<div dir="auto">unsubscribe</div><br><div class="gmail_quote"><div dir="ltr">Em qui, 19 de abr de 2018 05:29, <<a href="mailto:dev-request@ensembl.org">dev-request@ensembl.org</a>> escreveu:<br></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Send Dev mailing list submissions to<br>
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Today's Topics:<br>
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1. Biomart connection (Pankaj Agarwal)<br>
2. Re: Biomart connection (Anne Lyle)<br>
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Message: 1<br>
Date: Wed, 18 Apr 2018 18:27:24 +0000<br>
From: Pankaj Agarwal <<a href="mailto:p.agarwal@duke.edu" target="_blank" rel="noreferrer">p.agarwal@duke.edu</a>><br>
To: "<a href="mailto:dev@ensembl.org" target="_blank" rel="noreferrer">dev@ensembl.org</a>" <<a href="mailto:dev@ensembl.org" target="_blank" rel="noreferrer">dev@ensembl.org</a>><br>
Subject: [ensembl-dev] Biomart connection<br>
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Hi,<br>
I am trying to connect to biomart through R as follows and sometimes it works fine and sometimes I get the following error (today it only giving the error)<br>
<br>
library("biomaRt")<br>
listMarts()<br>
biomart version<br>
1 ENSEMBL_MART_ENSEMBL Ensembl Genes 92<br>
2 ENSEMBL_MART_MOUSE Mouse strains 92<br>
3 ENSEMBL_MART_SNP Ensembl Variation 92<br>
4 ENSEMBL_MART_FUNCGEN Ensembl Regulation 92<br>
<br>
mart <- useMart(biomart = "ensembl", dataset = "hsapiens_gene_ensembl")<br>
Error in useDataset(mart = mart, dataset = dataset, verbose = verbose) :<br>
The given dataset: hsapiens_gene_ensembl , is not valid. Correct dataset names can be obtained with the listDatasets function.<br>
<br>
This same command has worked several times in the past.<br>
<br>
Thanks,<br>
<br>
- Pankaj<br>
<br>
----------------------------------------------------------------<br>
Pankaj Agarwal, M.S<br>
Bioinformatician<br>
Database Analyst II<br>
Surgical Sciences Applied Therapeutics Section<br>
Department of Surgery<br>
Duke University<br>
919-681-2251<br>
<a href="mailto:p.agarwal@duke.edu" target="_blank" rel="noreferrer">p.agarwal@duke.edu</a><mailto:<a href="mailto:p.agarwal@duke.edu" target="_blank" rel="noreferrer">p.agarwal@duke.edu</a>><br>
<br>
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Message: 2<br>
Date: Thu, 19 Apr 2018 09:29:04 +0100<br>
From: Anne Lyle <<a href="mailto:annelyle@ebi.ac.uk" target="_blank" rel="noreferrer">annelyle@ebi.ac.uk</a>><br>
To: Ensembl developers list <<a href="mailto:dev@ensembl.org" target="_blank" rel="noreferrer">dev@ensembl.org</a>><br>
Subject: Re: [ensembl-dev] Biomart connection<br>
Message-ID: <<a href="mailto:2309E3AC-865F-4A13-B948-56CFBEA98279@ebi.ac.uk" target="_blank" rel="noreferrer">2309E3AC-865F-4A13-B948-56CFBEA98279@ebi.ac.uk</a>><br>
Content-Type: text/plain; charset="utf-8"<br>
<br>
Hi Pankaj<br>
<br>
Which database server are you connecting to? We are experiencing some network issues here in the UK, but if you?re connecting to the US East mirror I will need to look for possible server problems in the cloud.<br>
<br>
Thanks<br>
<br>
Anne<br>
<br>
<br>
> On 18 Apr 2018, at 19:27, Pankaj Agarwal <<a href="mailto:p.agarwal@duke.edu" target="_blank" rel="noreferrer">p.agarwal@duke.edu</a>> wrote:<br>
> <br>
> Hi,<br>
> I am trying to connect to biomart through R as follows and sometimes it works fine and sometimes I get the following error (today it only giving the error)<br>
> <br>
> library("biomaRt")<br>
> listMarts()<br>
> biomart version<br>
> 1 ENSEMBL_MART_ENSEMBL Ensembl Genes 92<br>
> 2 ENSEMBL_MART_MOUSE Mouse strains 92<br>
> 3 ENSEMBL_MART_SNP Ensembl Variation 92<br>
> 4 ENSEMBL_MART_FUNCGEN Ensembl Regulation 92<br>
> <br>
> mart <- useMart(biomart = "ensembl", dataset = "hsapiens_gene_ensembl")<br>
> Error in useDataset(mart = mart, dataset = dataset, verbose = verbose) :<br>
> The given dataset: hsapiens_gene_ensembl , is not valid. Correct dataset names can be obtained with the listDatasets function.<br>
> <br>
> This same command has worked several times in the past.<br>
> <br>
> Thanks,<br>
> <br>
> - Pankaj<br>
> <br>
> ----------------------------------------------------------------<br>
> Pankaj Agarwal, M.S<br>
> Bioinformatician<br>
> Database Analyst II<br>
> Surgical Sciences Applied Therapeutics Section<br>
> Department of Surgery<br>
> Duke University<br>
> 919-681-2251<br>
> <a href="mailto:p.agarwal@duke.edu" target="_blank" rel="noreferrer">p.agarwal@duke.edu</a> <mailto:<a href="mailto:p.agarwal@duke.edu" target="_blank" rel="noreferrer">p.agarwal@duke.edu</a>><br>
> <br>
> _______________________________________________<br>
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