Error while importing mice functions in R package - r

Question

I would like to include the mice::mice function in my package to perform imputation on my data.
I use Roxygen to list imports
#' #param data dataset to be used for imputation
#' #importFrom dplyr select_
#' #importFrom mice mice complete
#' #return A list
#' #export
#'
impute_data <- function(data, vars, seed)
{
data_used <- select_(data,vars)
mice_data <- complete(mice(data_used, seed = seed))
return(mice_data)
}
This function works fine when I test the code, however when I build the package and try to use it, I get the following error
Error in check.method(setup, data) :
The following functions were not found: mice.impute.pmm,mice.impute.pmm, mice.impute.pmm, mice.impute.pmm, mice.impute.pmm
I tried to add to the imports all the functions mentioned in the error but it had no effect whatsoever on the outcome.
What am I missing? I've never found such a problem.

Answer 1

You are forgetting to handle the DESCRIPTION file! You only handle impute_data.R.
Your question is quite similar to:
What roxygen should I put when I use a function of another package in my function
I gave answer there (Please search for similar questions before posting any question). For your case:
First, being aware of your
sessionInfo()
getwd() # your R's working directory
.libPaths() # your R's library location
Step0 Download and install the necessary packages:
library(roxygen2)
library(devtools)
library(digest)
Step1 Put all your related ".R" files (yourfunction1.R, yourfunction2.R, yourfunction3.R, impute_data.R) to your R's working directory.
Step2 Create your package skeleton in your R's working directory:
Be sure that there is no folder named "yourpackage" in your R's working directory before running the following command. (from R's console)
package.skeleton(name = "yourpackage", code_files = c("yourfunction1.R", "yourfunction2.R", "yourfunction3.R", "impute_data.R"), path = ".")
After running package.skeleton, the folder yourpackage is created in your R's Working Directory.
Delete Read-and-delete-me file from Windows Explorer.
Delete "yourpackage-package.Rd" file in YourR'sWorkingDirectory\yourpackage\man folder
(Do NOT delete "yourpackage.Rd" file in YourR'sWorkingDirectory\yourpackage\man folder!)
Step3 At the end of the preamble of your ".R" file (impute_data.R), put the following (if you had not done it so in Step1):
#' #importFrom mice mice
#' #importFrom mice complete
#' #export
impute_data <- function(...) {...
Step4 In the DESCRIPTION file of your package, in the Imports part, add:
Imports:
mice(>= VersionNumber)
where VersionNumber is the version number of the mice package you are using. You can find the version number by right-click any function (from yourpackage) in Object Browser of RevolutionREnterprise; and going the bottom of the resultant .html help file. There, the version number of the package is shown.
In Step2, package.skeleton automatically produced a NAMESPACE file whose content is:
exportPattern("^[[:alpha:]]+")
Do not handle this NAMESPACE file manually.
Step5 roxygenize the package you wanna create ("yourpackage")
library(roxygen2)
roxygenize("yourpackage")
Upon roxygenization, the content of the NAMESPACE file of yourpackage is automatically converted from exportPattern("^[[:alpha:]]+") to
# Generated by roxygen2: do not edit by hand
export(impute_data)
importFrom(mice,mice)
importFrom(mice,complete)
Step6 Build your package:
(first, delete "src-i386" and "src-x64" folders (if any) in YourR'sWorkingDirectoryFolder\yourpackage folder from Windows Explorer)
(Be sure again that there is no "yourpackage-package.Rd" file in YourR'sWorkingDirectory\yourpackage\man folder. If there is, delete it before building)
build("yourpackage")
Step7 Install your package:
install("yourpackage")
Step8 Check that all is going well by loading your package and running a function in the package.
library(yourpackage)
impute_data(a,b,1235) # "impute_data" is the function in the package "yourpackage"
Step9 Check that your package is loadable to CRAN (Comprehensive R Archieve Network) (if you wanna share your package):
(first, delete "src-i386" and "src-x64" folders (if any) in YourR'sWorkingDirectoryFolder\yourpackage folder from Windows Explorer)
(Be sure again that there is no "yourpackage-package.Rd" file in YourR'sWorkingDirectory\yourpackage\man folder. If there is, delete it before checking)
From DOS Command Prompt:
Start – cmd - Enter. Pass to R's working directory (your R's working directory is known via getwd()) and do CRAN check:
cd C:\Users\User\Documents\Revolution
R CMD check yourpackage
From R's console:
devtools::check("C:/Users/User/Documents/Revolution/yourpackage")

Answer 2

Hello and even if the post is older,
recently, I came across the same problem and the proposed solutions by
Erdogan CEVHER and mickkk did not work for me. I solved it by actively loading the mice package, while loading my own package. For more detailed information consult R-Package-Dependencies.
In addition to the steps required during package development, here is what I recommend:
Part 1: Add mice to the Depends: (not Import:) field in the DESCRIPTION file of your package.
Depends: mice (>= VERSIONNUMBER)
Part 2: Use import(mice) in NAMESPACE (only for devtools::check())
import(mice)
Part 3: Reference each function using mice::, for example
mice::mice(data, method="pmm")