From 3b78f862f088ecc39f4b29398ab6dba453696e70 Mon Sep 17 00:00:00 2001 From: Jan Forster Date: Thu, 28 Dec 2023 21:34:25 +0100 Subject: [PATCH] Release v1.1.0 --- .env.example | 6 +- .flake8 | 122 +++ .gitignore | 2 + README.md | 51 +- fastapi_skeleton/api/routes/heartbeat.py | 1 - fastapi_skeleton/api/routes/prediction.py | 5 +- fastapi_skeleton/api/routes/router.py | 5 +- fastapi_skeleton/core/config.py | 2 - fastapi_skeleton/core/event_handlers.py | 4 +- fastapi_skeleton/core/security.py | 2 - fastapi_skeleton/main.py | 8 +- fastapi_skeleton/models/heartbeat.py | 2 - fastapi_skeleton/models/payload.py | 5 +- fastapi_skeleton/models/prediction.py | 2 - fastapi_skeleton/services/models.py | 27 +- poetry.lock | 1212 +++++++++++++++++++++ pyproject.toml | 69 ++ requirements.txt | 7 - scripts/linting.sh | 15 + scripts/test.sh | 5 + setup.py | 11 - tests/test_api/test_prediction.py | 12 +- tests/test_service/test_models.py | 32 +- 23 files changed, 1502 insertions(+), 105 deletions(-) create mode 100644 .flake8 create mode 100644 poetry.lock create mode 100644 pyproject.toml delete mode 100644 requirements.txt create mode 100755 scripts/linting.sh create mode 100755 scripts/test.sh delete mode 100644 setup.py diff --git a/.env.example b/.env.example index 7b822ca..ff5c5a1 100644 --- a/.env.example +++ b/.env.example @@ -1,3 +1,3 @@ -IS_DEBUG = False -API_KEY = sample_api_key -DEFAULT_MODEL_PATH=./sample_model/lin_reg_california_housing_model.joblib \ No newline at end of file +IS_DEBUG=False +API_KEY=sample_api_key +DEFAULT_MODEL_PATH=./sample_model/lin_reg_california_housing_model.joblib diff --git a/.flake8 b/.flake8 new file mode 100644 index 0000000..5e366e4 --- /dev/null +++ b/.flake8 @@ -0,0 +1,122 @@ +[flake8] + +################### PROGRAM ################################ + +# Specify the number of subprocesses that Flake8 will use to run checks in parallel. +jobs = auto + + +################### OUTPUT ################################# + +########## Verbosity ########## + +# Increase the verbosity of Flake8’s output. +verbose = 0 +# Decrease the verbosity of Flake8’s output. +quiet = 0 + + +########## Formatting ########## + +# Select the formatter used to display errors to the user. +format = default + +# Print the total number of errors. +count = True +# Print the source code generating the error/warning in question. +show-source = True +# Count the number of occurrences of each error/warning code and print a report. +statistics = True + + +########## Targets ########## + +# Redirect all output to the specified file. +output-file = .flake8.log +# Also print output to stdout if output-file has been configured. +tee = True + + +################### FILE PATTERNS ########################## + +# Provide a comma-separated list of glob patterns to exclude from checks. +exclude = + # git folder + .git, + # python cache + __pycache__, + # pytest cache + .pytest_cache, + # mypy cache + .mypy_cache +# Provide a comma-separate list of glob patterns to include for checks. +filename = + *.py + + +################### LINTING ################################ + +########## Environment ########## + +# Provide a custom list of builtin functions, objects, names, etc. +builtins = + + +########## Options ########## + +# Report all errors, even if it is on the same line as a `# NOQA` comment. +disable-noqa = False + +# Set the maximum length that any line (with some exceptions) may be. +max-line-length = 88 +# Set the maximum allowed McCabe complexity value for a block of code. +max-complexity = 10 +# Toggle whether pycodestyle should enforce matching the indentation of the opening bracket’s line. +# incluences E131 and E133 +hang-closing = True + + +########## Rules ########## + +# ERROR CODES +# +# E/W - PEP8 errors/warnings (pycodestyle) +# F - linting errors (pyflakes) +# C - McCabe complexity error (mccabe) +# +# E133 - closing bracket is missing indentation (conflicts with black) +# E203 - whitespace before ‘:’ (conflicts with black) +# W503 - line break before binary operator +# F401 - module imported but unused +# F403 - ‘from module import *’ used; unable to detect undefined names +# + +# Specify a list of codes to ignore. +ignore = + E133, + E203, + W503 +# Specify the list of error codes you wish Flake8 to report. +select = + E, + W, + F, + C +# Specify a list of mappings of files and the codes that should be ignored for the entirety of the +# file. +per-file-ignores = + __init__.py:F401,F403 + +# Enable off-by-default extensions. +enable-extensions = + + +########## Docstring ########## + +# Enable PyFlakes syntax checking of doctests in docstrings. +# doctests = True + +# Specify which files are checked by PyFlakes for doctest syntax. +include-in-doctest = +# Specify which files are not to be checked by PyFlakes for doctest syntax. +exclude-in-doctest = \ No newline at end of file diff --git a/.gitignore b/.gitignore index 32a0550..dce0f05 100644 --- a/.gitignore +++ b/.gitignore @@ -33,6 +33,7 @@ wheels/ # before PyInstaller builds the exe, so as to inject date/other infos into it. *.manifest *.spec +.env # Installer logs pip-log.txt @@ -41,6 +42,7 @@ pip-delete-this-directory.txt # Unit test / coverage reports htmlcov/ htmlcov-py36/ +htmlcov-py311/ .tox/ .coverage .coverage.* diff --git a/README.md b/README.md index 2bbdbad..6de84db 100644 --- a/README.md +++ b/README.md @@ -8,12 +8,14 @@ To experiment and get a feeling on how to use this skeleton, a sample regression ## Requirements -Python 3.6+ +- Python 3.11+ +- Poetry ## Installation Install the required packages in your local environment (ideally virtualenv, conda, etc.). + ```bash -pip install -r requirements +poetry install ``` @@ -23,6 +25,7 @@ pip install -r requirements 2. In the `.env` file configure the `API_KEY` entry. The key is used for authenticating our API.
A sample API key can be generated using Python REPL: + ```python import uuid print(str(uuid.uuid4())) @@ -30,29 +33,53 @@ print(str(uuid.uuid4())) ## Run It -1. Start your app with: +1. Start your app with: + ```bash +set -a +source .env +set +a uvicorn fastapi_skeleton.main:app ``` 2. Go to [http://localhost:8000/docs](http://localhost:8000/docs). - 3. Click `Authorize` and enter the API key as created in the Setup step. -![Authroization](./docs/authorize.png) - +![Authroization](./docs/authorize.png) 4. You can use the sample payload from the `docs/sample_payload.json` file when trying out the house price prediction model using the API. ![Prediction with example payload](./docs/sample_payload.png) -## Run Tests +## Linting + +This skeleton code uses isort, mypy, flake, black, bandit for linting, formatting and static analysis. + +Run linting with: -If you're not using `tox`, please install with: ```bash -pip install tox +./scripts/linting.sh ``` -Run your tests with: +## Run Tests + +Run your tests with: + ```bash -tox +./scripts/test.sh ``` -This runs tests and coverage for Python 3.6 and Flake8, Autopep8, Bandit. +This runs tests and coverage for Python 3.11 and Flake8, Autopep8, Bandit. + + +## Changelog + +v.1.0.0 - Initial release + +- Base functionality for using FastAPI to serve ML models. +- Full test coverage + +v.1.1.0 - Update to Python 3.11, FastAPI 0.108.0 + +- Updated to Python 3.11 +- Added linting script +- Updated to pydantic 2.x +- Added poetry as package manager + diff --git a/fastapi_skeleton/api/routes/heartbeat.py b/fastapi_skeleton/api/routes/heartbeat.py index 3fd2bf1..1cef718 100644 --- a/fastapi_skeleton/api/routes/heartbeat.py +++ b/fastapi_skeleton/api/routes/heartbeat.py @@ -1,4 +1,3 @@ - from fastapi import APIRouter from fastapi_skeleton.models.heartbeat import HearbeatResult diff --git a/fastapi_skeleton/api/routes/prediction.py b/fastapi_skeleton/api/routes/prediction.py index d728dd3..b255d20 100644 --- a/fastapi_skeleton/api/routes/prediction.py +++ b/fastapi_skeleton/api/routes/prediction.py @@ -12,10 +12,9 @@ @router.post("/predict", response_model=HousePredictionResult, name="predict") def post_predict( request: Request, - authenticated: bool = Depends(security.validate_request), - block_data: HousePredictionPayload = None + block_data: HousePredictionPayload, + _: bool = Depends(security.validate_request), ) -> HousePredictionResult: - model: HousePriceModel = request.app.state.model prediction: HousePredictionResult = model.predict(block_data) diff --git a/fastapi_skeleton/api/routes/router.py b/fastapi_skeleton/api/routes/router.py index 8cb4454..ce3fd3e 100644 --- a/fastapi_skeleton/api/routes/router.py +++ b/fastapi_skeleton/api/routes/router.py @@ -1,10 +1,7 @@ - - from fastapi import APIRouter from fastapi_skeleton.api.routes import heartbeat, prediction api_router = APIRouter() api_router.include_router(heartbeat.router, tags=["health"], prefix="/health") -api_router.include_router(prediction.router, tags=[ - "prediction"], prefix="/model") +api_router.include_router(prediction.router, tags=["prediction"], prefix="/model") diff --git a/fastapi_skeleton/core/config.py b/fastapi_skeleton/core/config.py index 947aaf1..a9b34b7 100644 --- a/fastapi_skeleton/core/config.py +++ b/fastapi_skeleton/core/config.py @@ -1,5 +1,3 @@ - - from starlette.config import Config from starlette.datastructures import Secret diff --git a/fastapi_skeleton/core/event_handlers.py b/fastapi_skeleton/core/event_handlers.py index 1da0e1f..b8bcd00 100644 --- a/fastapi_skeleton/core/event_handlers.py +++ b/fastapi_skeleton/core/event_handlers.py @@ -1,5 +1,3 @@ - - from typing import Callable from fastapi import FastAPI @@ -23,6 +21,7 @@ def start_app_handler(app: FastAPI) -> Callable: def startup() -> None: logger.info("Running app start handler.") _startup_model(app) + return startup @@ -30,4 +29,5 @@ def stop_app_handler(app: FastAPI) -> Callable: def shutdown() -> None: logger.info("Running app shutdown handler.") _shutdown_model(app) + return shutdown diff --git a/fastapi_skeleton/core/security.py b/fastapi_skeleton/core/security.py index 8d71e23..64bad8b 100644 --- a/fastapi_skeleton/core/security.py +++ b/fastapi_skeleton/core/security.py @@ -1,5 +1,3 @@ - - import secrets from typing import Optional diff --git a/fastapi_skeleton/main.py b/fastapi_skeleton/main.py index efc5747..6dcfe97 100644 --- a/fastapi_skeleton/main.py +++ b/fastapi_skeleton/main.py @@ -1,12 +1,8 @@ - - from fastapi import FastAPI from fastapi_skeleton.api.routes.router import api_router -from fastapi_skeleton.core.config import (API_PREFIX, APP_NAME, APP_VERSION, - IS_DEBUG) -from fastapi_skeleton.core.event_handlers import (start_app_handler, - stop_app_handler) +from fastapi_skeleton.core.config import API_PREFIX, APP_NAME, APP_VERSION, IS_DEBUG +from fastapi_skeleton.core.event_handlers import start_app_handler, stop_app_handler def get_app() -> FastAPI: diff --git a/fastapi_skeleton/models/heartbeat.py b/fastapi_skeleton/models/heartbeat.py index 9737f82..34a47e5 100644 --- a/fastapi_skeleton/models/heartbeat.py +++ b/fastapi_skeleton/models/heartbeat.py @@ -1,5 +1,3 @@ - - from pydantic import BaseModel diff --git a/fastapi_skeleton/models/payload.py b/fastapi_skeleton/models/payload.py index 187d552..ff8e56a 100644 --- a/fastapi_skeleton/models/payload.py +++ b/fastapi_skeleton/models/payload.py @@ -1,5 +1,5 @@ - from typing import List + from pydantic import BaseModel @@ -23,4 +23,5 @@ def payload_to_list(hpp: HousePredictionPayload) -> List: hpp.population_per_block, hpp.average_house_occupancy, hpp.block_latitude, - hpp.block_longitude] + hpp.block_longitude, + ] diff --git a/fastapi_skeleton/models/prediction.py b/fastapi_skeleton/models/prediction.py index 1789998..fb2b13f 100644 --- a/fastapi_skeleton/models/prediction.py +++ b/fastapi_skeleton/models/prediction.py @@ -1,5 +1,3 @@ - - from pydantic import BaseModel diff --git a/fastapi_skeleton/services/models.py b/fastapi_skeleton/services/models.py index bb0a271..5a2c888 100644 --- a/fastapi_skeleton/services/models.py +++ b/fastapi_skeleton/services/models.py @@ -1,29 +1,23 @@ - - -from typing import List - import joblib import numpy as np from loguru import logger from fastapi_skeleton.core.messages import NO_VALID_PAYLOAD -from fastapi_skeleton.models.payload import (HousePredictionPayload, - payload_to_list) +from fastapi_skeleton.models.payload import HousePredictionPayload, payload_to_list from fastapi_skeleton.models.prediction import HousePredictionResult -class HousePriceModel(object): +class HousePriceModel: + RESULT_UNIT_FACTOR = 100 - RESULT_UNIT_FACTOR = 100000 - - def __init__(self, path): + def __init__(self, path: str) -> None: self.path = path self._load_local_model() - def _load_local_model(self): + def _load_local_model(self) -> None: self.model = joblib.load(self.path) - def _pre_process(self, payload: HousePredictionPayload) -> List: + def _pre_process(self, payload: HousePredictionPayload) -> np.ndarray: logger.debug("Pre-processing payload.") result = np.asarray(payload_to_list(payload)).reshape(1, -1) return result @@ -32,18 +26,15 @@ def _post_process(self, prediction: np.ndarray) -> HousePredictionResult: logger.debug("Post-processing prediction.") result = prediction.tolist() human_readable_unit = result[0] * self.RESULT_UNIT_FACTOR - hpp = HousePredictionResult(median_house_value=human_readable_unit) + hpp = HousePredictionResult(median_house_value=int(human_readable_unit)) return hpp - def _predict(self, features: List) -> np.ndarray: + def _predict(self, features: np.ndarray) -> np.ndarray: logger.debug("Predicting.") prediction_result = self.model.predict(features) return prediction_result - def predict(self, payload: HousePredictionPayload): - if payload is None: - raise ValueError(NO_VALID_PAYLOAD.format(payload)) - + def predict(self, payload: HousePredictionPayload) -> HousePredictionResult: pre_processed_payload = self._pre_process(payload) prediction = self._predict(pre_processed_payload) logger.info(prediction) diff --git a/poetry.lock b/poetry.lock new file mode 100644 index 0000000..002f3ff --- /dev/null +++ b/poetry.lock @@ -0,0 +1,1212 @@ +# This file is automatically @generated by Poetry 1.7.1 and should not be changed by hand. + +[[package]] +name = "annotated-types" +version = "0.6.0" +description = "Reusable constraint types to use with typing.Annotated" +optional = false 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|\.git + |\.ini + |Dockerfile + |Jenkinfile +)/ +''' + +[tool.pytest.ini_options] +testpaths = ['tests'] + +[tool.coverage.run] +source = ['fastapi_skeleton'] +branch = true + +[tool.coverage.report] +fail_under = 90 +precision = 2 + +[tool.mypy] +python_version = "3.11" +warn_return_any = false +warn_unused_configs = true +disallow_untyped_defs = true +ignore_missing_imports = true + + +[build-system] +requires = ["poetry-core"] +build-backend = "poetry.core.masonry.api" diff --git a/requirements.txt b/requirements.txt deleted file mode 100644 index febebd5..0000000 --- a/requirements.txt +++ /dev/null @@ -1,7 +0,0 @@ -requests==2.22.0 -uvicorn==0.11.7 -fastapi==0.48.0 -numpy==1.18.1 -scikit-learn==0.22.1 -joblib==0.14.1 -loguru==0.4.1 \ No newline at end of file diff --git a/scripts/linting.sh b/scripts/linting.sh new file mode 100755 index 0000000..1406fa4 --- /dev/null +++ b/scripts/linting.sh @@ -0,0 +1,15 @@ +#! /usr/bin/env bash + +set -xe + +isort . + +mypy --install-types --non-interactive fastapi_skeleton/ + +mypy fastapi_skeleton + +black fastapi_skeleton --line-length 88 + +flake8 fastapi_skeleton + +bandit -r fastapi_skeleton/ diff --git a/scripts/test.sh b/scripts/test.sh new file mode 100755 index 0000000..046ed1d --- /dev/null +++ b/scripts/test.sh @@ -0,0 +1,5 @@ +#!/usr/bin/env bash + +set -xe + +pytest -vv --cov=fastapi_skeleton --cov=tests --cov-report=term-missing --cov-report=xml tests/ ${@} diff --git a/setup.py b/setup.py deleted file mode 100644 index a0ac689..0000000 --- a/setup.py +++ /dev/null @@ -1,11 +0,0 @@ -#!/usr/bin/env python - -from distutils.core import setup - -setup(name='FastAPI Skeleton', - version='1.0', - description='Sample code fro FastAPI', - author='Jan Forster', - author_email='eightbec@protonmail.ch', - packages=['fastapi_skeleton'], - ) diff --git a/tests/test_api/test_prediction.py b/tests/test_api/test_prediction.py index 3b0aa20..5558e1e 100644 --- a/tests/test_api/test_prediction.py +++ b/tests/test_api/test_prediction.py @@ -1,5 +1,3 @@ - - from fastapi_skeleton.core import config @@ -12,11 +10,11 @@ def test_prediction(test_client) -> None: "average_rooms": 6, "average_bedrooms": 1, "population_per_block": 322, - "average_house_occupancy": 2.55, + "average_house_occupancy": 2, "block_latitude": 37.88, - "block_longitude": -122.23 + "block_longitude": -122.23, }, - headers={"token": str(config.API_KEY)} + headers={"token": str(config.API_KEY)}, ) assert response.status_code == 200 assert "median_house_value" in response.json() @@ -25,8 +23,6 @@ def test_prediction(test_client) -> None: def test_prediction_nopayload(test_client) -> None: response = test_client.post( - "/api/model/predict", - json={}, - headers={"token": str(config.API_KEY)} + "/api/model/predict", json={}, headers={"token": str(config.API_KEY)} ) assert response.status_code == 422 diff --git a/tests/test_service/test_models.py b/tests/test_service/test_models.py index 07b909b..3a7a997 100644 --- a/tests/test_service/test_models.py +++ b/tests/test_service/test_models.py @@ -1,4 +1,3 @@ - import pytest from fastapi_skeleton.core import config @@ -9,26 +8,19 @@ def test_prediction(test_client) -> None: model_path = config.DEFAULT_MODEL_PATH - hpp = HousePredictionPayload.parse_obj({ - "median_income_in_block": 8.3252, - "median_house_age_in_block": 41, - "average_rooms": 6, - "average_bedrooms": 1, - "population_per_block": 322, - "average_house_occupancy": 2.55, - "block_latitude": 37.88, - "block_longitude": -122.23 - }) + hpp = HousePredictionPayload.model_validate( + { + "median_income_in_block": 8.3252, + "median_house_age_in_block": 41, + "average_rooms": 6, + "average_bedrooms": 1, + "population_per_block": 322, + "average_house_occupancy": 2, + "block_latitude": 37.88, + "block_longitude": -122.23, + } + ) hpm = HousePriceModel(model_path) result = hpm.predict(hpp) assert isinstance(result, HousePredictionResult) - - -def test_prediction_no_payload(test_client) -> None: - model_path = config.DEFAULT_MODEL_PATH - - hpm = HousePriceModel(model_path) - with pytest.raises(ValueError): - result = hpm.predict(None) - assert isinstance(result, HousePredictionResult)