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.env.example
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.env.example
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# Example .env file for testing
# for convenience, we use a base path in all the subsequent variables,
# which is defaulted to the home directory. Update as needed.
export BASE_PATH=$HOME
# SQL connection
export SQLUSER="postgres"
export SQLPASS="postgres"
export DBNAME_MIMIC="mimiciv"
export DBNAME_HAPI="hapi_r4"
export DBHOST="localhost"
export PGPORT=5432
# DB MODE is either POSTGRES or BIGQUERY
export DB_MODE=POSTGRES
# FHIR Server Setup
export FHIR_SERVER="http://localhost:8080/fhir/"
export MIMIC_TERMINOLOGY_PATH="${BASE_PATH}/mimic-fhir/mimic-profiles/input/resources/"
# Local MIMIC-FHIR files
export MIMIC_JSON_PATH="${BASE_PATH}/fhir-output/jsons/"
export FHIR_BUNDLE_ERROR_PATH="${BASE_PATH}/fhir-output/logs/bad_bundles"
export MIMIC_FHIR_LOG_PATH="${BASE_PATH}/fhir-output/logs/"
# Validation
export FHIR_VALIDATOR="HAPI"
# Java Validator
export JAVA_VALIDATOR="${BASE_PATH}/mimic-fhir/validator_cli.jar"
export MIMIC_IG_PATH="${BASE_PATH}/implementation_guide/package.tgz"
# Google Cloud Platform settings
export GCP_PROJECT="project-name"
export GCP_LOCATION="us-central1"
export GCP_TOPIC="mimic-fhir-topic"
export GCP_BUCKET="mimic-fhir"
export GCP_DATASET="mimic-fhir-dataset"
export GCP_FHIRSTORE="mimic-fhir-store"
export GCP_EXPORT_FOLDER="mimic-iv-fhir-v2-export"
export GCP_TOPIC_PATIENT_EVERYTHING='patient-everything'