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Read Usagi File

readUsagiFile.Rd

Reads a Usagi mapping file with appropriate column type specifications. Warnings about missing columns are suppressed as the ADD_INFO columns are optional.

Usage

readUsagiFile(pathToUsagiFile)

Arguments

pathToUsagiFile

Path to the Usagi mapping file to read

Value

A tibble containing the Usagi mapping data with appropriate column types

Details

Required columns:

  • sourceCode (character): Source vocabulary code

  • sourceName (character): Description of the source code

  • sourceFrequency (integer): Frequency of occurrence

  • sourceAutoAssignedConceptIds (integer): Auto-assigned concept IDs

  • matchScore (double): Score of the mapping match

  • mappingStatus (character): Status of the mapping (APPROVED, UNCHECKED, etc.)

  • equivalence (character): Type of equivalence

  • statusSetBy (character): User who set the status

  • statusSetOn (double): Timestamp when status was set

  • conceptId (integer): Target concept ID

  • conceptName (character): Name of target concept

  • domainId (character): Domain of target concept

  • mappingType (character): Type of mapping

  • comment (character): Additional comments

  • createdBy (character): User who created the mapping

  • createdOn (double): Timestamp of creation

  • assignedReviewer (character): Assigned reviewer

Optional ADD_INFO columns:

  • sourceConceptId (double): Source concept ID

  • sourceConceptClass (character): Class of source concept

  • sourceDomain (character): Domain of source concept

  • sourceValidStartDate (date): Start date of validity

  • sourceValidEndDate (date): End date of validity

  • sourceParents (character): Parent concepts

  • sourceParentVocabulary (character): Vocabulary of parent concepts

  • validationMessagess (character): Validation messages