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[bioontology-support] Issues using BioPortal REST API

Mcgibbney, Lewis J (398M) Lewis.J.Mcgibbney at jpl.nasa.gov
Thu Mar 16 20:40:05 PDT 2017


Hello Jennifer,
Thank you very much. This is great.
Best
Lewis

Dr. Lewis John McGibbney Ph.D., B.Sc.
Data Scientist II
Computer Science for Data Intensive Applications Group 398M
Jet Propulsion Laboratory
California Institute of Technology
4800 Oak Grove Drive
Pasadena, California 91109-8099
Mail Stop : 158-256C
Tel:  (+1) (818)-393-7402
Cell: (+1) (626)-487-3476
Fax:  (+1) (818)-393-1190
Email: lewis.j.mcgibbney at jpl.nasa.gov

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 Dare Mighty Things

From: Jennifer Leigh Vendetti <vendetti at stanford.edu>
Date: Thursday, March 16, 2017 at 5:07 PM
To: "Mcgibbney, Lewis J (398M)" <Lewis.J.Mcgibbney at jpl.nasa.gov>
Cc: "bioontology-support at lists.stanford.edu" <bioontology-support at lists.stanford.edu>
Subject: Re: [bioontology-support] Issues using BioPortal REST API

Hello Dr. McGibbney,

There’s a difference in the first part of the URL depending on whether you want to access the virtual appliance UI, or the REST service.  In your case, the UI URL is:

http://semanticportal.esipfed.org

… and the REST URL is:

http://semanticportal.esipfed.org:8080

For the particular query you’d like to run, the full URL would be:

http://semanticportal.esipfed.org:8080/ontologies/GCMD-DIF/submissions?apikey=

This is documented here on our wiki:

https://www.bioontology.org/wiki/index.php/Category:NCBO_Virtual_Appliance#General_Instruction

Kind regards,
Jennifer




On Mar 16, 2017, at 4:56 PM, Mcgibbney, Lewis J (398M) <Lewis.J.Mcgibbney at jpl.nasa.gov<mailto:Lewis.J.Mcgibbney at jpl.nasa.gov>> wrote:

Hi Folks,
I’m having issues interacting with the REST APIat the BioPortal instance hosted over at the ESIP Federation [0].
I understand that there are common query parameters [1] one of which is apikey. Having spoken with John Greybeal [2] I also understand that apikey is mandatory. Using the /submission API [3], my attempts to interact with the service look like the following

curl http://semanticportal.esipfed.org/ontologies/GCMD-DIF/submissions?apikey=…

This is not returning a result and I am struggling to get the URI syntax correct. Can anyone help?

Thank you

[0] http://semanticportal.esipfed.org<http://semanticportal.esipfed.org/>
[1] http://data.bioontology.org/documentation#nav_usage
[2] http://lists.deltaforce.net/pipermail/esip-semanticweb/2017/000828.html
[3] http://data.bioontology.org/documentation#OntologySubmission



Dr. Lewis John McGibbney Ph.D., B.Sc.
Data Scientist II
Computer Science for Data Intensive Applications Group 398M
Jet Propulsion Laboratory
California Institute of Technology
4800 Oak Grove Drive
Pasadena, California 91109-8099
Mail Stop : 158-256C
Tel:  (+1) (818)-393-7402
Cell: (+1) (626)-487-3476
Fax:  (+1) (818)-393-1190
Email: lewis.j.mcgibbney at jpl.nasa.gov<mailto:lewis.j.mcgibbney at jpl.nasa.gov>

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 Dare Mighty Things
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