pkg_field_check: Package Required Field Check

In dbGaPCheckup: dbGaP Checkup

Package Required Field Check

Description

This function checks for additional fields required by this package including variable type (TYPE), minimum value (MIN), and maximum value (MAX).

Usage

pkg_field_check(DD.dict, DS.data, verbose = TRUE)

Arguments

DD.dict	Data dictionary.
DS.data	Data set.
verbose	When TRUE, the function prints the Message out, as well as a list of the fields not found in the data dictionary.

Details

Even though MIN, MAX, and TYPE are not required by dbGaP, our package was created to use these variables in a series of other checks and awareness functions (e.g., render_report, values_check, etc.). If this function fails, the add_missing_fields function can be used.

Value

Tibble, returned invisibly, containing: (1) Time (Time stamp); (2) Name (Name of the function); (3) Status (Passed/Failed); (4) Message (A copy of the message the function printed out); (5) Information (Named vector of TRUE/FALSE values alerting user if checks passed (TRUE) or failed (FALSE) for TYPE, MIN, and MAX).

See Also

add_missing_fields

Examples

# Example 1: Fail check
data(ExampleD)
pkg_field_check(DD.dict.D, DS.data.D)
# Use the add_missing_fields function to add in data
DD.dict.updated <- add_missing_fields(DD.dict.D, DS.data.D)
# Be sure to call in the new version of the dictionary (DD.dict.updated)
pkg_field_check(DD.dict.updated, DS.data.D) 

# Example 2: Pass check
data(ExampleA)
pkg_field_check(DD.dict.A, DS.data.A)
print(pkg_field_check(DD.dict.A, DS.data.A, verbose=FALSE))

dbGaPCheckup documentation built on Sept. 27, 2023, 5:06 p.m.