avoid child taxa with get_interactions_by_taxa + get_int_matrix 'eatenBy' doesn't work

[PierreENOlivier]

avoid child taxa with get_interactions_by_taxa + get_int_matrix 'eatenBy' doesn't work

[jhpoelen]

@PierreOcean thanks for reporting the two issue.

re: avoid child taxa - if I understand your question, you are looking to use behavior documented here https://github.com/jhpoelen/eol-globi-data/wiki/API#excluding-child-taxa through https://github.com/ropensci/rglobi using get_interactions_by_taxa .

Sample of how to search for only exact taxon matches -

install.packages('rglobi')
rglobi::get_interactions_by_taxa(sourcetaxon = 'Aves', showfield = c('source_taxon_name'), otherkeys = list(limit=5, excludeChildTaxa='true'))

Observed result on 17 Aug 2017 :

 source_taxon_name
1              Aves
2              Aves
3              Aves
4              Aves
5              Aves

When omitting the excludeChildTaxa key using

rglobi::get_interactions_by_taxa(sourcetaxon = 'Aves', showfield = c('source_taxon_name'), otherkeys = list(limit=5))

The result below was observed:

  source_taxon_name
1             Gavia
2             Gavia
3             Gavia
4             Gavia
5             Gavia

Does this provide the behavior you were looking for? Curious to hear your thoughts!

As far as the second issue related to get_interaction_matrix, please open a separate issue in order to avoid mixing the different separate concerns. If you have troubles doing so, I'd be happy to do it for you.

[jhpoelen]

@PierreOcean closing stale issue. I am assuming the issue has been resolved. If not, please comment/re-open the issue.