extras/PackageMaintenance.R

In OHDSI/Legend: Large-Scale Evidence Generation and Evaluation in a Network of Databases

# Copyright 2018 Observational Health Data Sciences and Informatics
#
# This file is part of Legend
#
# 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.

# Format and check code
OhdsiRTools::formatRFolder()
OhdsiRTools::checkUsagePackage("Legend")
OhdsiRTools::updateCopyrightYearFolder()

# Create manual
shell("rm extras//Legend.pdf")
shell("R CMD Rd2pdf ./ --output=extras/Legend.pdf")

# Import outcome definitions
OhdsiRTools::insertCohortDefinitionSetInPackage(fileName = "OutcomesOfInterest.csv",
                                                baseUrl = Sys.getenv("baseUrl"),
                                                insertTableSql = TRUE,
                                                insertCohortCreationR = FALSE,
                                                generateStats = FALSE,
                                                packageName = "Legend")

# Create analysis details
createAnalysesDetails("inst/settings/")

# Store environment in which the study was executed
OhdsiRTools::insertEnvironmentSnapshotInPackage("Legend")