Describes each problem in the rule's own words, worst first, with the rows and values that caused it. A whole-study result is grouped by dataset, with a summary first, so you can see where the trouble is before reading detail.
Usage
# S3 method for class 'coreval_result'
print(x, n = 10, rows = 3, guidance = FALSE, ...)Arguments
- x
A result from
check_dataset()orcheck_study().- n
Maximum problems to describe - per dataset, for a study result. The rest are counted, not listed. Default 10.
- rows
Maximum example records to show per problem. Default 3.
- guidance
Also print the sentence from the Implementation Guide that each rule enforces - the "why" behind it. Off by default: it roughly doubles the length of the report.
- ...
Ignored.
Examples
ae <- data.frame(
STUDYID = "S1", DOMAIN = "AE", USUBJID = c("01", "01"),
AESEQ = c(1, 2), AETERM = c("Headache", "Rash"),
AESTDTC = c("2024-01-10", "2024-02-30")
)
check_dataset(ae)
#>
#> ── coreval — AE ────────────────────────────────────────────────────────────────
#>
#> 4 problems across 2 records (160 checks ran)
#>
#> wrong value 2 the data breaks the rule - start here
#> missing required 1 the standard requires it
#> missing optional 1 often legitimate: not collected, screen failure, ...
#>
#> [wrong value]
#> The Study Day of Start of Observation (--STDY) is not present in the dataset
#> when Start Date/Time of Observation (--STDTC) is present.
#> 1 record · AESTDTC
#> AESTDTC = "2024-01-10"
#> CORE-000328 · also FB3202
#>
#> [wrong value]
#> Variable value is not in correct ISO 8601 date or datetime format
#> 1 record · AESTDTC
#> row 2 AESTDTC = "2024-02-30"
#> CORE-000547 · also SEND66, SEND67, SEND68, ...
#>
#> [missing required]
#> At least one required variable is missing from dataset
#> 1 record
#> missing required variables: AEDECOD
#> CORE-000355 · also CG0014, SEND12, TIG0299, ...
#>
#> [missing optional]
#> At least one expected variable is missing from dataset
#> 1 record
#> missing expected variables: AELLT, AELLTCD, AEPTCD, AEHLT, AEHLTCD, AEHLGT, AEHLGTCD, AEBODSYS, ...
#> CORE-000334 · also CG0016, TIG0301, SEND13, ...
#>
#> ────────────────────────────────────────────────────────────────────────────────
#> 51 checks could not run.
#> 25 need other datasets (DM, POOLDEF, SUPPAE, SV, TA, TO, ...)
#> → run check_study() on the whole folder to cover these
#> 16 ask what the whole study contains
#> 6 need a define.xml
#> 4 for other reasons, see result$skipped
#>
#> No standard declared, so rules from every standard ran.
#> Narrow with standard = "SDTMIG" (or "SENDIG", "TIG", ...)
#>
#> Fix what you can, then run this again.
#> To track the rest: write_findings(result, "issues.xlsx")