Something wrong with the BioMart server
1
0
Entering edit mode
Dan Liang • 0
@dan-liang-20865
Last seen 2.4 years ago

Hi,

I got an error when I tried to call genes suing bioMart.

genemart = useMart(biomart="ENSEMBL_MART_ENSEMBL",dataset="hsapiens_gene_ensembl");
Error in listMarts() : Unexpected format to the list of available marts.

Please check the following URL manually, and try ?listMarts for advice. http://www.ensembl.org:80/biomart/martservice?type=registry&requestid=biomaRt

Then I checked the link, it is the right list, so I think there is something wrong with the BioMart server. Hope this is the right way to report this error. Very appreciate it if you could fix it.

Thanks!

Dan

bioMart • 3.3k views
ADD COMMENT
0
Entering edit mode

Same thing here:

ensembl = useEnsembl(biomart="ensembl", dataset="hsapiens_gene_ensembl") Error in bmRequest(request = request, ssl.verifypeer = ssl.verifypeer, : Not Found (HTTP 404).

ADD REPLY
0
Entering edit mode

Same thing here:

ensembl = useEnsembl(biomart="ensembl", dataset="hsapiens_gene_ensembl") Error in bmRequest(request = request, ssl.verifypeer = ssl.verifypeer, : Not Found (HTTP 404).

ADD REPLY
2
Entering edit mode
Mike Smith ★ 5.2k
@mike-smith
Last seen 31 minutes ago
EMBL Heidelberg / de.NBI

I currently get an error when I visit the main Ensembl site. You can try querying one of the mirrors e.g.

mart <- useEnsembl(biomart = "ensembl", 
                   dataset = "hsapiens_gene_ensembl", 
                   mirror = "useast")

Values for the mirror argument are: useast, uswest, asia

ADD COMMENT
0
Entering edit mode

That works! Thanks!

ADD REPLY

Login before adding your answer.

Traffic: 480 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6