Standards compliance dashboard
Contents
Introduction
The goal of this webpage is to provide an overview of the use of different (biodiversity) standards within the institutes. The dashboard is created in the framework of work package 4 of Synthesys+.
The table contains a list of standards (columns) and institutes (rows). Whenever an institute is using one of the standards, the corresponding cell is colored yellow. For some of the standards, extra information is given in the cell (level of adopting the standard or version of the standard used).
List of standards
The different standards considered in this dashboard are listed here. Links to a more detailed description on the standard are given.
- CETAF persistent identifier
- IIIF
- Darwin Core (DwC)
- Access to Biological Collection Data v2.06 (ABCD2)
- Access to Biological Collection Data v3.0 (ABCD3)
- Audubon Core (AC)
- Biological Collections Ontology (BCO)
- DEscription Language for TAxonomy (DELTA)
- ABCDEFG (Access to Biological Collection Databases Extended for Geosciences)
- Structured Descriptive Data (SDD)
This list of standards is not exhaustive and this is definitely not a complete overview. In a first version of this dashboard, we focus on some of the more widely used/known standards. A larger overview of the different standards can be found at FAIRsharing.org. In case another (important) standard is supported and missing from the list, don't hesitate to propose an addition.
Dashboard
| Institute | Acronym | CETAF ID | IIIF | DwC | ABCD2 | ABCD3 | AC | BCO | DELTA | ABCDEFG | SDD |
|---|---|---|---|---|---|---|---|---|---|---|---|
| NATURAL HISTORY MUSEUM (London) | NHM | L2 | |||||||||
| NATURHISTORISCHES MUSEUM WIEN (Vienna) | NHMW | L0 | |||||||||
| ZOOLOGISCHES FORSCHUNGSMUSEUM ALEXANDER KOENIG (Bonn) | ZFMK | L3 | |||||||||
| HELSINGIN YLIOPISTO (Finland) | LUOMUS | L3 | N/A | N/A | N/A | N/A | N/A | N/A | N/A | N/A | |
| MUSEUM NATIONAL D'HISTOIRE NATURELLE (Paris) | MNHN | L3 | |||||||||
| THE HEBREW UNIVERSITY OF JERUSALEM (Israel) | HUJI | ||||||||||
| NATURHISTORISKA RIKSMUSEET (Stockholm) | NRM | L0 | |||||||||
| AGENTSCHAP PLANTENTUIN MEISE (Meise) | BGM | L3 | v2.1 | N/A | N/A | N/A | N/A | N/A | N/A | N/A | |
| FREIE UNIVERSITAET BERLIN | BGBM | L3 | v2.1? | ||||||||
| AGENCIA ESTATAL CONSEJO SUPERIOR DE INVESTIGACIONES CIENTIFICAS (Madrid) | CSIC | ||||||||||
| MUSEUM FUR NATURKUNDE (Berlin) | MfN | L3 | |||||||||
| ROYAL BOTANIC GARDEN EDINBURGH | RBGE | L3 | v3.0 | ||||||||
| ROYAL BOTANIC GARDENS KEW | RBGK | L3? | |||||||||
| INSTITUT ROYAL DES SCIENCES NATURELLES DE BELGIQUE (Brussels) | RBINS | ||||||||||
| MUSEE ROYAL DE L'AFRIQUE CENTRALE (Tervuren) | RMCA | L1 | |||||||||
| SENCKENBERG GESELLSCHAFT FUR NATURFORSCHUNG (Frankfurt) | SGN | ||||||||||
| STAATLICHES MUSEUM FUER NATURKUNDE STUTTGART | SMNS | L1 |
Adoption of the CETAF stable identifier
A full overview on the adoption of the CETAF stable identifier can be found here. This document contains the syntax that is used by the different institutes.
In the table above, the level of adoption of the CETAF stable identifier is indicated. The levels are defined as follows:
- Level 0: Identifier syntax chosen
- Level 1: Web page for each specimen, identifier redirects to it[1]
- Level 2: Machine readable representation for each specimen, accept-type[2] aware redirection
- Level 3: Machine readable representation is CSPP conform
Extra information
This section will provide the possibility to detail more on the adoption of the different standards.
NHM
- Example of CETAF ID: http://data.nhm.ac.uk/object/<id>
- DwC is used when data is published to the data portal
NHMW
- IIIF: implemented through the JACQ system
LUOMUS
- Example of CETAF ID http://id.luomus.fi/<id>
- DwC is used to publish
BGM
- CETAF-ID: http://www.botanicalcollections.be/specimen/<barcode>
- IIIF: an exemplar implementation is made. An instance of the Mirador viewer can be found here. A RESTful API is developed to generate the IIIF manifests on the fly: http://iiif-manifest.oxalis.br.fgov.be/specimen/<barcode>/manifest. At the moment, manifests are only generated based on the barcode. The IIIF 2.1 APIs (image and presentation) are implemented. The image API is provided by the Loris server and the source images are in JPG format.
- DwC: this standard is used to publish data to e.g. GBIF
BGBM
- CETAF-ID: [herbarium.bgbm.org/object/B200012401 herbarium.bgbm.org/object/<barcode>]
- IIIF: https://herbarium.bgbm.org/data/iiif/<barcode>/manifest.json
- ABCD: the standard is used for publishing specimen and observational data to GBIF, BioCASe, OpenUp (Euoropeana), GFBio (German Federation for Biological Data) as well as various Special Interest Networks.
RBGE
- IIIF: Specific webpage provides a summary on the IIIF work
ZFMK
- CETAF-ID: https://id.zfmk.de/collection_ZFMK/<barcode>
- ABCD2: publishing to GBIF, GGBN
- IIIF: under development...
SMNS
- ABCD2: publishing to GBIF, BOLD, Genbank, UNITE, MycoBank, TreeBASE, VertNet.
Technical Notes
- ↑ If a redirect is implemented it should be the HTTP response status code 303 “See Other” instead of the sometimes used 302 code “Found” or “Moved Temporarily” which is hard to tell how the client would interpret it
- ↑ An identifier with header of '
application/rdf+xml' will be redirected to the objects machine-readable RDF metadata record (you can test this by using the CETAF URI Tester)
