Reset Concept Set Manifest

Cleans up concept set manifest data at one of two scopes. All destructive operations require the user to type "yes" at a confirmation prompt (disable with confirm = FALSE for scripted use).

Usage

resetConceptSetManifest(
  manifest = NULL,
  conceptSetsFolderPath = here::here("inputs/conceptSets"),
  scope = c("manifest", "full"),
  archive = FALSE,
  confirm = TRUE
)

Arguments

manifest

A ConceptSetManifest R6 object. Optional; when provided the folder path is inferred automatically.

conceptSetsFolderPath

Character. Path to the conceptSets folder. Inferred from manifest when provided; otherwise defaults to here::here("inputs/conceptSets").

scope

Character. One of "manifest" (default) or "full".

archive

Logical. For scope = "manifest", if TRUE (default), archives JSON files in json/ to a timestamped directory instead of deleting them. Set to FALSE to delete without archiving.

confirm

Logical. If TRUE (default), the user must type "yes" to proceed. Set to FALSE for non-interactive use.

Value

Invisibly returns NULL.

Details

Unlike cohort manifests, all concept set JSON files are user-owned sources (nothing is auto-generated), so there is no "derived" tier.

Scope options

"manifest" (default)

Deletes only the SQLite database. JSON files in json/ are archived to a timestamped directory (unless archive = FALSE) and can be restored after initConceptSetManifest() using $addConceptSetFile().

"full"

Deletes the SQLite database, the json/ folder, and conceptSetsLoad.csv. Complete wipe.