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[bioontology-support] [BioPortal] Feedback from Kyle Ellrott

Trish Whetzel whetzel at
Tue Jun 5 00:09:08 PDT 2012

Hi Kyle, 

There is not a recommended rate, other than no more than 40 calls from the same IP address. The response of the Annotator varies based on a few factors, the amount of text per web service call, the number of ontologies used for annotation, and whether the semantic expansion steps of expanding the annotations via the ontology is-a hierarchy and/or mappings are included. As more parameters are included or larger amounts of text is submitted the response time may decrease. 

We do have a virtual appliance available for BioPortal, the Annotator and Resource Index. More details (system requirements, ontology loading and annotator population workflow) is available at:


On Jun 4, 2012, at 11:16 PM, support at wrote:

> Name: Kyle Ellrott
> Email: kellrott at
> Location:
> Comment:
> I'm curious about large scale Annotator runs. Is there a recommended limit for the rate at which I can submit Annotator jobs? Is is possible to run the Annotator tool locally, on our own research cluster, to apply large scale Annotations, without over taxing your systems?
> _______________________________________________
> bioontology-support mailing list
> bioontology-support at

Trish Whetzel, PhD
Outreach Coordinator
The National Center for Biomedical Ontology
Ph: 650-721-2378

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