Is it possible that this is caused by people who e.g. try to annotate a
long list (>10000) of gene ids with GO annotation by looping over these
ids and firing a query for every id separately? I've noticed that users
of the biomaRt R package sometimes construct these loops although we
strongly advice against it.
best,
Steffen
Damian Smedley wrote:
On Wed, 23 Aug 2006, Steffen Durinck wrote:
Hi all,
The BioMart central service seems to have been down the last few days.
Yesterday it came back on-line but when doing a query to read the
central server registry gives:
http://www.biomart.org/biomart/martservice?type=registry
there have been problems with people hammering the central server with
martservice requests. We are investigating how to solve this - probably IP
banning I think.
I think the problem below is with the proxy - hopefully I will restart the
server with the correct settings in a few minutes
thanks
Damian
<MartRegistry>
<virtualSchema name="dicty" visible="0">
<MartURLLocation default="1" displayName="DICTYBASE (NORTHWESTERN)" host="www.dictybase.org" includeDatasets="" martUser=""
name="dicty" path="" port="80" redirect="1" serverVirtualSchema="dictyMart" visible="1" />
</virtualSchema>
<virtualSchema name="default" visible="0">
<MartURLLocation default="1" displayName="ENSEMBL 40 (SANGER)" host="web50-node4.ebi.ac.uk" includeDatasets="" martUser=""
name="ensembl" path="/biomart/martservice" port="9004" serverVirtualSchema="default" visible="1" />
<MartURLLocation default="0" displayName="SEQUENCE 40 (SANGER)" host="web50-node4.ebi.ac.uk" includeDatasets="" martUser=""
name="sequence" path="/biomart/martservice" port="9004" serverVirtualSchema="default" visible="0" />
<MartURLLocation default="0" displayName="SNP 40 (SANGER)" host="web50-node4.ebi.ac.uk" includeDatasets="" martUser=""
name="snp" path="/biomart/martservice" port="9004" serverVirtualSchema="default" visible="1" />
<MartURLLocation default="0" displayName="VEGA 40 (SANGER)" host="web50-node4.ebi.ac.uk" includeDatasets="" martUser=""
name="vega" path="/biomart/martservice" port="9004" serverVirtualSchema="default" visible="1" />
<MartURLLocation default="0" displayName="UNIPROT PROTOTYPE 4-5 (EBI)" host="web50-node4.ebi.ac.uk" includeDatasets=""
martUser="" name="uniprot" path="/biomart/martservice" port="9004" serverVirtualSchema="default" visible="1" />
<MartURLLocation default="0" displayName="MSD PROTOTYPE 4 (EBI)" host="web50-node4.ebi.ac.uk" includeDatasets="" martUser=""
name="msd" path="/biomart/martservice" port="9004" serverVirtualSchema="default" visible="1" />
<MartURLLocation default="0" displayName="WORMBASE CURRENT (CSHL)" host="web50-node4.ebi.ac.uk" includeDatasets="" martUser=""
name="wormbase" path="/biomart/martservice" port="9004" serverVirtualSchema="default" visible="1" />
</virtualSchema>
</MartRegistry>
The host is said to be web50-node4.ebi.ac.uk but this is not accessible.
Any idea what is happening or how we can access the web services again?
best,
Steffen
--
Steffen Durinck, Ph.D.
Oncogenomics Section
Pediatric Oncology Branch
National Cancer Institute, National Institutes of Health
URL: http://home.ccr.cancer.gov/oncology/oncogenomics/
Phone: 301-402-8103
Address:
Advanced Technology Center,
8717 Grovemont Circle
Gaithersburg, MD 20877
--
Steffen Durinck, Ph.D.
Oncogenomics Section
Pediatric Oncology Branch
National Cancer Institute, National Institutes of Health
URL: http://home.ccr.cancer.gov/oncology/oncogenomics/
Phone: 301-402-8103
Address:
Advanced Technology Center,
8717 Grovemont Circle
Gaithersburg, MD 20877
