• Fix bug where mermaid_get_project_data() functions failed if andrello or beyer covariates were not present, and data for multiple projects is being selected (0.4.4 only fixed the single-project case).
• Fix bug where mermaid_get_project_data() functions failed if andrello or beyer covariates were not present.
• Added all Vibrant Oceans covariates to aggregated endpoints (in mermaid_get_project_data()).
• Handle any missing (NA) values in mermaid_import_project_data() by automatically converting to an empty value, which is processed by the API as a NULL, before importing.
• Handle missing Sample time values in mermaid_import_project_data() by automatically converting NA to "" before importing.
• mermaid_get_sites() and mermaid_get_managements() now require authorization.
• Added vignette on accessing development data.
• Added ability to import data into MERMAID via mermaid_import_project_data().
• Added mermaid_import_field_options() to check valid options for fields in import.
• Removed ability to query “beltfishes”, “benthicpits”, and “habitatcomplexities” in mermaid_get_project_endpoint(), since the endpoints were removed from the underlying API.
• Bug fixes.
• Updated mermaid_get_reference() to include regions.
• Updated mermaid_get_project_data() to automatically unpack any data frame columns. This affects the fishbelt, benthic PIT, and benthic LIT methods, for both sample units and sample events data. This is a breaking change, expected to affect existing code that uses the biomass_kgha_by_trophic_group, biomass_kgha_by_fish_family, and percent_cover_by_benthic_category columns in sample units, and their *_avg counterparts in sample events. Instead of these columns, results will now contain a column for subgroup - for example, instead of biomass_kgha_by_trophic_group there will be columns such as biomass_kgha_trophic_group_piscivore and biomass_kgha_trophic_group_planktivore.
• Updated mermaid_get_reference() to provide enhanced reference data, returning actual values for e.g. fish family, sizes, groups, etc, instead of their internal IDs. The display column for the “fishspecies” reference has been renamed to species (#21).
• Fixed bug introduced by handling NULL covariates.
• Fixed bug with handling of covariates (now properly handles case where covariates are NULL).
• Added Allen Coral Atlas covariates to all aggregated endpoints (in mermaid_get_project_data()).
• Added biomass_kgha_by_fish_family and biomass_kgha_by_fish_family_avg to fishbelt sample units and sample events, respectively (in mermaid_get_project_data()).
• Terminating httr::RETRY() after one failure if the status code indicates an unauthorized request; no need to retry in those cases.
• Big addition of Benthic LIT, Bleaching, and Habitat Complexity methods in mermaid_get_project_data(), and additional fields available in Fish Belt and Benthic PIT endpoints.
• Removed url argument from most external functions, since switching between prod and dev is more complicated than just changing the url - especially for authenticated endpoint calls. For now, switching between prod and dev requires installing from the main and dev branches, respectively. I will continue to explore making the token generation more robust for accessing both prod and dev, at which point the url argument will likely return!
• Using httr::RETRY() instead of httr::GET() to make functions more resilient to e.g. temporary API outages or timeouts
• Documentation improvements.
• Fix bug related to stricter row binding behaviour from updated version of vctrs.
• Use trailing slash on endpoints to avoid redirects.
• Suppress warning caused by introduction of HTTP_API_VERSION header that is not properly handled by the httr package (https://github.com/r-lib/httr/issues/590).
• Add missing count column to fishbelt observations (queried via mermaid_get_project_data(method = "fishbelt", data = "observations")).
• Initial release.