R 包未加載 `Imports` 包

Question

我正在開發一個包，該包的功能依賴於許多其他包中的dplyr 。 正如 H. Wickham 在他的R Packages書中所建議的那樣，我在Description文件中的Imports下包含了所有必要的包。

Imports:
  apaTables,
  data.table,
  dplyr,
  magrittr,
  plyr,
  rlang,
  sjstats,
  stats

然后在函數體中使用namespace （這里不需要函數的細節；我想強調的是，我使用的是 Hadley 在他的書中推薦的推薦packagename::fun()格式）：

#'
#' @title Confidence intervals for Partial Eta Squared
#' @name partialeta_sq_ci
#' @author Indrajeet Patil
#'
#' @param lm_object stats::lm linear model object
#' @param conf.level Level of confidence for the confidence interval
#' @importFrom magrittr %>%
#' @export

partialeta_sq_ci <- function(lm_object, conf.level = 0.95) {
  # get the linear model object and turn it into a matrix and turn row names into a variable called "effect"
  # compute partial eta-squared for each effect
  # add additional columns containing data and formula that was used to create these effects

  x <-
    dplyr::left_join(
      # details from the anova results
      x = data.table::setDT(x = as.data.frame(as.matrix(
        stats::anova(object = lm_object)
      )),
      keep.rownames = "effect"),
      # other information about the results (data and formula used, etc.)
      y = data.table::setDT(x = as.data.frame(
        cbind(
          "effsize" = sjstats::eta_sq(
            model = stats::anova(object = lm_object),
            partial = TRUE
          ),
          "data" = as.character(lm_object$call[3]),
          "formula" = as.character(lm_object$call[2])
        )
      ),
      keep.rownames = "effect"),
      # merge the two preceding pieces of information by the common element of Effect
      by = "effect"
    )
  # create a new column for residual degrees of freedom
  x$df2 <- x$Df[x$effect == "Residuals"]
  # remove sum of squares columns since they will not be useful
  x <-
    x %>%
    dplyr::select(.data = .,
                  -c(base::grep(pattern = "Sq", x = names(x))))
  # remove NAs, which would remove the row containing Residuals (redundant at this point)
  x <- na.omit(x)
  # rename to something more meaningful and tidy
  x <- plyr::rename(x = x,
                    replace = c("Df" = "df1",
                                "F value" = "F.value"))
  # rearrange the columns
  x <-
    x[, c("F.value",
          "df1",
          "df2",
          "effect",
          "effsize",
          "Pr(>F)",
          "data",
          "formula")]
  # convert the effect into a factor
  x$effect <- as.factor(x$effect)
  # for each type of effect, compute partial eta-squared confidence intervals, which would return a list
  ci_df <-
    plyr::dlply(
      .data = x,
      .variables = .(effect),
      .fun = function(data)
        apaTables::get.ci.partial.eta.squared(
          F.value = data$F.value,
          df1 = data$df1,
          df2 = data$df2,
          conf.level = conf.level
        )
    )
  # get elements from the effect size confidence intervals list into a neat dataframe
  ci_df <-
    plyr::ldply(
      .data = ci_df,
      .fun = function(x)
        cbind("LL" = x[[1]],
              "UL" = x[[2]])
    )
  # merge the dataframe containing effect sizes with the dataframe containing rest of the information
  effsize_ci <- base::merge(x = x,
                            y = ci_df,
                            by = "effect")
  # returning the final dataframe
  return(effsize_ci)

}

但是當我構建包並使用該函數時，它給了我以下錯誤-

Error in x %>% dplyr::select(.data = ., -c(base::grep(pattern = "Sq",  : 
  could not find function "%>%"

我究竟做錯了什么？

PS 如果您需要更多詳細信息，請訪問 GitHub 存儲庫： https : //github.com/IndrajeetPatil/ipmisc 相關功能： https : //github.com/IndrajeetPatil/ipmisc/blob/master/R/partialeta_sq_ci.R描述文件： https://github.com/IndrajeetPatil/ipmisc/blob/master/DESCRIPTION

Answer 1

總結一下，這里有幾個問題：

• 使用packagename::fun()是一個不錯的選擇，但不適用於操作員。 尤其是對於管道（ %>% ），使用例如函數代替它會破壞它的目的。

• @importFrom標簽比@import更可取，因為它更窄更明確。 這兩者都會在調用roxygen2::roxygenize()時影響 NAMESPACE 文件。 但是請注意， roxygen 不會與用戶定義的 NAMESPACE 文件混淆，因為通常情況下人們寧願自己手動處理它（例如，當包提供 S3 類和/或方法時），並且被 roxygen 覆蓋然后需要撤消。 刪除現有的 NAMESPACE 文件會讓 roxygen 重新創建它。 Roxygen 通常會在 NAMESPACE 文件中添加一行以識別是否應該更新它：

  # 由 roxygen2 生成：請勿手動編輯

• 描述文件中的依賴項既不會被 roxygen 修改，也不會被 roxygen 添加到 NAMESPACE（請注意，這會導致完整的包導入，我們寧願通過@importFrom避免@importFrom ）。 描述文件需要手動處理，確保Imports:部分涵蓋通過 NAMESPACE 使用的所有包，即通過@import和@importFrom ，以及通過packagename::fun()

Answer 2

我在我的DESCRIPTION文件中使用以下內容解決了這個問題：

Depends: tidyverse, rlang

這個負載magrittr 。