rgbif v3.7.4

NEW FEATURES

• name_usage now has the ability to fetch iucn red list categories using data="iucnRedListCategory". (#547)

DOCUMENTATION

• name_backbone_checklist updated definition of verbose argument. (#564)
• "Too many choices" warning added to article Working With Taxonomic Names. (#536)

BUG FIXES

• dataset_gridded bug fixed when inputing only one non-gridded dataset. (#546)

MINOR IMPROVEMENTS

• New CRAN checks badge URL. (#555)
• Updated min vcr requirment to (>= 1.2.0). (#559)
• Updated r-lib actions to v2 (#566)

rgbif v3.7.3

NEW FEATURES

• Added missing search parameters for occ_data() and occ_search() (#530)
• Added missing occ_download() terms to key lookup (#541)
• Support for identifying "gridded datasets" with experimental API using dataset_gridded() (#516)
• Look up the datasets in a GBIF network with network_constituents() (#527)
• Added support for using GBIF experimental reverse geocoding API gbif_geocode() (#521)

DEPRECATED

• networks() is deprecated and called network() instead. (#527)
• parsenames() is deprecated and called name_parse() for better alignment
  with other name_* functions. (#504)

BUG FIXES

• occ_search fixed bug related to networkKey in the column names (#524)

rgbif v3.7.2

MINOR IMPROVEMENTS

• Removing wellknown dependency and switching to wk (#512)

BUG FIXES

• name_backbone_checklist() : bug fix related two square brackets in url (#509)

rgbif v3.7.1

BUG FIXES

• name_backbone_checklist() : bug fixes (#501) (#505)

rgbif v3.7.0

There is a new rgbif maintainer: John Waller.

NEW FEATURES

• derived_dataset() : New function to register a cleaned or modified dataset on GBIF for citation. (#467)
• name_backbone_checklist() : New function that takes a list, vector, or data.frame of scientific names and asynchronously matches them to the backbone. (#475)
• pred_isnull() : New predicate function that includes NULL values from a column in the download. (#489)
• occ_download.print() : Now prints out much more information including a DOI and citation. (#494)

DEPRECATED

• gbif_citation.gbif() : it is no longer considered best practice to generate a citation from occ_search() or occ_data(). We recommend occ_download() or derived_dataset() instead. (#494)

MINOR IMPROVEMENTS

• occ_download_wait() and occ_download_meta() : now accept a class character download key directly. The keys does do not need to be class "occ_download". (#487)
• name_backbone() : now returns new columns "verbatim_name", "verabtim_genus" ect. that the user has supplied. This makes it easier for the user to track what has been matched. The verbose argument also has been un-retired. If verbose=TRUE, more results will be returned in a single data.frame. (#475)
• gbif_citation() : will now accept a download key directly.
• occ_download_get() : Does not throw an error if the data is already present and overwrite=FALSE, it will just give a warning and return the already present dataset. This allows users to run occ_download_get(key) %>% occ_download_import() multiple times without re-downloading the same file with overwrite=TRUE.
• download_predicate_dsl() : "publishingOrg" now added as a download key. (#496) key_lkup now includes GBIF-style uppercase keys as well. So pred("TAXON_KEY",212) and pred("taxonKey",212) will both work.

DOCUMENTATION

Wrote new articles highlighting new features and encouraging the use of occ_download() over occ_search().

New articles:

• Citing GBIF Mediated Data
• Set Up Your GBIF Username and Password
• Getting Occurrence Data From GBIF
• Downloading A Long Species List
• Working With Taxonomic Names

BUG FIXES

• occ_download_import() : fixed bug related to select argument. (#479)
• map_fetch() : fixed bug related to sp::CRS (#497)

rgbif v3.6.0

Downloads

• typo in download predicate functions fixed - mulitpoint -> multipoint (#460) thanks @damianooldoni for catching that
• added three new predicate keys: stateProvince (#458), gadm (#462), and occurrenceStatus (#465)

MINOR IMPROVEMENTS

• add two new occurrence issues: FOOTPRINT_SRS_INVALID and FOOTPRINT_WKT_INVALID (#454)
• occ_download_import() docs: more information on data.table::fread parameters and particular ones that would be useful to sort out data read issues (#461)

BUG FIXES

• fix occ_download_get(): downloaded files used to have a certain content type in response header we checked for, but its changed at least once even in successful responses, so that step has been removed (#464)
• fix occ_download_import(): country code for Namibia is NA - this was turning into the R missing value NA - now fixed (#463)

rgbif v3.5.2

Download predicates

• in occurrence download predicate builder checks, to better help users, give the name of the key that fails upon failure instead of just the string 'key' (#450)
• occurrence download predicates: new key coordinateUncertaintyInMeters added, e.g. usage: pred_lt("coordinateUncertaintyInMeters",10000) (#449)
• pred_and() and pred_or() slight change: now required that more than one predicate is passed to each of these functions because it doesn't make sense to do an and or or predicate with only one predicate (#452)
• fix for use of pred_not(pred_notnull()) (#452)

MINOR IMPROVEMENTS

• add a new occurrence issue (TAXON_MATCH_AGGREGATE) and a new name issue (BACKBONE_MATCH_AGGREGATE) (#453)

BUG FIXES

• remove geoaxe references in man-roxygen template doc files - not using pkg anymore here and that pkg is cran archived too (#448)

rgbif v3.5.0

MINOR IMPROVEMENTS

• remove package wicket - use package wellknown instead - no user facing changes related to this (#447)
• remove package geoaxe (to be archived on CRAN soon) - use package sf instead (#447)

BUG FIXES

• fix to download predicate function pred_not(): it was not constructing the query correctly, fixed now. user facing change as well: it now expects a predicate to be passed, and only a single predicate as GBIF not predicate only accepts one predicate (#446)

rgbif v3.4.2

MINOR IMPROVEMENTS

• Add new occurrence issue DIFFERENT_OWNER_INSTITUTION (#444)
• re-record all test fixtures

BUG FIXES

• fix bug in occ_search() (#443)

rgbif v3.4.0

MINOR IMPROVEMENTS

• Documentation: clarify for occ_search() and occ_data() what parameters accept many values and which do not; in addition, we clarify which parameters accept multiple values in the same HTTP request, and those that accept multiple values but apply each in separate HTTP requests. See also ?many-values manual file (#369)
• gbif_issues() gains 9 new occurrence issues (#435)
• for occ_search() and occ_data(), basisOfRecord parameter now supports multiple values, both in one request and in different requests, depending on input format (see "Multiple values passed to a parameter" section in ?occ_search) (#437)
• remove vignettes from cran to avoid cran checks - still available on our docs site (#438)
• occ_download_get(): GBIF slightly altered download behavior - we now explicitly follow any redirects to get a download (#439)
• print.occ_download_meta (used when you run occ_download_meta()) was printing NA for number of results found if no results were ready yet - now prints 0 instead of NA (#440)

BUG FIXES

• count_facet() fixes: fixed internal fxn for count_facet for parsing results, was dropping values for facets; added assertions to check parameter types input by user for the fxn; changed so that keys and basisofrecord can be passed together (#436)