev mailing list <a class="moz-txt-link-abbreviated" href="mailto:Dev@ensembl.org">Dev@ensembl.org</a>
Posting guidelines and subscribe/unsubscribe info: <a class="moz-txt-link-freetext" href="http://lists.ensembl.org/mailman/listinfo/dev">http://lists.ensembl.org/mailman/listinfo/dev</a>
Ensembl Blog: <a class="moz-txt-link-freetext" href="http://www.ensembl.info/">http://www.ensembl.info/</a>
</pre>
</blockquote>
<br>
<pre class="moz-signature" cols="72">--
Julien Roux
Department of Ecology and Evolution, University of Lausanne, Switzerland
<a class="moz-txt-link-freetext" href="http://www.unil.ch/dee/home/menuinst/people/post-docs--associates/dr-julien-roux.html">http://www.unil.ch/dee/home/menuinst/people/post-docs--associates/dr-julien-roux.html</a>
Tel: +41 78 700 2931
Twitter: @_julien_roux
</pre>
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