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#508 work on integrating taxa ropensci/taxa#197
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,91 @@ | ||
| .new_taxa_taxon <- function(.names = NULL, name = character(), | ||
| rank = taxa::taxon_rank(), id = taxa::taxon_id(), auth = taxa::taxon_authority(), | ||
| uri = character(), match = character(), | ||
| multiple_matches = character(), pattern_match = character(), ...) { | ||
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| # Set names to NA if not set | ||
| if (is.null(names) || all(is.na(.names))) { | ||
| .names_set <- FALSE | ||
| .names <- vctrs::vec_recycle(NA_character_, length(name)) | ||
| } else { | ||
| .names_set <- TRUE | ||
| vctrs::vec_assert(.names, ptype = character()) | ||
| } | ||
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| # Check that values are the correct type | ||
| vctrs::vec_assert(name, ptype = character()) | ||
| vctrs::vec_assert(id, ptype = taxa::taxon_id()) | ||
| vctrs::vec_assert(auth, ptype = taxa::taxon_authority()) | ||
| vctrs::vec_assert(uri, ptype = character()) | ||
| vctrs::vec_assert(match, ptype = character()) | ||
| vctrs::vec_assert(multiple_matches, ptype = logical()) | ||
| vctrs::vec_assert(pattern_match, ptype = logical()) | ||
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| vctrs::new_rcrd( | ||
| list(.names = .names, name = name, rank = rank, | ||
| id = id, auth = auth, uri = uri, match = match, | ||
| multiple_matches = multiple_matches, pattern_match = pattern_match), | ||
| .names_set = .names_set, ..., class = c("txid", "gbif", "taxa_taxon")) | ||
| } | ||
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| .taxa_taxon <- function(name = character(0), rank = NA, id = NA, | ||
| auth = NA, .names = NA, uri = NA, match = NA, | ||
| multiple_matches = NA, pattern_match = NA, ...) { | ||
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| # Cast inputs to correct values | ||
| name <- vctrs::vec_cast(name, character()) | ||
| rank <- vctrs::vec_cast(rank, taxa::taxon_rank()) | ||
| id <- vctrs::vec_cast(id, taxa::taxon_id()) | ||
| auth <- vctrs::vec_cast(auth, taxa::taxon_authority()) | ||
| uri <- vctrs::vec_cast(uri, character()) | ||
| match <- vctrs::vec_cast(match, character()) | ||
| multiple_matches <- vctrs::vec_cast(multiple_matches, logical()) | ||
| pattern_match <- vctrs::vec_cast(pattern_match, logical()) | ||
| .names <- vctrs::vec_cast(.names, character()) | ||
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| # Recycle ranks and databases to common length | ||
| recycled <- vctrs::vec_recycle_common(name, rank, id, auth, uri, | ||
| match, multiple_matches, pattern_match, .names) | ||
| name <- recycled[[1]] | ||
| rank <- recycled[[2]] | ||
| id <- recycled[[3]] | ||
| auth <- recycled[[4]] | ||
| uri <- recycled[[5]] | ||
| match <- recycled[[6]] | ||
| multiple_matches <- recycled[[7]] | ||
| pattern_match <- recycled[[8]] | ||
| .names <- recycled[[9]] | ||
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| # Create taxon object | ||
| .new_taxa_taxon(.names = .names, name = name, rank = rank, id = id, | ||
| auth = auth, uri = uri, match = match, | ||
| multiple_matches = multiple_matches, pattern_match = pattern_match, ...) | ||
| } | ||
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| vec_cast.txid <- function(x, to, ..., x_arg, to_arg) { | ||
| UseMethod("vec_cast.txid") | ||
| } | ||
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| vec_cast.txid.default <- function(x, to, ..., x_arg, to_arg) { | ||
| vctrs::vec_default_cast(x, to, x_arg, to_arg) | ||
| } | ||
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| vec_cast.txid.txid <- function(x, to, ..., x_arg, to_arg) x | ||
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| vec_cast.txid.character <- function(x, to, ..., x_arg, to_arg) taxa::taxon(x) | ||
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| vec_cast.character.txid <- function(x, to, ..., x_arg, to_arg) { | ||
| as.character(vctrs::field(x, "name")) | ||
| } | ||
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| txz_named_field <- function(x, name) { | ||
| out <- vctrs::field(x, name) | ||
| if (!is.null(names(x))) names(out) <- names(x) | ||
| return(out) | ||
| } | ||
| txz_uri <- function(x) txz_named_field(x, "uri") | ||
| txz_match <- function(x) txz_named_field(x, "match") | ||
| txz_mm <- function(x) txz_named_field(x, "multiple_matches") | ||
| txz_pm <- function(x) txz_named_field(x, "pattern_match") |
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