FDO Demo

Technical Basis

• FDO Framework (ontology)
• Nanopublications
• Nanopublication Server Network

Principles

• Open standards (HTTP, RDF, SPARQL)
• No lock-in (Open Source software, open ecosystem, "run it yourself" option)
• Designed for scalability (distribution, decentralization, data replication/partitioning)
• Flexibility / freedom (free choice of: identifier schemes, domain vocabularies, servers, data storage locations)
• Fast prototyping (learning while doing; ecosystem is up and running, ready to be used, and will keep evolving)

Examples

FIP matrix:

• FDO ID/URL: https://w3id.org/np/RA1sDguLHiK1VcRs_kHLCE0IxdIIwihrn8WTxehuzcaAg#fip-matrix (we can later also use nicer URLs like https://example.org/fdo4de/fip-matrix and/or DOIs)
• Metadata record (nanopublication) ID/URL: https://w3id.org/np/RA1sDguLHiK1VcRs_kHLCE0IxdIIwihrn8WTxehuzcaAg
• Digital Object file (bit sequence): https://raw.githubusercontent.com/peta-pico/dsw-nanopub-api/873763c608a0559d4ebc5e070c7ef555b2de9e6d/tables/new_matrix.csv (this file can live side by side with the nanopublication, or on a different server/system; can be open or have restricted access with required authentication)

More examples in fdo-examples.

Creating FDOs

• Template for manual creation (with Nanodash)
• Libraries and command-line tools (nanopub-java, nanopub-rs) can be used for automatic creation

Protocol

HTTP with new header field FDO:

• FDO: record returns the metadata record for the given FDO (default)
• FDO: object returns the actual object (dataset, picture, etc.)

Using curl to get FDO metadata record (as nanopublication):

$ curl -L -H 'FDO: record' -H 'Accept: application/ld+json' https://w3id.org/np/RA_03LCp_LLNR-3eGEIttU0LL5PqkgJRCA4dqN__mY-bs#fip-matrix

Using curl to get FDO object:

$ curl -L -H 'FDO: object' https://w3id.org/np/RA_03LCp_LLNR-3eGEIttU0LL5PqkgJRCA4dqN__mY-bs#fip-matrix

This is compliant with the FDO Framework specification (see above), with some small suggestions for improvement, which we will discuss with the FDO community.

Querying

Query to get FDOs:

• Simple client to API
• Same on the command line: $ curl -L 'https://query.knowledgepixels.com/api/RAZgtM7Kzb0aTBlH4coOzlfgzBOoofqROCIMZTW3KliLQ/get-fdos?query=matrix'
• Custom SPARQL query

Compound FDOs / Additional Metadata

• Template to generate compound FDO (experimental)
• Extended template for additional metadata

Type Registry

With nanopublications, the same system that is used to describe/register FDOs can also be used to describe/register FDO Types (and many other things).

• Template to declare new FDO types
• Example nanopublication declaring an FDO type

Distributed, Redundant, Scalable

Checking availability of a nanopublication (using nanopub-java as command-line tool):

$ np status -a https://w3id.org/np/RA_03LCp_LLNR-3eGEIttU0LL5PqkgJRCA4dqN__mY-bs
URL: https://np.knowledgepixels.com/RA_03LCp_LLNR-3eGEIttU0LL5PqkgJRCA4dqN__mY-bs
URL: http://130.60.24.146:7880/RA_03LCp_LLNR-3eGEIttU0LL5PqkgJRCA4dqN__mY-bs
URL: http://server.np.dumontierlab.com/RA_03LCp_LLNR-3eGEIttU0LL5PqkgJRCA4dqN__mY-bs
URL: https://server.np.trustyuri.net/RA_03LCp_LLNR-3eGEIttU0LL5PqkgJRCA4dqN__mY-bs
URL: http://server.nanopubs.lod.labs.vu.nl/RA_03LCp_LLNR-3eGEIttU0LL5PqkgJRCA4dqN__mY-bs
URL: http://app.tkuhn.eculture.labs.vu.nl/nanopub-server-4/RA_03LCp_LLNR-3eGEIttU0LL5PqkgJRCA4dqN__mY-bs
Found on 6 nanopub servers.

All APIs are distributed and redundant (and thereby scalable) too, for example:

$ curl -L 'https://query.knowledgepixels.com/api/RAZgtM7Kzb0aTBlH4coOzlfgzBOoofqROCIMZTW3KliLQ/get-fdos?query=matrix'
$ curl -L 'https://query.np.trustyuri.net/api/RAZgtM7Kzb0aTBlH4coOzlfgzBOoofqROCIMZTW3KliLQ/get-fdos?query=matrix'
$ curl -L 'https://query.np.kpxl.org/api/RAZgtM7Kzb0aTBlH4coOzlfgzBOoofqROCIMZTW3KliLQ/get-fdos?query=matrix'

See the monitor for the current network of services.