Overview API 1.2

The third Version 1.2 of the OpenTox APIs were completed and published in May 2011.

 

Common specifications for all APIs

OpenTox components are webservices with a REST (http://en.wikipedia.org/wiki/Representational_State_Transfer) interface.

Parameters

Parameters are posted with a "Content-Type:application/x-www-form-urlencoded" HTTP header. Parameter names are typed in bold letters in the API definitions. Square brackets (e.g. compound_uris[]) indicate that a list of arguments is expected.

Ampersands in URI attribute values (e.g. dataset_uri="http://<server>/dataset/abc?feature_uri=http://<server>/feature/x&feature_uri=http://<server>/feature/z") should be escaped, as explained in http://www.w3.org/TR/html401/appendix/notes.html#ampersands-in-uris

For curl POST requests the -d/--data option should be used to ensure the content type. See http://curl.haxx.se/docs/manpage.html#-d--data for more information on the -d parameter.

• subjectid is a (optional) parameter that contains the OpenSSO A&A token needed to access protected services.

Examples:

curl -X GET http://{server}/dataset?compound_uris[]={compound_uri1}&compound_uris[]={compound_uri2})

Request and submit formats

The default OpenTox format is RDF/XML (with exception of the compound API), but service developers may support additional formats. You can request them, by specifying the MIME type in the "Accept" and "Content-Type" HTTP headers.

If the service cannot serve the requested format, the default format (usually RDF/XML) will be returned.

Examples:

Request a compound in SDF format:

curl -X GET -H "Accept:chemical/x-mdl-sdfile" http://{server}/compound/{id}

Submit a compound in InChI format:

curl -X POST -H "Content-Type:chemical/x-inchi" --data-binary "InChI=1S/C5H10/c1-2-4-5-3-1/h1-5H2" http://{server}/compound

Create a new dataset:

curl -X POST -H "Content-Type:application/rdf+xml" --data-binary@my_data_file.rdf http://{server}/dataset

File uploads

Files can be uploaded by specifying "multipart/form-data" in the Content-Type header.

Bug reports and feature requests

Please use our Issue tracker to report problems with the current API. You can also discuss the APIs on the developers mailing list.

RDF Representation

Overview

Overview

The image below shows the OpenTox resources data model.