From d579ab866107a411abc50669e2b3d86227b0d1c2 Mon Sep 17 00:00:00 2001 From: Laurens Weijs Date: Tue, 3 Sep 2024 15:13:59 +0200 Subject: [PATCH 1/7] Build FastAPI API with 2 endpoints --- .github/workflows/ci.yml | 0 .gitignore | 2 + Dockerfile | 0 docker-entrypoint.sh | 0 instrument_registry/api/main.py | 8 + instrument_registry/api/routes/health.py | 9 + instrument_registry/api/routes/instruments.py | 13 + instrument_registry/api/routes/root.py | 13 + instrument_registry/api/routes/urn.py | 19 + instrument_registry/core/config.py | 26 ++ instrument_registry/core/log.py | 57 +++ instrument_registry/core/types.py | 4 + instrument_registry/lifespan.py | 32 ++ instrument_registry/server.py | 21 ++ poetry.lock | 343 +++++++++++++++++- pyproject.toml | 108 ++++++ script/deploy | 4 + 17 files changed, 657 insertions(+), 2 deletions(-) create mode 100644 .github/workflows/ci.yml create mode 100644 Dockerfile create mode 100644 docker-entrypoint.sh create mode 100644 instrument_registry/api/main.py create mode 100644 instrument_registry/api/routes/health.py create mode 100644 instrument_registry/api/routes/instruments.py create mode 100644 instrument_registry/api/routes/root.py create mode 100644 instrument_registry/api/routes/urn.py create mode 100644 instrument_registry/core/config.py create mode 100644 instrument_registry/core/log.py create mode 100644 instrument_registry/core/types.py create mode 100644 instrument_registry/lifespan.py create mode 100644 instrument_registry/server.py diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml new file mode 100644 index 0000000..e69de29 diff --git a/.gitignore b/.gitignore index 5a6801c..5e3175b 100644 --- a/.gitignore +++ b/.gitignore @@ -25,3 +25,5 @@ __pypackages__/ # PyCharm files .idea/ + +index.json diff --git a/Dockerfile b/Dockerfile new file mode 100644 index 0000000..e69de29 diff --git a/docker-entrypoint.sh b/docker-entrypoint.sh new file mode 100644 index 0000000..e69de29 diff --git a/instrument_registry/api/main.py b/instrument_registry/api/main.py new file mode 100644 index 0000000..541047d --- /dev/null +++ b/instrument_registry/api/main.py @@ -0,0 +1,8 @@ +from fastapi import APIRouter +from instrument_registry.api.routes import health, instruments, root, urn + +api_router = APIRouter() +api_router.include_router(root.router) +api_router.include_router(health.router, prefix="/health", tags=["health"]) +api_router.include_router(instruments.router, prefix="/instruments", tags=["instruments"]) +api_router.include_router(urn.router, prefix="/urn", tags=["urns"]) diff --git a/instrument_registry/api/routes/health.py b/instrument_registry/api/routes/health.py new file mode 100644 index 0000000..1558f43 --- /dev/null +++ b/instrument_registry/api/routes/health.py @@ -0,0 +1,9 @@ +from fastapi import APIRouter +from fastapi.responses import JSONResponse + +router = APIRouter() + + +@router.get("/live", response_class=JSONResponse) +async def liveness() -> dict[str, str]: + return {"status": "ok"} diff --git a/instrument_registry/api/routes/instruments.py b/instrument_registry/api/routes/instruments.py new file mode 100644 index 0000000..8c70822 --- /dev/null +++ b/instrument_registry/api/routes/instruments.py @@ -0,0 +1,13 @@ +import logging + +from fastapi import APIRouter +from fastapi.responses import JSONResponse +from instrument_registry.lifespan import cached_data + +router = APIRouter() +logger = logging.getLogger(__name__) + + +@router.get("/") +async def get_root() -> JSONResponse: + return JSONResponse(content=cached_data["index"]) diff --git a/instrument_registry/api/routes/root.py b/instrument_registry/api/routes/root.py new file mode 100644 index 0000000..bcd0c29 --- /dev/null +++ b/instrument_registry/api/routes/root.py @@ -0,0 +1,13 @@ +import logging + +from fastapi import APIRouter +from fastapi.responses import RedirectResponse + +router = APIRouter() + +logger = logging.getLogger(__name__) + + +@router.get("/") +async def base() -> RedirectResponse: + return RedirectResponse("/instruments/") diff --git a/instrument_registry/api/routes/urn.py b/instrument_registry/api/routes/urn.py new file mode 100644 index 0000000..28cb33f --- /dev/null +++ b/instrument_registry/api/routes/urn.py @@ -0,0 +1,19 @@ +import logging + +from fastapi import APIRouter +from fastapi.responses import JSONResponse +from instrument_registry.lifespan import cached_data + +router = APIRouter() + +logger = logging.getLogger(__name__) + + +@router.get("/") +async def get_instrument(urn: str) -> JSONResponse: + try: + instrument_content = cached_data["urn_mapper"][urn] + return JSONResponse(content=instrument_content) + except KeyError: + logging.exception(f"urn {urn} not found.") + return JSONResponse({"error": "URN does not exist in the instrument registry "}, status_code=404) diff --git a/instrument_registry/core/config.py b/instrument_registry/core/config.py new file mode 100644 index 0000000..4072de8 --- /dev/null +++ b/instrument_registry/core/config.py @@ -0,0 +1,26 @@ +import logging +from typing import Any, TypeVar + +from instrument_registry.core.types import EnvironmentType, LoggingLevelType +from pydantic_settings import BaseSettings + +logger = logging.getLogger(__name__) + + +# Self type is not available in Python 3.10 so create our own with TypeVar +SelfSettings = TypeVar("SelfSettings", bound="Settings") + +PROJECT_NAME: str = "IR" +PROJECT_DESCRIPTION: str = "Instrument Registry" +VERSION: str = "0.1.0" # replace in CI/CD pipeline + + +class Settings(BaseSettings): + ENVIRONMENT: EnvironmentType = "local" + + LOGGING_LEVEL: LoggingLevelType = "INFO" + LOGGING_CONFIG: dict[str, Any] | None = None + + +def get_settings() -> Settings: + return Settings() diff --git a/instrument_registry/core/log.py b/instrument_registry/core/log.py new file mode 100644 index 0000000..bf3eb23 --- /dev/null +++ b/instrument_registry/core/log.py @@ -0,0 +1,57 @@ +import copy +import logging +import logging.config +from typing import Any + +from instrument_registry.core.types import LoggingLevelType + +LOGGING_SIZE = 10 * 1024 * 1024 +LOGGING_BACKUP_COUNT = 5 + +LOGGING_CONFIG = { + "version": 1, + "disable_existing_loggers": False, + "formatters": { + "generic": { + "()": "logging.Formatter", + "style": "{", + "fmt": "{asctime}({levelname},{name}): {message}", + "datefmt": "[%Y-%m-%d %H:%M:%S %z]", + } + }, + "handlers": { + "console": { + "formatter": "generic", + "class": "logging.StreamHandler", + "stream": "ext://sys.stdout", + }, + "file": { + "formatter": "generic", + "()": "logging.handlers.RotatingFileHandler", + "filename": "instrument-registry.log", + "maxBytes": LOGGING_SIZE, + "backupCount": LOGGING_BACKUP_COUNT, + }, + }, + "loggers": { + "": {"handlers": ["console", "file"], "level": "DEBUG", "propagate": False}, + "httpcore": { + "handlers": ["console", "file"], + "level": "ERROR", + "propagate": False, + }, + }, +} + + +def configure_logging(level: LoggingLevelType = "INFO", config: dict[str, Any] | None = None) -> None: + log_config = copy.deepcopy(LOGGING_CONFIG) + + if config: + log_config.update(config) + + logging.config.dictConfig(log_config) + + logger = logging.getLogger("instrument-registry") + + logger.setLevel(level) diff --git a/instrument_registry/core/types.py b/instrument_registry/core/types.py new file mode 100644 index 0000000..19f1910 --- /dev/null +++ b/instrument_registry/core/types.py @@ -0,0 +1,4 @@ +from typing import Literal + +EnvironmentType = Literal["local", "production"] +LoggingLevelType = Literal["DEBUG", "INFO", "WARNING", "ERROR", "CRITICAL"] diff --git a/instrument_registry/lifespan.py b/instrument_registry/lifespan.py new file mode 100644 index 0000000..346ace0 --- /dev/null +++ b/instrument_registry/lifespan.py @@ -0,0 +1,32 @@ +import json +import logging +from collections.abc import AsyncGenerator +from contextlib import asynccontextmanager +from typing import Any + +import yaml +from fastapi import FastAPI +from instrument_registry.core.config import PROJECT_NAME, VERSION, get_settings +from instrument_registry.core.log import configure_logging + +cached_data: dict[str, Any] = {} + +configure_logging(get_settings().LOGGING_LEVEL, get_settings().LOGGING_CONFIG) + +logger = logging.getLogger(__name__) + + +@asynccontextmanager +async def lifespan(app: FastAPI) -> AsyncGenerator[None, None]: + logger.info(f"Starting {PROJECT_NAME} version {VERSION}") + with open("index.json") as f: + cached_data["index"] = json.load(f) + urn_mapper = {} + for instrument in cached_data["index"]["entries"]: + with open(instrument["path"]) as f: + urn_mapper[instrument["urn"]] = yaml.safe_load(f) + cached_data["urn_mapper"] = urn_mapper + yield + cached_data.clear() + logger.info(f"Stopping application {PROJECT_NAME} version {VERSION}") + logging.shutdown() diff --git a/instrument_registry/server.py b/instrument_registry/server.py new file mode 100644 index 0000000..1947bac --- /dev/null +++ b/instrument_registry/server.py @@ -0,0 +1,21 @@ +from fastapi import FastAPI +from fastapi.responses import JSONResponse +from instrument_registry.api.main import api_router +from instrument_registry.core.config import PROJECT_DESCRIPTION, PROJECT_NAME, VERSION +from instrument_registry.lifespan import lifespan + + +def create_app() -> FastAPI: + app = FastAPI( + lifespan=lifespan, + title=PROJECT_NAME, + summary=PROJECT_DESCRIPTION, + version=VERSION, + default_response_class=JSONResponse, + ) + app.include_router(api_router) + + return app + + +app = create_app() diff --git a/poetry.lock b/poetry.lock index 192edc0..45326be 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,4 +1,35 @@ -# This file is automatically @generated by Poetry 1.8.2 and should not be changed by hand. +# This file is automatically @generated by Poetry 1.8.3 and should not be changed by hand. + +[[package]] +name = "annotated-types" +version = "0.7.0" +description = "Reusable constraint types to use with 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-content-hash = "464f215a9a7130d2e784af1d942d6f03e839168e24df1de76009dc28152813f1" +content-hash = "26a947b67ae51a9ae7620a500f7ce50f8d71e0c2b192cac2ab5d6a13344ef961" diff --git a/pyproject.toml b/pyproject.toml index be062c6..bc2b8b3 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -2,12 +2,120 @@ name = "instrument-registry" version = "0.1.0" readme = "README.md" +description = "" +authors = ["ai-validatie-team "] +packages = [ + { include = "instrument_registry" } +] [tool.poetry.dependencies] python = "^3.12" jsonschema = "^4.22.0" pyyaml = "^6.0.1" +fastapi = "^0.112.2" +uvicorn = "^0.30.6" +ruff = "^0.6.3" +pydantic-settings = "^2.4.0" [build-system] requires = ["poetry-core"] build-backend = "poetry.core.masonry.api" + +[tool.poetry.group.test.dependencies] +pytest = "^8.3.2" +coverage = "^7.6.1" +playwright = "^1.45.0" +pytest-playwright = "^0.5.1" +pytest-httpx = "^0.30.0" + +[tool.poetry.group.dev.dependencies] +ruff = "^0.6.3" +pre-commit = "^3.8.0" +pyright = "^1.1.378" +liccheck = "^0.9.2" +types-pyyaml = "^6.0.12.20240724" + + +[tool.poetry.urls] +"Issue Tracker" = "https://github.com/MinBZK/instrument-registry/issues" + +# Ruff settings: https://docs.astral.sh/ruff/configuration/ +[tool.ruff] +line-length = 120 +target-version = "py311" +src = ["instrument_registry","tests"] + +[tool.ruff.format] +line-ending = "lf" + +[tool.ruff.lint] +select = ["I", "SIM", "B", "UP", "F", "E", "S", "C90", "DTZ", "LOG", "PIE", "PT", "ERA", "W", "C", "TRY", "RUF", "ANN"] +fixable = ["ALL"] +task-tags = ["TODO"] +ignore = ["TRY003", "ANN101"] + +[tool.ruff.lint.per-file-ignores] +"tests/**.py" = ["S101", "ANN201"] + +[tool.ruff.lint.mccabe] +max-complexity = 8 + +[tool.pyright] +pythonVersion = "3.11" +typeCheckingMode = "strict" +reportMissingImports = true +reportMissingTypeStubs = true +reportUnnecessaryIsInstance = false +exclude = [ + ".venv", +] + +[tool.coverage.run] +branch = true +command_line = "-m pytest" +relative_files = true # needed for sonarcloud code coverage +omit = [ + "tests/*" +] + + +[tool.coverage.report] +fail_under = 95 + +[tool.coverage.html] +directory = "htmlcov" +title = "instrument-registry" + + +[tool.pytest.ini_options] +testpaths = [ + "tests" +] +addopts = "--strict-markers -v -q --tracing on" +filterwarnings = [ + "ignore::UserWarning" +] +log_cli = true +log_cli_level = "INFO" +faulthandler_timeout = 20 +markers = [ + "slow: marks tests as slow" +] + +[tool.liccheck] +level = "PARANOID" +dependencies = true +authorized_licenses = [ + "Apache Software", + "Artistic", + "BSD", + "GNU General Public License v2 or later (GPLv2+)", + "GNU General Public License v3 or later (GPLv3+)", + "GNU General Public License (GPL)", + "GNU Library or Lesser General Public License (LGPL)", + "MIT", + "The Unlicense (Unlicense)", + "ISC License (ISCL)", + "Mozilla Public License 2.0 (MPL 2.0)", + "Python Software Foundation" +] diff --git a/script/deploy b/script/deploy index 2e64682..f13d8df 100755 --- a/script/deploy +++ b/script/deploy @@ -1,5 +1,6 @@ #!/usr/bin/env python3 +import yaml import json import os @@ -26,11 +27,14 @@ def generate_index(directory, output_file, base_url): if file.endswith(".yaml"): file_path = os.path.join(root, file) relative_path = file_path.replace("\\", "/") + f = open(file_path) + instrument = yaml.safe_load(f) file_info = { "type": "file", "size": get_file_size(file_path), "name": file, "path": relative_path, + "urn": instrument["urn"], "download_url": f"{base_url}/{relative_path}", "_links": { "self": f"{base_url}/{relative_path}", From e649c19fae3db0afe9efb7ac4d74279ad27db679 Mon Sep 17 00:00:00 2001 From: Laurens Weijs Date: Wed, 4 Sep 2024 11:30:22 +0200 Subject: [PATCH 2/7] Add Docker + Compose file for deployment --- Dockerfile | 72 +++ compose.yml | 15 + docker-entrypoint.sh | 8 + poetry.lock | 1051 +++++++++++++++++++++++++++++++++++------- 4 files changed, 979 insertions(+), 167 deletions(-) create mode 100644 compose.yml diff --git a/Dockerfile b/Dockerfile index e69de29..1652f1b 100644 --- a/Dockerfile +++ b/Dockerfile @@ -0,0 +1,72 @@ +ARG PYTHON_VERSION=3.12-slim + +FROM --platform=$BUILDPLATFORM python:${PYTHON_VERSION} AS project-base + +LABEL maintainer=ai-validatie@minbzk.nl \ + organization=MinBZK \ + license=EUPL-1.2 \ + org.opencontainers.image.description="Instrument Registry" \ + org.opencontainers.image.source=https://github.com/MinBZK/instrument-registry \ + org.opencontainers.image.licenses=EUPL-1.2 + +ENV PYTHONUNBUFFERED=1 \ + PYTHONDONTWRITEBYTECODE=1 \ + PIP_NO_CACHE_DIR=off \ + PIP_DISABLE_PIP_VERSION_CHECK=on \ + PIP_DEFAULT_TIMEOUT=100 \ + POETRY_VIRTUALENVS_IN_PROJECT=true \ + POETRY_NO_INTERACTION=1 \ + POETRY_HOME='/usr/local' + +RUN apt-get update && apt-get install -y --no-install-recommends \ + curl libpq-dev \ + && rm -rf /var/lib/apt/lists/* + +RUN curl -sSL https://install.python-poetry.org | python3 - + +WORKDIR /app/ +COPY ./poetry.lock ./pyproject.toml ./ +COPY ./instruments/ ./instruments/ +COPY ./script/ ./script/ + +RUN poetry install +ENV PATH="/app/.venv/bin:$PATH" +RUN python script/deploy + +FROM project-base AS development + +COPY instrument-registry/ ./instrument-registry/ +COPY ./tests/ ./tests/ +COPY ./README.md ./README.md +RUN poetry install + + +FROM development AS lint +COPY ./.prettierrc ./.prettierignore ./ +RUN ruff format --check +RUN npm run prettier:check +RUN ruff check +RUN npm run lint +RUN pyright + +FROM project-base AS production + + +RUN groupadd ir && \ + adduser --uid 100 --system --ingroup ir ir + +RUN chown ir:ir /app/ + +USER ir + +COPY --chown=root:root --chmod=755 instrument_registry /app/instrument_registry +COPY --chown=root:root --chmod=755 instruments /app/instruments +COPY --chown=root:root --chmod=755 LICENSE /app/LICENSE +COPY --chown=ir:ir --chmod=755 docker-entrypoint.sh /app/docker-entrypoint.sh + +ENV PYTHONPATH=/app/ +WORKDIR /app/ + +ENV PATH="/app/:$PATH" + +CMD [ "docker-entrypoint.sh" ] diff --git a/compose.yml b/compose.yml new file mode 100644 index 0000000..6b74814 --- /dev/null +++ b/compose.yml @@ -0,0 +1,15 @@ +services: + ir: + build: + context: . + dockerfile: Dockerfile + image: ghcr.io/minbzk/ir:latest + restart: unless-stopped + volumes: + - ./instrument_registry:/app/instrument_registry/:cached + environment: + - ENVIRONMENT=local + ports: + - 8070:8000 + healthcheck: + test: ["CMD-SHELL", "curl -f http://localhost:8000/health/live || exit 1"] diff --git a/docker-entrypoint.sh b/docker-entrypoint.sh index e69de29..f9e8ee7 100644 --- a/docker-entrypoint.sh +++ b/docker-entrypoint.sh @@ -0,0 +1,8 @@ +#!/usr/bin/env bash + +HOST="0.0.0.0" +LOGLEVEL="warning" +PORT="8000" + +echo "Starting server" +python -m uvicorn --host "$HOST" instrument_registry.server:app --port "$PORT" --log-level "$LOGLEVEL" diff --git a/poetry.lock b/poetry.lock index 45326be..a7f0c3a 100644 --- a/poetry.lock +++ b/poetry.lock @@ -33,22 +33,143 @@ trio = ["trio (>=0.23)"] [[package]] name = "attrs" -version = "23.2.0" 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/usr/local/bin + IMAGE_NAME: ${{ github.repository }} + PYTHON_VERSION: "3.12" + +jobs: + lint: + runs-on: ubuntu-latest + steps: + - uses: actions/checkout@v4 + + - name: Install poetry + run: pipx install poetry + + - name: Set up Python ${{ env.PYTHON_VERSION }} + uses: actions/setup-python@v5 + with: + python-version: ${{ env.PYTHON_VERSION }} + cache: "poetry" + + - name: Install dependencies + run: poetry install + + - name: run ruff + run: poetry run ruff check --output-format=github + + - name: Run format + run: poetry run ruff format --check + + - name: Run pyright + run: poetry run pyright + + security: + runs-on: ubuntu-latest + steps: + - uses: actions/checkout@v4 + + - name: Install poetry + run: pipx install poetry + + - name: Set up Python ${{ env.PYTHON_VERSION }} + uses: actions/setup-python@v5 + with: + python-version: ${{ env.PYTHON_VERSION }} + cache: "poetry" + + - name: Install dependencies + run: poetry install + + - name: check licenses used by project in pyproject.toml + run: poetry run liccheck -s pyproject.toml + + - name: Run Trivy vulnerability scanner + uses: aquasecurity/trivy-action@master + with: + trivy-config: trivy.yaml + scan-type: fs + scan-ref: "." + + test-compose: + runs-on: ubuntu-latest + steps: + - uses: actions/checkout@v4 + - run: docker compose build + - run: docker compose down -v --remove-orphans + - run: docker compose up -d + + test-local-backend: + runs-on: ubuntu-latest + steps: + - uses: actions/checkout@v4 + with: + fetch-depth: 0 + + - name: Install poetry + run: pipx install poetry + + - name: Set up Python ${{ env.PYTHON_VERSION }} + uses: actions/setup-python@v5 + with: + python-version: ${{ env.PYTHON_VERSION }} + cache: "poetry" + + - name: Install dependencies + run: poetry install + + - name: Install Playwright browsers + run: poetry run playwright install --with-deps + + - name: Run pytest + run: TZ=UTC poetry run coverage run -m pytest + + - name: Upload playwright tracing + if: failure() + uses: actions/upload-artifact@v3 + with: + name: playwright-${{ github.sha }} + path: test-results/ + if-no-files-found: error + overwrite: true + + - name: run coverage report + run: poetry run coverage report + + - name: run coverage html + run: poetry run coverage html + + - name: Upload code coverage report + uses: actions/upload-artifact@v3 + with: + name: codecoverage-${{ github.sha }} + path: htmlcov/ + if-no-files-found: error + overwrite: true + + - name: run coverage xml + run: poetry run coverage xml + + - name: SonarCloud Scan + if: github.actor != 'dependabot[bot]' && !env.ACT + uses: SonarSource/sonarcloud-github-action@master + env: + GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} # Needed to get PR information, if any + SONAR_TOKEN: ${{ secrets.SONAR_TOKEN }} + + build: + needs: [test-local-backend, test-compose] + if: ${{ !github.event.act }} + runs-on: ubuntu-latest + permissions: + packages: write + contents: read + security-events: write + actions: read + steps: + - uses: actions/checkout@v4 + with: + fetch-depth: 0 + + - name: get commit hash + id: get_commit_hash + run: | + echo "commit_hash=$(git describe --tags)" >> "$GITHUB_OUTPUT" + + - name: Make changes to project to inject commit hash + run: | + sed -i 's/VERSION: str = .*$/VERSION: str = "${{ steps.get_commit_hash.outputs.commit_hash }}"/g' instrument_registry/core/config.py + + - name: Log in to the Container registry + uses: docker/login-action@v3 + with: + registry: ${{ env.REGISTRY }} + username: ${{ github.actor }} + password: ${{ secrets.GITHUB_TOKEN }} + + - name: Set up QEMU + uses: docker/setup-qemu-action@v3 + + - name: Set up Docker Buildx + uses: docker/setup-buildx-action@v3 + + - name: Extract metadata for Docker + id: meta + uses: docker/metadata-action@v5 + with: + images: ${{ env.REGISTRY }}/${{ env.IMAGE_NAME }} #TODO(berry): fix on git labels multiple tags + env: + DOCKER_METADATA_ANNOTATIONS_LEVELS: manifest,index + + - name: print metadata + run: | + echo "tags: ${{ steps.meta.outputs.tags }}" + echo "labels: ${{ steps.meta.outputs.labels }}" + echo "annotations: ${{ steps.meta.outputs.annotations }}" + echo "hash: ${{ steps.get_commit_hash.outputs.commit_hash }}" + + - name: Build and push Docker image + uses: docker/build-push-action@v6 + with: + context: . + file: ./Dockerfile + push: true + tags: ${{ steps.meta.outputs.tags }} + labels: ${{ steps.meta.outputs.labels }} + annotations: ${{ steps.meta.outputs.annotations }} + platforms: linux/amd64,linux/arm64,darwin/amd64 + + - name: Run Trivy vulnerability scanner sarif + uses: aquasecurity/trivy-action@master + with: + image-ref: ${{ steps.meta.outputs.tags }} + scan-type: image + exit-code: 0 + format: "sarif" + output: "trivy-results.sarif" + env: + TRIVY_USERNAME: ${{ github.actor }} + TRIVY_PASSWORD: ${{ secrets.GITHUB_TOKEN }} + + - name: Upload Trivy scan results to GitHub Security tab + uses: github/codeql-action/upload-sarif@v3 + with: + sarif_file: "trivy-results.sarif" + + - name: Extract metadata for Docker + id: meta2 + uses: docker/metadata-action@v5 + with: + images: ${{ env.REGISTRY }}/${{ env.IMAGE_NAME }} #TODO(berry): fix on git labels multiple tags + flavor: | + latest=false + env: + DOCKER_METADATA_ANNOTATIONS_LEVELS: manifest,index + + - name: Run Trivy SBOM + uses: aquasecurity/trivy-action@master + with: + image-ref: ${{ steps.meta2.outputs.tags }} + scan-type: image + exit-code: 0 + format: "cyclonedx" + output: "trivy-sbom.json" + list-all-pkgs: "true" + env: + TRIVY_USERNAME: ${{ github.actor }} + TRIVY_PASSWORD: ${{ secrets.GITHUB_TOKEN }} + + - name: Run Trivy license scanner + uses: aquasecurity/trivy-action@master + with: + image-ref: ${{ steps.meta2.outputs.tags }} + scan-type: image + scanners: "license" + exit-code: 0 + output: "trivy-license.json" + env: + TRIVY_USERNAME: ${{ github.actor }} + TRIVY_PASSWORD: ${{ secrets.GITHUB_TOKEN }} + + - name: Upload SBOM & License + uses: actions/upload-artifact@v4 + with: + name: sbom-licence-${{ github.sha }}.json + path: | + trivy-sbom.json + trivy-license.json + if-no-files-found: error + overwrite: true + + deploy: + runs-on: ubuntu-latest + needs: [build] + if: ${{ github.event_name == 'push' && !github.event.act}} + permissions: + actions: write + steps: + - name: Extract metadata for Docker + id: meta + uses: docker/metadata-action@v5 + with: + images: "" # make empty to get the correct tag + flavor: | + latest=false + + - name: print metadata + run: | + echo "tags: ${{ steps.meta.outputs.tags }}" + + - uses: actions/checkout@v4 + + - name: Trigger deployment + run: | + gh workflow run deploy.yml -f image_tag=${{ steps.meta.outputs.tags }} -f environment=production + env: + GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} + + notifyMattermost: + runs-on: ubuntu-latest + needs: + [ + lint, + security, + test-local-backend, + test-compose, + build, + ] + if: ${{ always() && contains(needs.*.result, 'failure') }} + steps: + - uses: mattermost/action-mattermost-notify@master + if: github.event_name != 'pull_request' || github.event.pull_request.draft == false + with: + MATTERMOST_WEBHOOK_URL: ${{ secrets.MM_WEBHOOK_URL }} + MATTERMOST_CHANNEL: dev + TEXT: | + ${{ github.repository }} failed build @here :unamused: + :rotating_light: [Pipeline](${{ github.server_url }}/${{ github.repository }}/actions/runs/${{ github.run_id }}) failed :fire: + MATTERMOST_USERNAME: ${{ github.triggering_actor }} diff --git a/.github/workflows/deploy.yml b/.github/workflows/deploy.yml index 342a521..3eda474 100644 --- a/.github/workflows/deploy.yml +++ b/.github/workflows/deploy.yml @@ -32,3 +32,49 @@ jobs: git push --force origin deployment env: GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} + + + deploy: + runs-on: ubuntu-latest + steps: + - name: Get GHCR package hash + id: get_package_hash + run: | + container_id=$(gh api --paginate -H "Accept: application/vnd.github+json" -H "X-GitHub-Api-Version: 2022-11-28" /orgs/MinBZK/packages/container/amt/versions | jq -r '.[] | select(.metadata.container.tags | contains(["${{ inputs.image_tag }}"])) | .name') + echo "container_id=$container_id" >> "$GITHUB_OUTPUT" + env: + GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} + + - name: check correct name + run: | + if [ -z "${{steps.get_package_hash.outputs.container_id}}" ]; then + echo "Variable is empty. Failing the workflow." + exit 1 + fi + + - uses: actions/checkout@v4 + with: + repository: "minbzk/ai-validation-infra" + ref: main + token: ${{ secrets.GH_PAT }} + + - name: Configure Git + run: | + git config --global user.name "github-actions[bot]" + git config --global user.email "github-actions[bot]@users.noreply.github.com" + + - name: Make changes to the file + run: | + sed -i 's/newTag: .*$/newTag: ${{inputs.image_tag }}@${{ steps.get_package_hash.outputs.container_id }}/g' apps/amt/overlays/${{ inputs.environment }}/kustomization.yaml + sed -i 's|minbzk.github.io/version: .*$|minbzk.github.io/version: ${{ inputs.image_tag }}|g' apps/amt/overlays/${{ inputs.environment }}/kustomization.yaml + git add apps/amt/overlays/${{ inputs.environment }}/kustomization.yaml + + - name: show changes + run: git diff --staged + + - name: push changes + run: | + git commit -m "Update amt overlay ${{ inputs.environment }} tag ${{ steps.get_package_hash.outputs.container_id }}" + git push --force-with-lease + env: + GITHUB_TOKEN: ${{ secrets.GH_PAT }} diff --git a/act_event.json b/act_event.json new file mode 100644 index 0000000..176cfa8 --- /dev/null +++ b/act_event.json @@ -0,0 +1,3 @@ +{ + "act": true +} diff --git a/poetry.lock b/poetry.lock index a7f0c3a..fbb767d 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1166,6 +1166,26 @@ files = [ dev = ["Django (>=1.11)", "check-manifest", "colorama (<=0.4.1)", "coverage", "flake8", "nose2", "readme-renderer (<25.0)", "tox", "wheel", "zest.releaser[recommended]"] doc = ["Sphinx", "sphinx-rtd-theme"] +[[package]] +name = "setuptools" +version = "74.1.1" +description = "Easily download, build, install, upgrade, and uninstall Python packages" +optional = false +python-versions = ">=3.8" +files = [ + {file = "setuptools-74.1.1-py3-none-any.whl", hash = "sha256:fc91b5f89e392ef5b77fe143b17e32f65d3024744fba66dc3afe07201684d766"}, + {file = "setuptools-74.1.1.tar.gz", hash = "sha256:2353af060c06388be1cecbf5953dcdb1f38362f87a2356c480b6b4d5fcfc8847"}, +] + +[package.extras] +check = ["pytest-checkdocs (>=2.4)", "pytest-ruff (>=0.2.1)", "ruff (>=0.5.2)"] +core = ["importlib-metadata (>=6)", "importlib-resources (>=5.10.2)", "jaraco.text (>=3.7)", "more-itertools (>=8.8)", "packaging (>=24)", "platformdirs (>=2.6.2)", "tomli (>=2.0.1)", "wheel (>=0.43.0)"] +cover = ["pytest-cov"] +doc = ["furo", "jaraco.packaging (>=9.3)", "jaraco.tidelift (>=1.4)", "pygments-github-lexers (==0.0.5)", "pyproject-hooks (!=1.1)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-favicon", "sphinx-inline-tabs", "sphinx-lint", "sphinx-notfound-page (>=1,<2)", "sphinx-reredirects", "sphinxcontrib-towncrier", "towncrier (<24.7)"] +enabler = ["pytest-enabler (>=2.2)"] +test = ["build[virtualenv] (>=1.0.3)", "filelock (>=3.4.0)", "ini2toml[lite] (>=0.14)", "jaraco.develop (>=7.21)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "jaraco.test", "packaging (>=23.2)", "pip (>=19.1)", "pyproject-hooks (!=1.1)", "pytest (>=6,!=8.1.*)", "pytest-home (>=0.5)", "pytest-perf", "pytest-subprocess", "pytest-timeout", "pytest-xdist (>=3)", "tomli-w (>=1.0.0)", "virtualenv (>=13.0.0)", "wheel (>=0.44.0)"] +type = ["importlib-metadata (>=7.0.2)", "jaraco.develop (>=7.21)", "mypy (==1.11.*)", "pytest-mypy"] + [[package]] name = "sniffio" version = "1.3.1" @@ -1296,4 +1316,4 @@ test = ["covdefaults (>=2.3)", "coverage (>=7.2.7)", "coverage-enable-subprocess [metadata] lock-version = "2.0" python-versions = "^3.12" -content-hash = "a5e7886f777eed0e4a31826d73748160954604efb8d6c28c15e83207701b54b1" +content-hash = "e15782eb6caf9124ed74086d3954e1e340a9ed892874deebe835015de2aa8a4f" diff --git a/pyproject.toml b/pyproject.toml index bc2b8b3..c2a6d91 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -4,6 +4,9 @@ version = "0.1.0" readme = "README.md" description = "" authors = ["ai-validatie-team "] +repository = "https://github.com/MinBZK/instrument-registry" +keywords = ["AI", "Validation", "Instrument", "Registry"] +license = "EUPL-1.2" packages = [ { include = "instrument_registry" } ] @@ -17,6 +20,7 @@ uvicorn = "^0.30.6" ruff = "^0.6.3" pydantic-settings = "^2.4.0" +setuptools = "^74.1.1" [build-system] requires = ["poetry-core"] build-backend = "poetry.core.masonry.api" diff --git a/sonar-project.properties b/sonar-project.properties new file mode 100644 index 0000000..d4ec8d1 --- /dev/null +++ b/sonar-project.properties @@ -0,0 +1,20 @@ +sonar.projectKey=MinBZK_instrument-registry +sonar.organization=minbzk + +# This is the name and version displayed in the SonarCloud UI. +sonar.projectName=instrument_registry +sonar.projectVersion=0.1.0 + + +# Path is relative to the sonar-project.properties file. Replace "\" by "/" on Windows. +sonar.sources=instrument_registry/ +sonar.tests=tests/ + +# Encoding of the source code. Default is default system encoding +sonar.sourceEncoding=UTF-8 + +sonar.python.version=3.12 + +sonar.python.coverage.reportPaths=coverage.xml + +sonar.coverage.exclusions=instruments/** From c2a02b1d680b58ac9ef036fe077794fb14aba501 Mon Sep 17 00:00:00 2001 From: ChristopherSpelt Date: Wed, 4 Sep 2024 14:25:27 +0200 Subject: [PATCH 4/7] Add tests --- .github/workflows/ci.yml | 12 ---- .gitignore | 3 + Dockerfile | 2 +- instrument_registry/core/log.py | 2 +- instrument_registry/lifespan.py | 14 ++++- tests/api/routes/test_health.py | 10 ++++ tests/api/routes/test_instruments.py | 11 ++++ tests/api/routes/test_root.py | 9 +++ tests/api/routes/test_urn.py | 21 +++++++ tests/conftest.py | 53 +++++++++++++++++ tests/core/test_log.py | 86 ++++++++++++++++++++++++++++ tests/test_main.py | 9 +++ 12 files changed, 215 insertions(+), 17 deletions(-) create mode 100644 tests/api/routes/test_health.py create mode 100644 tests/api/routes/test_instruments.py create mode 100644 tests/api/routes/test_root.py create mode 100644 tests/api/routes/test_urn.py create mode 100644 tests/conftest.py create mode 100644 tests/core/test_log.py create mode 100644 tests/test_main.py diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index 35f1af0..eec4565 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -102,21 +102,9 @@ jobs: - name: Install dependencies run: poetry install - - name: Install Playwright browsers - run: poetry run playwright install --with-deps - - name: Run pytest run: TZ=UTC poetry run coverage run -m pytest - - name: Upload playwright tracing - if: failure() - uses: actions/upload-artifact@v3 - with: - name: playwright-${{ github.sha }} - path: test-results/ - if-no-files-found: error - overwrite: true - - name: run coverage report run: poetry run coverage report diff --git a/.gitignore b/.gitignore index 5e3175b..388271b 100644 --- a/.gitignore +++ b/.gitignore @@ -27,3 +27,6 @@ __pypackages__/ .idea/ index.json + +# Logging files +*.log diff --git a/Dockerfile b/Dockerfile index 1652f1b..bc6e6c0 100644 --- a/Dockerfile +++ b/Dockerfile @@ -22,7 +22,7 @@ RUN apt-get update && apt-get install -y --no-install-recommends \ curl libpq-dev \ && rm -rf /var/lib/apt/lists/* -RUN curl -sSL https://install.python-poetry.org | python3 - +RUN curl --proto "=https" -sSL https://install.python-poetry.org | python3 - WORKDIR /app/ COPY ./poetry.lock ./pyproject.toml ./ diff --git a/instrument_registry/core/log.py b/instrument_registry/core/log.py index bf3eb23..5ce1d80 100644 --- a/instrument_registry/core/log.py +++ b/instrument_registry/core/log.py @@ -52,6 +52,6 @@ def configure_logging(level: LoggingLevelType = "INFO", config: dict[str, Any] | logging.config.dictConfig(log_config) - logger = logging.getLogger("instrument-registry") + logger = logging.getLogger("ir") logger.setLevel(level) diff --git a/instrument_registry/lifespan.py b/instrument_registry/lifespan.py index 346ace0..2b42baf 100644 --- a/instrument_registry/lifespan.py +++ b/instrument_registry/lifespan.py @@ -2,7 +2,7 @@ import logging from collections.abc import AsyncGenerator from contextlib import asynccontextmanager -from typing import Any +from typing import Any, TextIO import yaml from fastapi import FastAPI @@ -16,14 +16,22 @@ logger = logging.getLogger(__name__) +def get_index_file() -> TextIO: + return open("index.json") # noqa: SIM115 # pragma: no cover + + +def get_instrument_file(path: str) -> TextIO: + return open(path) # noqa: SIM115 # pragma: no cover + + @asynccontextmanager async def lifespan(app: FastAPI) -> AsyncGenerator[None, None]: logger.info(f"Starting {PROJECT_NAME} version {VERSION}") - with open("index.json") as f: + with get_index_file() as f: cached_data["index"] = json.load(f) urn_mapper = {} for instrument in cached_data["index"]["entries"]: - with open(instrument["path"]) as f: + with get_instrument_file(instrument["path"]) as f: urn_mapper[instrument["urn"]] = yaml.safe_load(f) cached_data["urn_mapper"] = urn_mapper yield diff --git a/tests/api/routes/test_health.py b/tests/api/routes/test_health.py new file mode 100644 index 0000000..69b4cfc --- /dev/null +++ b/tests/api/routes/test_health.py @@ -0,0 +1,10 @@ +from fastapi.testclient import TestClient + + +def test_health_live(client: TestClient) -> None: + response = client.get( + "/health/live", + ) + assert response.status_code == 200 + assert response.headers["content-type"] == "application/json" + assert response.json() == {"status": "ok"} diff --git a/tests/api/routes/test_instruments.py b/tests/api/routes/test_instruments.py new file mode 100644 index 0000000..6c6546d --- /dev/null +++ b/tests/api/routes/test_instruments.py @@ -0,0 +1,11 @@ +from fastapi.testclient import TestClient + + +def test_get_main_page(client: TestClient) -> None: + # when + response = client.get("/instruments/") + + # then + assert response.status_code == 200 + assert response.headers["content-type"] == "application/json" + assert b'{"entries":[{"path":"instruments/test_instrument.yaml","urn":"test_urn"}]}' in response.content.lower() diff --git a/tests/api/routes/test_root.py b/tests/api/routes/test_root.py new file mode 100644 index 0000000..ced1103 --- /dev/null +++ b/tests/api/routes/test_root.py @@ -0,0 +1,9 @@ +from fastapi.testclient import TestClient + + +def test_get_root(client: TestClient) -> None: + response = client.get( + "/", + follow_redirects=False, + ) + assert response.status_code == 307 diff --git a/tests/api/routes/test_urn.py b/tests/api/routes/test_urn.py new file mode 100644 index 0000000..6d703dc --- /dev/null +++ b/tests/api/routes/test_urn.py @@ -0,0 +1,21 @@ +from fastapi.testclient import TestClient + + +def test_get_urn(client: TestClient) -> None: + # when + response = client.get("/urn/?urn=test_urn") + + # then + assert response.status_code == 200 + assert response.headers["content-type"] == "application/json" + assert b'{"test":"test"}' in response.content.lower() + + +def test_get_nonexistent_urn(client: TestClient) -> None: + # when + response = client.get("/urn/?urn=nonexisting_urn") + + # then + assert response.status_code == 404 + assert response.headers["content-type"] == "application/json" + assert b'{"error":"urn does not exist in the instrument registry "}' in response.content.lower() diff --git a/tests/conftest.py b/tests/conftest.py new file mode 100644 index 0000000..e04d7cb --- /dev/null +++ b/tests/conftest.py @@ -0,0 +1,53 @@ +import io +import logging +from collections.abc import Generator +from unittest.mock import Mock + +import pytest +from fastapi.testclient import TestClient +from instrument_registry import lifespan +from instrument_registry.server import create_app + +logger = logging.getLogger(__name__) + +INDEX_JSON = """ +{ + "entries": [ + { + "path": "instruments/test_instrument.yaml", + "urn": "test_urn" + } + ] +} +""" + +INSTRUMENT_JSON = """{"test":"test"}""" + + +@pytest.fixture +def mock_index_file() -> Generator[None, None, None]: # noqa: PT004 + origin = lifespan.get_index_file + lifespan.get_index_file = Mock(return_value=io.StringIO(INDEX_JSON)) + yield + lifespan.get_index_file = origin + + +@pytest.fixture +def mock_instrument_file() -> Generator[None, None, None]: # noqa: PT004 + origin = lifespan.get_instrument_file + lifespan.get_instrument_file = Mock(return_value=io.StringIO(INSTRUMENT_JSON)) + yield + lifespan.get_instrument_file = origin + + +@pytest.fixture +def client( + monkeypatch: pytest.MonkeyPatch, + mock_index_file: Generator[None, None, None], + mock_instrument_file: Generator[None, None, None], +) -> Generator[TestClient, None, None]: + app = create_app() + + with TestClient(app, raise_server_exceptions=True) as c: + c.timeout = 5 + yield c diff --git a/tests/core/test_log.py b/tests/core/test_log.py new file mode 100644 index 0000000..3768363 --- /dev/null +++ b/tests/core/test_log.py @@ -0,0 +1,86 @@ +import logging + +import pytest +from instrument_registry.core.config import Settings +from instrument_registry.core.log import configure_logging + + +def test_logging_ir_module(caplog: pytest.LogCaptureFixture): + config = {"loggers": {"ir": {"propagate": True}}} + + configure_logging(config=config) + + logger = logging.getLogger("ir") + + message = "This is a test log message" + logger.debug(message) # defaults to INFO level so debug is not printed + logger.info(message) + logger.warning(message) + logger.error(message) + logger.critical(message) + + assert len(caplog.records) == 4 + assert caplog.records[0].message == message + + +def test_logging_submodule(caplog: pytest.LogCaptureFixture): + config = {"loggers": {"ir": {"propagate": True}}} + + configure_logging(config=config) + + logger = logging.getLogger("ir.main") + + message = "This is a test log message" + logger.debug(message) + logger.info(message) # should use module logger level + logger.warning(message) + logger.error(message) + logger.critical(message) + + assert len(caplog.records) == 4 + assert caplog.records[0].message == message + + +def test_logging_config(caplog: pytest.LogCaptureFixture, monkeypatch: pytest.MonkeyPatch): + monkeypatch.setenv( + "LOGGING_CONFIG", + '{"loggers": { "ir": { "propagate": "True" }},"formatters": { "generic": { "fmt": "{name}: {message}"}}}', + ) + + settings = Settings() + + configure_logging(config=settings.LOGGING_CONFIG) + + logger = logging.getLogger("ir") + + message = "This is a test log message with other formatting" + logger.debug(message) + logger.info(message) + logger.warning(message) + logger.error(message) + logger.critical(message) + + assert len(caplog.records) == 4 + + +def test_logging_loglevel(caplog: pytest.LogCaptureFixture, monkeypatch: pytest.MonkeyPatch): + config = {"loggers": {"ir": {"propagate": True}}} + + configure_logging(config=config) + + monkeypatch.setenv("LOGGING_LEVEL", "ERROR") + + settings = Settings() + + configure_logging(config=config, level=settings.LOGGING_LEVEL) + + logger = logging.getLogger("ir.main") + + message = "This is a test log message with different logging level" + logger.debug(message) + logger.info(message) + logger.warning(message) + logger.error(message) + logger.critical(message) + + assert len(caplog.records) == 2 diff --git a/tests/test_main.py b/tests/test_main.py new file mode 100644 index 0000000..457d24e --- /dev/null +++ b/tests/test_main.py @@ -0,0 +1,9 @@ +from fastapi.testclient import TestClient + + +def test_get_non_exisiting(client: TestClient) -> None: + response = client.get( + "/pathdoesnotexist/", + ) + assert response.status_code == 404 + assert response.headers["content-type"] == "application/json" From 2704521e8f04c073bf7588a5419e9c4af1cb9266 Mon Sep 17 00:00:00 2001 From: Laurens Weijs Date: Thu, 5 Sep 2024 09:06:21 +0200 Subject: [PATCH 5/7] Change deployment to kubernetes deployment + Add Github Cleaner --- .github/workflows/deploy.yml | 26 +++++++++++++------------- .github/workflows/ghcr-cleaner.yml | 30 ++++++++++++++++++++++++++++++ 2 files changed, 43 insertions(+), 13 deletions(-) create mode 100644 .github/workflows/ghcr-cleaner.yml diff --git a/.github/workflows/deploy.yml b/.github/workflows/deploy.yml index 3eda474..6a4bd27 100644 --- a/.github/workflows/deploy.yml +++ b/.github/workflows/deploy.yml @@ -6,7 +6,7 @@ on: - main jobs: - build: + build: # TODO: REMOVE THIS STEP AFTER AMT HAS BEEN CHANGED TO USE THE API runs-on: ubuntu-latest steps: @@ -33,28 +33,27 @@ jobs: env: GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} - deploy: runs-on: ubuntu-latest steps: - name: Get GHCR package hash id: get_package_hash run: | - container_id=$(gh api --paginate -H "Accept: application/vnd.github+json" -H "X-GitHub-Api-Version: 2022-11-28" /orgs/MinBZK/packages/container/amt/versions | jq -r '.[] | select(.metadata.container.tags | contains(["${{ inputs.image_tag }}"])) | .name') - echo "container_id=$container_id" >> "$GITHUB_OUTPUT" + container_id=$(gh api --paginate -H "Accept: application/vnd.github+json" -H "X-GitHub-Api-Version: 2022-11-28" /orgs/MinBZK/packages/container/instrument-registry/versions | jq -r '.[] | select(.metadata.container.tags | contains(["main"])) | .name') + echo "container_id=$container_id" >> "$GITHUB_OUTPUT" env: GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} - name: check correct name run: | - if [ -z "${{steps.get_package_hash.outputs.container_id}}" ]; then - echo "Variable is empty. Failing the workflow." - exit 1 - fi + if [ -z "${{steps.get_package_hash.outputs.container_id}}" ]; then + echo "Variable is empty. Failing the workflow." + exit 1 + fi - uses: actions/checkout@v4 with: - repository: "minbzk/ai-validation-infra" + repository: 'minbzk/ai-validation-infra' ref: main token: ${{ secrets.GH_PAT }} @@ -63,18 +62,19 @@ jobs: git config --global user.name "github-actions[bot]" git config --global user.email "github-actions[bot]@users.noreply.github.com" + - name: Make changes to the file run: | - sed -i 's/newTag: .*$/newTag: ${{inputs.image_tag }}@${{ steps.get_package_hash.outputs.container_id }}/g' apps/amt/overlays/${{ inputs.environment }}/kustomization.yaml - sed -i 's|minbzk.github.io/version: .*$|minbzk.github.io/version: ${{ inputs.image_tag }}|g' apps/amt/overlays/${{ inputs.environment }}/kustomization.yaml - git add apps/amt/overlays/${{ inputs.environment }}/kustomization.yaml + sed -i 's/newTag: .*$/newTag: main@${{ steps.get_package_hash.outputs.container_id }}/g' apps/instrument-registry/sandbox/kustomization.yaml + sed -i 's|minbzk.github.io/version: .*$|minbzk.github.io/version: main|g' apps/instrument-registry/sandbox/kustomization.yaml + git add apps/instrument-registry/sandbox/kustomization.yaml - name: show changes run: git diff --staged - name: push changes run: | - git commit -m "Update amt overlay ${{ inputs.environment }} tag ${{ steps.get_package_hash.outputs.container_id }}" + git commit -m "Update instrument-registry sandbox tag ${{ steps.get_package_hash.outputs.container_id }}" git push --force-with-lease env: GITHUB_TOKEN: ${{ secrets.GH_PAT }} diff --git a/.github/workflows/ghcr-cleaner.yml b/.github/workflows/ghcr-cleaner.yml new file mode 100644 index 0000000..75f88a3 --- /dev/null +++ b/.github/workflows/ghcr-cleaner.yml @@ -0,0 +1,30 @@ +name: Github Container Registry Cleaner +on: + schedule: + - cron: "0 4 * * *" + pull_request: + types: + - closed + push: + branches: + - main + +jobs: + delete_old_images: + runs-on: ubuntu-latest + permissions: + contents: read + packages: write + steps: + - name: "Delete untagged images" + if: github.event_name == 'schedule' + uses: dataaxiom/ghcr-cleanup-action@v1 + with: + token: ${{ secrets.GITHUB_TOKEN }} + + - name: "Clean up development images" + if: github.event_name == 'pull_request' && (github.event.action == 'closed' || github.event.pull_request.merged == true) + uses: dataaxiom/ghcr-cleanup-action@v1 + with: + tags: "pr-${{github.event.pull_request.number}}" + token: ${{ secrets.GITHUB_TOKEN }} From e55d9d3edcf2fcc23a4d7987faad4ae32b398a3f Mon Sep 17 00:00:00 2001 From: Laurens Weijs Date: Thu, 5 Sep 2024 11:31:34 +0200 Subject: [PATCH 6/7] Fix pre-commit issues + change pre-commit config --- instrument_registry/api/routes/urn.py | 4 ++- pyproject.toml | 3 ++- script/deploy | 37 ++++++++++++++------------- script/validate | 7 ++--- 4 files changed, 28 insertions(+), 23 deletions(-) diff --git a/instrument_registry/api/routes/urn.py b/instrument_registry/api/routes/urn.py index 28cb33f..e9f37a6 100644 --- a/instrument_registry/api/routes/urn.py +++ b/instrument_registry/api/routes/urn.py @@ -9,8 +9,10 @@ logger = logging.getLogger(__name__) +# Optional parameter 'version' is included, but not used. In a new ticket +# versioning of instruments should be handled. @router.get("/") -async def get_instrument(urn: str) -> JSONResponse: +async def get_instrument(urn: str, version: str = "latest") -> JSONResponse: try: instrument_content = cached_data["urn_mapper"][urn] return JSONResponse(content=instrument_content) diff --git a/pyproject.toml b/pyproject.toml index c2a6d91..d3b89af 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -47,7 +47,8 @@ types-pyyaml = "^6.0.12.20240724" [tool.ruff] line-length = 120 target-version = "py311" -src = ["instrument_registry","tests"] +src = ["instrument_registry", "tests", "script"] +include = ['script/deploy', 'script/validate'] [tool.ruff.format] line-ending = "lf" diff --git a/script/deploy b/script/deploy index f13d8df..63d9fce 100755 --- a/script/deploy +++ b/script/deploy @@ -1,15 +1,16 @@ #!/usr/bin/env python3 -import yaml import json import os +import yaml + -def get_file_size(file_path): +def get_file_size(file_path: str) -> int: return os.path.getsize(file_path) -def generate_index(directory, output_file, base_url): +def generate_index(directory: str, output_file: str, base_url: str) -> None: index = { "type": "dir", "size": 0, @@ -22,25 +23,25 @@ def generate_index(directory, output_file, base_url): "entries": [], } - for root, dirs, files in os.walk(directory): + for root, _dirs, files in os.walk(directory): for file in files: if file.endswith(".yaml"): file_path = os.path.join(root, file) relative_path = file_path.replace("\\", "/") - f = open(file_path) - instrument = yaml.safe_load(f) - file_info = { - "type": "file", - "size": get_file_size(file_path), - "name": file, - "path": relative_path, - "urn": instrument["urn"], - "download_url": f"{base_url}/{relative_path}", - "_links": { - "self": f"{base_url}/{relative_path}", - }, - } - index["entries"].append(file_info) + with open(file_path) as f: + instrument = yaml.safe_load(f) + file_info = { + "type": "file", + "size": get_file_size(file_path), + "name": file, + "path": relative_path, + "urn": instrument["urn"], + "download_url": f"{base_url}/{relative_path}", + "_links": { + "self": f"{base_url}/{relative_path}", + }, + } + index["entries"].append(file_info) with open(output_file, "w") as f: json.dump(index, f, indent=4) diff --git a/script/validate b/script/validate index 0e24e9d..ca5819e 100755 --- a/script/validate +++ b/script/validate @@ -3,13 +3,14 @@ import json import sys from collections import Counter +from collections.abc import Iterable import jsonschema import yaml from jsonschema import validate -def extract_urns(data, urns=None, seen_urns=None): +def extract_urns(data: Iterable, urns: list | None = None, seen_urns: set | None = None) -> list: # noqa: C901 if urns is None: urns = [] if seen_urns is None: @@ -32,13 +33,13 @@ def extract_urns(data, urns=None, seen_urns=None): # Load the JSON schema -with open(sys.argv[1], "r") as schema_file: +with open(sys.argv[1]) as schema_file: schema = json.load(schema_file) urns = [] for f in sys.argv[2:]: # Load the YAML file - with open(f, "r") as yaml_file: + with open(f) as yaml_file: data = yaml.safe_load(yaml_file) urns.extend(extract_urns(data)) From d487e4db9257f91e10b503feccc0ada7bde1a982 Mon Sep 17 00:00:00 2001 From: ChristopherSpelt Date: Mon, 9 Sep 2024 10:51:27 +0200 Subject: [PATCH 7/7] Process review Berry --- .github/workflows/deploy.yml | 16 +- Dockerfile | 12 +- compose.yml | 1 + docker-entrypoint.sh | 8 - instrument_registry/api/main.py | 5 +- instrument_registry/api/routes/health.py | 8 +- instrument_registry/api/routes/instruments.py | 12 +- instrument_registry/api/routes/root.py | 13 - instrument_registry/api/routes/urn.py | 21 -- instrument_registry/api/routes/urns.py | 31 ++ instrument_registry/data.py | 82 +++++ instrument_registry/lifespan.py | 26 +- instrument_registry/server.py | 4 +- poetry.lock | 285 +++++++++--------- pyproject.toml | 6 +- script/deploy | 56 +--- tests/api/routes/test_instruments.py | 2 +- tests/api/routes/test_root.py | 9 - tests/api/routes/test_urn.py | 10 +- tests/conftest.py | 37 +-- tests/test_data.py | 26 ++ 21 files changed, 343 insertions(+), 327 deletions(-) delete mode 100644 docker-entrypoint.sh delete mode 100644 instrument_registry/api/routes/root.py delete mode 100644 instrument_registry/api/routes/urn.py create mode 100644 instrument_registry/api/routes/urns.py create mode 100644 instrument_registry/data.py delete mode 100644 tests/api/routes/test_root.py create mode 100644 tests/test_data.py diff --git a/.github/workflows/deploy.yml b/.github/workflows/deploy.yml index 6a4bd27..fc2b1ef 100644 --- a/.github/workflows/deploy.yml +++ b/.github/workflows/deploy.yml @@ -5,15 +5,27 @@ on: branches: - main +env: + POETRY_CACHE_DIR: ~/.cache/pypoetry + PIPX_BIN_DIR: /usr/local/bin + jobs: build: # TODO: REMOVE THIS STEP AFTER AMT HAS BEEN CHANGED TO USE THE API runs-on: ubuntu-latest steps: - uses: actions/checkout@v4 - - uses: actions/setup-python@v5 + - name: Install poetry + run: pipx install poetry + + - name: Set up Python 3.12 + uses: actions/setup-python@v5 with: - python-version: '3.12' + python-version: 3.12 + cache: "poetry" + + - name: Install dependencies + run: poetry install - name: Configure Git Identity run: | diff --git a/Dockerfile b/Dockerfile index bc6e6c0..2bc574b 100644 --- a/Dockerfile +++ b/Dockerfile @@ -19,19 +19,16 @@ ENV PYTHONUNBUFFERED=1 \ POETRY_HOME='/usr/local' RUN apt-get update && apt-get install -y --no-install-recommends \ - curl libpq-dev \ - && rm -rf /var/lib/apt/lists/* + curl && rm -rf /var/lib/apt/lists/* -RUN curl --proto "=https" -sSL https://install.python-poetry.org | python3 - +RUN curl --proto "=https" -sSL https://install.python-poetry.org | python3 - WORKDIR /app/ COPY ./poetry.lock ./pyproject.toml ./ -COPY ./instruments/ ./instruments/ COPY ./script/ ./script/ RUN poetry install ENV PATH="/app/.venv/bin:$PATH" -RUN python script/deploy FROM project-base AS development @@ -46,7 +43,6 @@ COPY ./.prettierrc ./.prettierignore ./ RUN ruff format --check RUN npm run prettier:check RUN ruff check -RUN npm run lint RUN pyright FROM project-base AS production @@ -60,13 +56,11 @@ RUN chown ir:ir /app/ USER ir COPY --chown=root:root --chmod=755 instrument_registry /app/instrument_registry -COPY --chown=root:root --chmod=755 instruments /app/instruments COPY --chown=root:root --chmod=755 LICENSE /app/LICENSE -COPY --chown=ir:ir --chmod=755 docker-entrypoint.sh /app/docker-entrypoint.sh ENV PYTHONPATH=/app/ WORKDIR /app/ ENV PATH="/app/:$PATH" -CMD [ "docker-entrypoint.sh" ] +ENTRYPOINT ["python", "-m", "uvicorn", "--host", "0.0.0.0", "instrument_registry.server:app", "--port", "8000", "--log-level", "warning"] diff --git a/compose.yml b/compose.yml index 6b74814..19586e7 100644 --- a/compose.yml +++ b/compose.yml @@ -7,6 +7,7 @@ services: restart: unless-stopped volumes: - ./instrument_registry:/app/instrument_registry/:cached + - ./instruments:/app/instruments/:cached environment: - ENVIRONMENT=local ports: diff --git a/docker-entrypoint.sh b/docker-entrypoint.sh deleted file mode 100644 index f9e8ee7..0000000 --- a/docker-entrypoint.sh +++ /dev/null @@ -1,8 +0,0 @@ -#!/usr/bin/env bash - -HOST="0.0.0.0" -LOGLEVEL="warning" -PORT="8000" - -echo "Starting server" -python -m uvicorn --host "$HOST" instrument_registry.server:app --port "$PORT" --log-level "$LOGLEVEL" diff --git a/instrument_registry/api/main.py b/instrument_registry/api/main.py index 541047d..cd4915a 100644 --- a/instrument_registry/api/main.py +++ b/instrument_registry/api/main.py @@ -1,8 +1,7 @@ from fastapi import APIRouter -from instrument_registry.api.routes import health, instruments, root, urn +from instrument_registry.api.routes import health, instruments, urns api_router = APIRouter() -api_router.include_router(root.router) api_router.include_router(health.router, prefix="/health", tags=["health"]) api_router.include_router(instruments.router, prefix="/instruments", tags=["instruments"]) -api_router.include_router(urn.router, prefix="/urn", tags=["urns"]) +api_router.include_router(urns.router, prefix="/urns", tags=["urns"]) diff --git a/instrument_registry/api/routes/health.py b/instrument_registry/api/routes/health.py index 1558f43..872cb6b 100644 --- a/instrument_registry/api/routes/health.py +++ b/instrument_registry/api/routes/health.py @@ -4,6 +4,12 @@ router = APIRouter() -@router.get("/live", response_class=JSONResponse) +@router.get( + "/live", + summary="Liveness Check", + description="This endpoint returns the liveness status of the application.", + responses={200: {"description": "The application is live and running."}}, + response_class=JSONResponse, +) async def liveness() -> dict[str, str]: return {"status": "ok"} diff --git a/instrument_registry/api/routes/instruments.py b/instrument_registry/api/routes/instruments.py index 8c70822..7567946 100644 --- a/instrument_registry/api/routes/instruments.py +++ b/instrument_registry/api/routes/instruments.py @@ -2,12 +2,18 @@ from fastapi import APIRouter from fastapi.responses import JSONResponse -from instrument_registry.lifespan import cached_data +from instrument_registry.lifespan import CACHED_DATA router = APIRouter() + logger = logging.getLogger(__name__) -@router.get("/") +@router.get( + "/", + summary="Overview of all the Instruments in the Registry", + description="This endpoint returns a JSON with all the Instruments in the Registry.", + responses={200: {"description": "JSON with all the instrument."}}, +) async def get_root() -> JSONResponse: - return JSONResponse(content=cached_data["index"]) + return JSONResponse(content=CACHED_DATA["index"]) diff --git a/instrument_registry/api/routes/root.py b/instrument_registry/api/routes/root.py deleted file mode 100644 index bcd0c29..0000000 --- a/instrument_registry/api/routes/root.py +++ /dev/null @@ -1,13 +0,0 @@ -import logging - -from fastapi import APIRouter -from fastapi.responses import RedirectResponse - -router = APIRouter() - -logger = logging.getLogger(__name__) - - -@router.get("/") -async def base() -> RedirectResponse: - return RedirectResponse("/instruments/") diff --git a/instrument_registry/api/routes/urn.py b/instrument_registry/api/routes/urn.py deleted file mode 100644 index e9f37a6..0000000 --- a/instrument_registry/api/routes/urn.py +++ /dev/null @@ -1,21 +0,0 @@ -import logging - -from fastapi import APIRouter -from fastapi.responses import JSONResponse -from instrument_registry.lifespan import cached_data - -router = APIRouter() - -logger = logging.getLogger(__name__) - - -# Optional parameter 'version' is included, but not used. In a new ticket -# versioning of instruments should be handled. -@router.get("/") -async def get_instrument(urn: str, version: str = "latest") -> JSONResponse: - try: - instrument_content = cached_data["urn_mapper"][urn] - return JSONResponse(content=instrument_content) - except KeyError: - logging.exception(f"urn {urn} not found.") - return JSONResponse({"error": "URN does not exist in the instrument registry "}, status_code=404) diff --git a/instrument_registry/api/routes/urns.py b/instrument_registry/api/routes/urns.py new file mode 100644 index 0000000..44fa9d5 --- /dev/null +++ b/instrument_registry/api/routes/urns.py @@ -0,0 +1,31 @@ +import logging + +from fastapi import APIRouter, Depends, HTTPException +from fastapi.responses import JSONResponse +from instrument_registry.lifespan import CACHED_DATA + +router = APIRouter() + +logger = logging.getLogger(__name__) + + +def _validate_urn(urn: str) -> str: + if urn not in CACHED_DATA["urn_mapper"]: + raise HTTPException(status_code=400, detail=f"Invalid urn: {urn}") + return urn + + +# Optional parameter 'version' is included, but not used. In a new ticket +# versioning of instruments should be handled. +@router.get( + "/", + summary="Get the contents of the specific Instrument by URN", + description="This endpoint returns a JSON with the contents of a specific Instrument identiefied by URN" + " and version.", + responses={ + 200: {"description": "JSON with the specific contents of the Instrument."}, + 400: {"description": "The URN does not exist or is not valid."}, + }, +) +async def get_instrument(urn: str = Depends(_validate_urn), version: str = "latest") -> JSONResponse: + return JSONResponse(content=CACHED_DATA["urn_mapper"][urn]) diff --git a/instrument_registry/data.py b/instrument_registry/data.py new file mode 100644 index 0000000..4f6684d --- /dev/null +++ b/instrument_registry/data.py @@ -0,0 +1,82 @@ +import json +import logging +import os +from pathlib import Path +from typing import Any + +import yaml + +logger = logging.getLogger(__name__) + + +def get_file_size(file_path: str) -> int: + return os.path.getsize(file_path) # pragma: no cover + + +def create_urn_mappper(entries: list[dict[str, Any]]) -> dict[str, Any]: + urn_mapper: dict[str, Any] = {} + for instrument in entries: + path = Path(instrument["path"]) + try: + with open(str(path)) as f: + urn_mapper[instrument["urn"]] = yaml.safe_load(f) + except FileNotFoundError: + logger.exception(f"Instrument file with path {path} not found.") # pragma: no cover + + except yaml.YAMLError: + logger.exception(f"Instrument file with path {path} could not be parsed.") # pragma: no cover + + return urn_mapper + + +def generate_index( + base_url: str = "https://minbzk.github.io/instrument-registry", + directory: str = "instruments", + output_file: str = "index.json", +) -> dict[str, Any]: + # TODO: For now the generation and saving of the index.json is coupled, because of backwards + # compatibility for AMT. In the future the download url and links will be the endpoint of + # our API, so the coupling can be removed. + index: dict[str, Any] = { + "type": "dir", + "size": 0, + "name": directory, + "path": directory, + "download_url": f"{base_url}/{output_file}", + "_links": { + "self": f"{base_url}/{output_file}", + }, + "entries": [], + } + + for root, _, files in os.walk(directory): + for file in files: + if file.endswith(".yaml"): + file_path = os.path.join(root, file) + relative_path = file_path.replace("\\", "/") + with open(file_path) as f: + instrument = yaml.safe_load(f) + file_info = { + "type": "file", + "size": get_file_size(file_path), + "name": file, + "path": relative_path, + "urn": instrument["urn"], + "download_url": f"{base_url}/{relative_path}", + "_links": { + "self": f"{base_url}/{relative_path}", + }, + } + index["entries"].append(file_info) + + with open(output_file, "w") as f: + json.dump(index, f, indent=4) + logger.info(f"Saved index file to {output_file}") + + return index + + +# This will be removed when the deploy script in script/ is not necessary anymore. +# This wrapper is needed because the CI script fails when other than None is returned. +def main() -> None: + generate_index() # pragma: no cover diff --git a/instrument_registry/lifespan.py b/instrument_registry/lifespan.py index 2b42baf..e26bf51 100644 --- a/instrument_registry/lifespan.py +++ b/instrument_registry/lifespan.py @@ -1,40 +1,26 @@ -import json import logging from collections.abc import AsyncGenerator from contextlib import asynccontextmanager -from typing import Any, TextIO +from typing import Any -import yaml from fastapi import FastAPI from instrument_registry.core.config import PROJECT_NAME, VERSION, get_settings from instrument_registry.core.log import configure_logging +from instrument_registry.data import create_urn_mappper, generate_index -cached_data: dict[str, Any] = {} +CACHED_DATA: dict[str, Any] = {} configure_logging(get_settings().LOGGING_LEVEL, get_settings().LOGGING_CONFIG) logger = logging.getLogger(__name__) -def get_index_file() -> TextIO: - return open("index.json") # noqa: SIM115 # pragma: no cover - - -def get_instrument_file(path: str) -> TextIO: - return open(path) # noqa: SIM115 # pragma: no cover - - @asynccontextmanager async def lifespan(app: FastAPI) -> AsyncGenerator[None, None]: logger.info(f"Starting {PROJECT_NAME} version {VERSION}") - with get_index_file() as f: - cached_data["index"] = json.load(f) - urn_mapper = {} - for instrument in cached_data["index"]["entries"]: - with get_instrument_file(instrument["path"]) as f: - urn_mapper[instrument["urn"]] = yaml.safe_load(f) - cached_data["urn_mapper"] = urn_mapper + CACHED_DATA["index"] = generate_index() + CACHED_DATA["urn_mapper"] = create_urn_mappper(CACHED_DATA["index"]["entries"]) yield - cached_data.clear() + CACHED_DATA.clear() logger.info(f"Stopping application {PROJECT_NAME} version {VERSION}") logging.shutdown() diff --git a/instrument_registry/server.py b/instrument_registry/server.py index 1947bac..1973bb9 100644 --- a/instrument_registry/server.py +++ b/instrument_registry/server.py @@ -1,5 +1,4 @@ from fastapi import FastAPI -from fastapi.responses import JSONResponse from instrument_registry.api.main import api_router from instrument_registry.core.config import PROJECT_DESCRIPTION, PROJECT_NAME, VERSION from instrument_registry.lifespan import lifespan @@ -11,8 +10,9 @@ def create_app() -> FastAPI: title=PROJECT_NAME, summary=PROJECT_DESCRIPTION, version=VERSION, - default_response_class=JSONResponse, + docs_url="/", ) + app.include_router(api_router) return app diff --git a/poetry.lock b/poetry.lock index fbb767d..c06d61a 100644 --- a/poetry.lock +++ b/poetry.lock @@ -293,13 +293,13 @@ files = [ [[package]] name = "fastapi" -version = "0.112.2" +version = "0.112.4" description = "FastAPI framework, high performance, easy to learn, fast to code, ready for production" optional = false python-versions 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">=3.7" files = [ - {file = "virtualenv-20.26.3-py3-none-any.whl", hash = "sha256:8cc4a31139e796e9a7de2cd5cf2489de1217193116a8fd42328f1bd65f434589"}, - {file = "virtualenv-20.26.3.tar.gz", hash = "sha256:4c43a2a236279d9ea36a0d76f98d84bd6ca94ac4e0f4a3b9d46d05e10fea542a"}, + {file = "virtualenv-20.26.4-py3-none-any.whl", hash = "sha256:48f2695d9809277003f30776d155615ffc11328e6a0a8c1f0ec80188d7874a55"}, + {file = "virtualenv-20.26.4.tar.gz", hash = "sha256:c17f4e0f3e6036e9f26700446f85c76ab11df65ff6d8a9cbfad9f71aabfcf23c"}, ] [package.dependencies] @@ -1316,4 +1317,4 @@ test = ["covdefaults (>=2.3)", "coverage (>=7.2.7)", "coverage-enable-subprocess [metadata] lock-version = "2.0" python-versions = "^3.12" -content-hash = "e15782eb6caf9124ed74086d3954e1e340a9ed892874deebe835015de2aa8a4f" +content-hash = "1e5d38b02dd876beaec1fe95aebaf2b7fcac4124b914371e9a757c75c73d231a" diff --git a/pyproject.toml b/pyproject.toml index d3b89af..815264f 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -11,13 +11,15 @@ packages = [ { include = "instrument_registry" } ] +[tool.poetry.scripts] +deploy = "instrument_registry.data:main" + [tool.poetry.dependencies] python = "^3.12" jsonschema = "^4.22.0" pyyaml = "^6.0.1" fastapi = "^0.112.2" uvicorn = "^0.30.6" -ruff = "^0.6.3" pydantic-settings = "^2.4.0" setuptools = "^74.1.1" @@ -48,7 +50,7 @@ types-pyyaml = "^6.0.12.20240724" line-length = 120 target-version = "py311" src = ["instrument_registry", "tests", "script"] -include = ['script/deploy', 'script/validate'] +include = ['script/validate'] [tool.ruff.format] line-ending = "lf" diff --git a/script/deploy b/script/deploy index 63d9fce..f254934 100755 --- a/script/deploy +++ b/script/deploy @@ -1,55 +1,3 @@ -#!/usr/bin/env python3 +#!/usr/bin/env bash -import json -import os - -import yaml - - -def get_file_size(file_path: str) -> int: - return os.path.getsize(file_path) - - -def generate_index(directory: str, output_file: str, base_url: str) -> None: - index = { - "type": "dir", - "size": 0, - "name": directory, - "path": directory, - "download_url": f"{base_url}/{output_file}", - "_links": { - "self": f"{base_url}/{output_file}", - }, - "entries": [], - } - - for root, _dirs, files in os.walk(directory): - for file in files: - if file.endswith(".yaml"): - file_path = os.path.join(root, file) - relative_path = file_path.replace("\\", "/") - with open(file_path) as f: - instrument = yaml.safe_load(f) - file_info = { - "type": "file", - "size": get_file_size(file_path), - "name": file, - "path": relative_path, - "urn": instrument["urn"], - "download_url": f"{base_url}/{relative_path}", - "_links": { - "self": f"{base_url}/{relative_path}", - }, - } - index["entries"].append(file_info) - - with open(output_file, "w") as f: - json.dump(index, f, indent=4) - - -BASE_URL = "https://minbzk.github.io/instrument-registry" -DIRECTORY = "instruments" -OUTPUT_FILE = "index.json" - -generate_index(DIRECTORY, OUTPUT_FILE, BASE_URL) -print(f"Generated {OUTPUT_FILE}") +poetry run deploy diff --git a/tests/api/routes/test_instruments.py b/tests/api/routes/test_instruments.py index 6c6546d..c7bebb9 100644 --- a/tests/api/routes/test_instruments.py +++ b/tests/api/routes/test_instruments.py @@ -8,4 +8,4 @@ def test_get_main_page(client: TestClient) -> None: # then assert response.status_code == 200 assert response.headers["content-type"] == "application/json" - assert b'{"entries":[{"path":"instruments/test_instrument.yaml","urn":"test_urn"}]}' in response.content.lower() + assert b'{"type":"dir","size":0,"name":"instruments","path":"instruments"' in response.content.lower() diff --git a/tests/api/routes/test_root.py b/tests/api/routes/test_root.py deleted file mode 100644 index ced1103..0000000 --- a/tests/api/routes/test_root.py +++ /dev/null @@ -1,9 +0,0 @@ -from fastapi.testclient import TestClient - - -def test_get_root(client: TestClient) -> None: - response = client.get( - "/", - follow_redirects=False, - ) - assert response.status_code == 307 diff --git a/tests/api/routes/test_urn.py b/tests/api/routes/test_urn.py index 6d703dc..4c062ee 100644 --- a/tests/api/routes/test_urn.py +++ b/tests/api/routes/test_urn.py @@ -3,19 +3,19 @@ def test_get_urn(client: TestClient) -> None: # when - response = client.get("/urn/?urn=test_urn") + response = client.get("/urns/?urn=test_urn") # then assert response.status_code == 200 assert response.headers["content-type"] == "application/json" - assert b'{"test":"test"}' in response.content.lower() + assert b'{"urn":"test_urn"}' in response.content.lower() def test_get_nonexistent_urn(client: TestClient) -> None: # when - response = client.get("/urn/?urn=nonexisting_urn") + response = client.get("/urns/?urn=nonexisting_urn") # then - assert response.status_code == 404 + assert response.status_code == 400 assert response.headers["content-type"] == "application/json" - assert b'{"error":"urn does not exist in the instrument registry "}' in response.content.lower() + assert b'{"detail":"invalid urn: nonexisting_urn"}' in response.content.lower() diff --git a/tests/conftest.py b/tests/conftest.py index e04d7cb..be6928d 100644 --- a/tests/conftest.py +++ b/tests/conftest.py @@ -1,50 +1,23 @@ -import io import logging from collections.abc import Generator -from unittest.mock import Mock +from unittest.mock import mock_open, patch import pytest from fastapi.testclient import TestClient -from instrument_registry import lifespan from instrument_registry.server import create_app logger = logging.getLogger(__name__) -INDEX_JSON = """ -{ - "entries": [ - { - "path": "instruments/test_instrument.yaml", - "urn": "test_urn" - } - ] -} -""" - -INSTRUMENT_JSON = """{"test":"test"}""" - - -@pytest.fixture -def mock_index_file() -> Generator[None, None, None]: # noqa: PT004 - origin = lifespan.get_index_file - lifespan.get_index_file = Mock(return_value=io.StringIO(INDEX_JSON)) - yield - lifespan.get_index_file = origin - @pytest.fixture -def mock_instrument_file() -> Generator[None, None, None]: # noqa: PT004 - origin = lifespan.get_instrument_file - lifespan.get_instrument_file = Mock(return_value=io.StringIO(INSTRUMENT_JSON)) - yield - lifespan.get_instrument_file = origin +def _mock_open_file() -> Generator[None, None, None]: # type: ignore + with patch("builtins.open", mock_open(read_data="{'urn':'test_urn'}")): + yield @pytest.fixture def client( - monkeypatch: pytest.MonkeyPatch, - mock_index_file: Generator[None, None, None], - mock_instrument_file: Generator[None, None, None], + monkeypatch: pytest.MonkeyPatch, _mock_open_file: Generator[None, None, None] ) -> Generator[TestClient, None, None]: app = create_app() diff --git a/tests/test_data.py b/tests/test_data.py new file mode 100644 index 0000000..8fa78c7 --- /dev/null +++ b/tests/test_data.py @@ -0,0 +1,26 @@ +import logging +from typing import Any + +from instrument_registry import data + +logger = logging.getLogger(__name__) + +TEST_INDEX: dict[str, Any] = { + "_links": {"self": "test.io/index.json"}, + "download_url": "test.io/index.json", + "entries": [], + "name": "test", + "path": "test", + "size": 0, + "type": "dir", +} + + +def test_create_urn_mappper() -> None: + urn_mapper = data.create_urn_mappper(entries=TEST_INDEX["entries"]) + assert urn_mapper == {} + + +def test_generate_index() -> None: + index = data.generate_index(base_url="test.io", directory="test", output_file="index.json") + assert index == TEST_INDEX