R/VerifyDependencies.R

In ohdsi-studies/PhenotypeLibraryDiagnostics: Generating Cohort Diagnostics for the OHDSI Phenotype Library

# Copyright 2023 Observational Health Data Sciences and Informatics
#
# This file is part of PhenotypeLibraryDiagnostics
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
#     http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.

verifyDependencies <- function() {
  lockFile <- file.path(renv::project(), "renv.lock")
  expected <- jsonlite::fromJSON(lockFile)
  expected <- dplyr::bind_rows(expected[[2]])
  basePackages <- rownames(utils::installed.packages(priority = "base"))
  expected <- expected[!expected$Package %in% basePackages, ]
  observedVersions <- sapply(sapply(expected$Package, utils::packageVersion), paste, collapse = ".")
  expectedVersions <- sapply(sapply(expected$Version, numeric_version), paste, collapse = ".")
  mismatchIdx <- which(observedVersions != expectedVersions)
  if (length(mismatchIdx) > 0) {
    lines <- sapply(mismatchIdx, function(idx) {
      sprintf(
        "- Package %s version %s should be %s",
        expected$Package[idx],
        observedVersions[idx],
        expectedVersions[idx]
      )
    })
    message <- paste(
      c(
        "Mismatch between required and installed package versions. Did you forget to run renv::restore()?",
        lines
      ),
      collapse = "\n"
    )
    stop(message)
  }
}