globalbioticinteractions/elton: 0.16.8

Features

• towards support for indexing checklistbank datasets with interaction … …claims; related to https://github.com/globalbioticinteractions/globalbioticinteractions/issues/753

ChecklistBank uses Catalogue of Life Data Packages (coldp). These coldp's include a table SpeciesInteraction.csv (or similar) that resemble the DwC's ResourceRelations extension in which a resource can be related to another resource.

Here's an example of the first two lines of a speciesinteractions.csv as expressed in XTAB: pretty-printed transposed tabular via unzip -p ~/Downloads/dataset-2017.zip speciesinteractions.csv | head -2 | mlr --icsv --oxtab cat [1]

taxonID                    S100010010
relatedTaxonID             
relatedTaxonScientificName Mesocomys pulchriceps Cameron
type                       has parasite
referenceID                6968
remarks                    

This record documents a claim made in reference 6968 in which an individual of taxon with ID S100010010 has a parasite of individual classified as taxon with name Mesocomys pulchriceps Cameron . With this elton release, this records is combined with other tables in the CoLDP archive via:

elton track urn:lsid:checklistbank.org:dataset:2017
elton interactions urn:lsid:checklistbank.org:dataset:2017 \
mlr --itsvlite --oxtab filter '$sourceTaxonId == "S100010010" && $interactionTypeName == "hasParasite" && $targetTaxonName == "Mesocomys pulchriceps Cameron"'

to produce:

argumentTypeId                         https://en.wiktionary.org/wiki/support
[...]
sourceTaxonId                          S100010010
sourceTaxonName                        Agrionympha capensis
[...]
interactionTypeId                      http://purl.obolibrary.org/obo/RO_0002445
interactionTypeName                    hasParasite
[...]
targetTaxonId                          
targetTaxonName                        Mesocomys pulchriceps Cameron
[...]
referenceCitation                      Prinsloo G. L. & Uys V. M. (Eds.), 2015, Insects of cultivated plants and natural pastures in Southern Africa. vol  issue  pages i–xiv, 1–785
namespace                              urn:lsid:checklistbank.org:dataset:2017
citation                               @misc{ChecklistBankDataset2017, publisher = {Belgian Biodiversity Platform, Belspo}, address = {Brussels, Belgium}, version = {2026-03-01}, url = {https://www.afromoths.net/}, title = {Afromoths, online database of Afrotropical moth species (Lepidoptera)}, author = {{De Prins}, {Jurate} and {De Prins}, {Willy}}, year = 2026, month = 3}
archiveURI                             https://api.checklistbank.org/dataset/2017/archive.zip
lastSeenAt                             2026-03-31T13:59:37.121Z
contentHash                            dd778e9038f87067815f9c7afdec1286db2e4cc08a298cbab27fe23dba2e1b44
eltonVersion                           0.16.8

Note that the sourceTaxonName and referenceCitation were expanded and provenance information was added to help document the context in which the claim was made.

Thanks for @mdoering 's tip https://github.com/globalbioticinteractions/globalbioticinteractions/issues/753 to list checklistbank datasets with species interaction claims in them.

Example use:

# list known checklistbank datasets with species interaction claims
elton ls --online --registry checklistbank

which produced, at time of writing 2026-03-31:

urn:lsid:checklistbank.org:dataset:1049
urn:lsid:checklistbank.org:dataset:1061
urn:lsid:checklistbank.org:dataset:1133
urn:lsid:checklistbank.org:dataset:1166
urn:lsid:checklistbank.org:dataset:1199
urn:lsid:checklistbank.org:dataset:2017
urn:lsid:checklistbank.org:dataset:2207
urn:lsid:checklistbank.org:dataset:2317
urn:lsid:checklistbank.org:dataset:2362
urn:lsid:checklistbank.org:dataset:124661
urn:lsid:checklistbank.org:dataset:265709

These lsids can then be used for tracking, review and listing interactions and/or names:

# create a local snapshot version of the remote dataset
elton track urn:lsid:checklistbank.org:dataset:2017

# list interactions of a version snapshot
elton interactions urn:lsid:checklistbank.org:dataset:2017

# do a review of a local version snapshot
elton review urn:lsid:checklistbank.org:dataset:2017

Improvements

• upgrade to globi libs v0.28.17
• support event-based resource relations suppo… - …rt; related to https://github.com/globalbioticinteractions/globalbioticinteractions/issues/1150

Bugs

• identify non-hierarchical URIs as remote namespaces

References

[1] De Prins, J., & De Prins, W. (2026). Afromoths, online database of Afrotropical moth species (Lepidoptera) (Version 2026-03-01). Belgian Biodiversity Platform, Belspo, Brussels, Belgium. https://www.afromoths.net/ https://doi.org/10.48580/d4fl.v123 https://www.checklistbank.org/dataset/2017