groundworkers/.github/workflows/ci.yml at main · AustralianCancerDataNetwork/groundworkers · GitHub

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name: CI
on:
  pull_request:
    branches: [main]
    types: [opened, synchronize, reopened, labeled, unlabeled]
jobs:
  label-gate:
    uses: AustralianCancerDataNetwork/cava-devops/.github/workflows/label-gate.yml@main
  build-test:
    uses: AustralianCancerDataNetwork/cava-devops/.github/workflows/build-test.yml@main
  build-test-postgres:
    uses: AustralianCancerDataNetwork/cava-devops/.github/workflows/build-test-postgres.yml@main
    with:
      ty-src: src
      postgres-image: pgvector/pgvector:pg18
      postgres-db: test_db
      postgres-user: postgres
      postgres-password: postgres
      setup-commands: |
        mkdir -p "$RUNNER_TEMP/omop"
        cp tests/support/postgres_ci_config.toml "$RUNNER_TEMP/omop/config.toml"
        export OA_CONFIG_PATH="$RUNNER_TEMP/omop/config.toml"
        export GROUNDWORKERS_CONFIG_PATH="$RUNNER_TEMP/omop/config.toml"
        export GROUNDWORKERS_REQUIRE_INTEGRATION=1
        export GROUNDWORKERS_TEST_DATABASE_URL="postgresql+psycopg://postgres:postgres@localhost:5432/test_db"
        echo "OA_CONFIG_PATH=$RUNNER_TEMP/omop/config.toml" >> "$GITHUB_ENV"
        echo "GROUNDWORKERS_CONFIG_PATH=$RUNNER_TEMP/omop/config.toml" >> "$GITHUB_ENV"
        echo "GROUNDWORKERS_REQUIRE_INTEGRATION=1" >> "$GITHUB_ENV"
        echo "GROUNDWORKERS_TEST_DATABASE_URL=postgresql+psycopg://postgres:postgres@localhost:5432/test_db" >> "$GITHUB_ENV"
        uv run omop-config connections add pg_test \
          --dialect postgresql+psycopg \
          --host localhost \
          --port 5432 \
          --user postgres \
          --password postgres \
          --database-name test_db \
          --test-only false
        uv run omop-config databases add test_cdm_db \
          --kind cdm \
          --connection pg_test \
          --schema-name public
        uv run omop-config databases add test_vector_db \
          --kind generic \
          --connection pg_test \
          --schema-name public
        uv run omop-config vector-stores add test_embeddings \
          --backend-type pgvector \
          --database test_vector_db
        uv run omop-config configure groundworkers \
          --cdm-db test_cdm_db \
          --vector-store-name test_embeddings
        uv run python -m tests.support.seed_postgres_fixture