R/internal-assert.R

In acidgenomics/WormBase: WormBase Annotation Data

#' Is all of the input WormBase gene identiifers?
#'
#' @note Updated 2019-07-24.
#' @noRd
.allAreGenes <- function(x) {
    ok <- isCharacter(x)
    if (!isTRUE(ok)) {
        return(FALSE)
    }
    ok <- allAreMatchingRegex(
        x = x,
        pattern = paste0("^", .genePattern, "$")
    )
    if (!isTRUE(ok)) {
        return(FALSE)
    }
    ok <- hasNoDuplicates(x)
    if (!isTRUE(ok)) {
        return(FALSE)
    }
    TRUE
}



#' Error message for invalid FTP file
#'
#' @note Updated 2021-09-03.
#' @noRd
.invalidFTPFile <- function(file) {
    abort(sprintf(
        fmt = paste0(
            "Invalid FTP file detected.\n",
            "Please submit an issue on the WormBase GitHub {.url %s} ",
            "that the FTP file {.file %s} is malformed."
        ),
        "https://github.com/wormbase",
        basename(file)
    ))
}



#' Is the input a WormBase release?
#'
#' @note Updated 2021-02-17.
#' @noRd
.isRelease <- function(x) {
    if (is.null(x)) {
        return(TRUE)
    }
    ok <- isString(x)
    if (!isTRUE(ok)) {
        return(FALSE)
    }
    ok <- allAreMatchingRegex(x, pattern = "^WS\\d{3}$")
    if (!isTRUE(ok)) {
        return(FALSE)
    }
    TRUE
}