run_end_to_end_tests.sh

#!/bin/sh

# Script for executing Django PyUnit tests within a Docker container.

# This script should always run as if it were being called from
# the directory it lives in.
script_directory="$(
    cd "$(dirname "$0")" || exit
    pwd
)"
cd "$script_directory" || exit

# Set up the data volume directory if it does not already exist.
# Since the end-to-end tests are run from the Foreman image, use the
# top level test_volume rather than one nested within the foreman
# directory.
project_root=$(cd .. && pwd)
volume_directory="$project_root/test_volume"
if [ ! -d "$volume_directory" ]; then
    mkdir "$volume_directory"
fi
chmod -R a+rwX "$volume_directory"

test_data_repo="https://s3.amazonaws.com/data-refinery-test-assets"
reference_file_dir="$volume_directory/reference/"
quant_file="SRR5085168_quant.sf"
if [ ! -e "$reference_file_dir/$quant_file" ]; then
    mkdir -p "$reference_file_dir"
    echo "Downloading quant file for Transcriptome Index validation tests."
    wget -q -O "$reference_file_dir/$quant_file" \
        "$test_data_repo/$quant_file"
fi

while read -r row; do
    # Exporting an expansion rather than a variable, which is exactly what we want to do.
    # shellcheck disable=SC2163
    export "${row}"
done <../infrastructure/prod_env

docker run \
    --env DATABASE_HOST="$DATABASE_PUBLIC_HOST" \
    --env DJANGO_SECRET_KEY="TEST_KEY_FOR_DEV" \
    --env JOB_DEFINITION_PREFIX="$USER_$STAGE_" \
    --env REFINEBIO_BASE_URL="http://$API_HOST/v1/" \
    --env RUNNING_IN_CLOUD=False \
    --env-file ../infrastructure/prod_env \
    --platform linux/amd64 \
    --volume "$HOME/.aws":/home/user/.aws \
    --volume "$volume_directory":/home/user/data_store \
    --tty \
    "$DOCKERHUB_REPO/$FOREMAN_DOCKER_IMAGE" \
    python3 manage.py test --no-input --parallel=2 --testrunner='tests.test_runner.NoDbTestRunner' tests.foreman.test_end_to_end