WARNING: this package is under-development and has only been tested using mock data

Introduction

An R Package for interacting with gaiaDB - part of the OHDSI GIS Gaia toolchain

Get Started

Install the latest version of the package from GitHub:

# install.packages('remotes')
remotes::install_github("ohdsi/gaiaCore")

Connect to gaiaDB:

library(gaiaCore)

connectionDetails <- DatabaseConnector::createConnectionDetails(
  dbms = "postgresql",
  server = "localhost/gaiaDB",
  port = 5432,
  user="postgres",
  password = "mysecretpassword")

Support

Please use the GitHub issue tracker for all bugs, issues, and feature requests

Details

Offline Storage

Offline storage can be set up for the purpose of loading local datasets in gaiaDB and persisting downloaded source datasets.

Offline storage is configured using a file storage.yml to specify a directory and whether or not to persist downloaded datasets.

You can create this file using the helper function setup_offline_storage():

setup_offline_storage(dir = "/path/to/data", persist_data = TRUE)

The above command will create a file named storage.yml in your working directory. It will also create a directory path/to/data if one does not already exist. Any datasets downloaded using loadGeometry() or loadVariable() will be saved to this directory!