From 8e604d1688d016ab3ac50942f87f9825de7f21b9 Mon Sep 17 00:00:00 2001 From: Kevin Boyer Date: Mon, 24 Jun 2024 14:46:43 -0400 Subject: [PATCH] Remove Flask and example database models (#4) * Add Chainlit * Sort imports and remove tests * Formatting and linting * Remove Flask and example data models * Restore pull request template * Update Trivyignore * Add ignore to markdown linting * Update ignore pattern * Update ignore pattern * Remove outdated API documentation --- .github/pull_request_template.md | 17 +- .github/workflows/markdownlint-config.json | 3 + .trivyignore | 3 +- app/Makefile | 19 - app/gunicorn.conf.py | 25 - app/local.env | 2 - app/openapi.generated.yml | 490 ----- app/poetry.lock | 1832 +++++++---------- app/pyproject.toml | 2 - app/src/adapters/db/__init__.py | 7 +- app/src/adapters/db/client.py | 2 +- app/src/adapters/db/flask_db.py | 127 -- app/src/api/__init__.py | 0 app/src/api/healthcheck.py | 33 - app/src/api/response.py | 40 - app/src/api/schemas/__init__.py | 0 app/src/api/schemas/request_schema.py | 11 - app/src/api/schemas/response_schema.py | 25 - app/src/api/users/__init__.py | 10 - app/src/api/users/user_blueprint.py | 3 - app/src/api/users/user_commands.py | 34 - app/src/api/users/user_routes.py | 72 - app/src/api/users/user_schemas.py | 65 - app/src/app_config.py | 8 +- app/src/auth/__init__.py | 0 app/src/auth/api_key_auth.py | 88 - .../2023_08_11_create_user_and_role_tables.py | 74 - app/src/db/models/__init__.py | 4 +- app/src/db/models/user_models.py | 52 - app/src/logging/flask_logger.py | 166 -- app/src/pagination/pagination_schema.py | 87 - app/src/services/users/__init__.py | 16 - app/src/services/users/create_user.py | 40 - app/src/services/users/create_user_csv.py | 81 - app/src/services/users/get_user.py | 21 - app/src/services/users/patch_user.py | 72 - app/src/services/users/search_user.py | 59 - app/tests/pagination/__init__.py | 0 app/tests/pagination/test_paginator.py | 124 -- app/tests/src/adapters/db/test_flask_db.py | 51 - app/tests/src/db/models/factories.py | 25 - app/tests/src/db/models/test_factories.py | 97 - app/tests/src/logging/test_flask_logger.py | 146 -- app/tests/src/route/__init__.py | 0 app/tests/src/scripts/__init__.py | 0 .../scripts/test_create_user_csv_expected.csv | 4 - docs/app/README.md | 14 +- docs/app/api-details.md | 25 - .../database/database-access-management.md | 2 +- .../logging-configuration.md | 4 - docs/app/technical-overview.md | 38 +- ...enerated-openapi-spec-to-source-control.md | 2 +- 52 files changed, 833 insertions(+), 3289 deletions(-) delete mode 100644 app/gunicorn.conf.py delete mode 100644 app/openapi.generated.yml delete mode 100644 app/src/adapters/db/flask_db.py delete mode 100644 app/src/api/__init__.py delete mode 100644 app/src/api/healthcheck.py delete mode 100644 app/src/api/response.py delete mode 100644 app/src/api/schemas/__init__.py delete mode 100644 app/src/api/schemas/request_schema.py delete mode 100644 app/src/api/schemas/response_schema.py delete mode 100644 app/src/api/users/__init__.py delete mode 100644 app/src/api/users/user_blueprint.py delete mode 100644 app/src/api/users/user_commands.py delete mode 100644 app/src/api/users/user_routes.py delete mode 100644 app/src/api/users/user_schemas.py delete mode 100644 app/src/auth/__init__.py delete mode 100644 app/src/auth/api_key_auth.py delete mode 100644 app/src/db/migrations/versions/2023_08_11_create_user_and_role_tables.py delete mode 100644 app/src/db/models/user_models.py delete mode 100644 app/src/logging/flask_logger.py delete mode 100644 app/src/pagination/pagination_schema.py delete mode 100644 app/src/services/users/__init__.py delete mode 100644 app/src/services/users/create_user.py delete mode 100644 app/src/services/users/create_user_csv.py delete mode 100644 app/src/services/users/get_user.py delete mode 100644 app/src/services/users/patch_user.py delete mode 100644 app/src/services/users/search_user.py delete mode 100644 app/tests/pagination/__init__.py delete mode 100644 app/tests/pagination/test_paginator.py delete mode 100644 app/tests/src/adapters/db/test_flask_db.py delete mode 100644 app/tests/src/db/models/test_factories.py delete mode 100644 app/tests/src/logging/test_flask_logger.py delete mode 100644 app/tests/src/route/__init__.py delete mode 100644 app/tests/src/scripts/__init__.py delete mode 100644 app/tests/src/scripts/test_create_user_csv_expected.csv delete mode 100644 docs/app/api-details.md diff --git a/.github/pull_request_template.md b/.github/pull_request_template.md index a7db834a..1fb525a4 100644 --- a/.github/pull_request_template.md +++ b/.github/pull_request_template.md @@ -1,14 +1,27 @@ +- [ ] Update PR Title to follow this pattern: `[INTENT]: [MESSAGE]` + +> The title will become a one-line commit message in the git log, so be as concise and specific as possible -- refer to [How to Write a Git Commit Message](https://cbea.ms/git-commit/). Prepend [Conventional Commit](https://www.conventionalcommits.org/en/v1.0.0/#summary) intent (`fix:`, `feat:`, `chore:`, `ci:`, `docs:`, `style:`, `refactor:`, `perf:`, `test:`). + ## Ticket -Resolves #{TICKET NUMBER OR URL} +https://navalabs.atlassian.net/browse/DST- + ## Changes > What was added, updated, or removed in this PR. +> Prefer small PRs; try to limit to 300 lines of code changes +> * https://blog.logrocket.com/using-stacked-pull-requests-in-github/ +> * https://opensource.com/article/18/6/anatomy-perfect-pull-request +> * https://developers.google.com/blockly/guides/modify/contribute/write_a_good_pr + ## Context for reviewers -> Testing instructions, background context, more in-depth details of the implementation, and anything else you'd like to call out or ask reviewers. +> Background context, more in-depth details of the implementation, and anything else you'd like to call out or ask reviewers. +> Add comments to your code under the "Files Changed" tab to explain complex logic or code +> * https://betterprogramming.pub/how-to-make-a-perfect-pull-request-3578fb4c112 + ## Testing diff --git a/.github/workflows/markdownlint-config.json b/.github/workflows/markdownlint-config.json index fec55304..fe1ff47c 100644 --- a/.github/workflows/markdownlint-config.json +++ b/.github/workflows/markdownlint-config.json @@ -8,6 +8,9 @@ }, { "pattern": "127.0.0.1" + }, + { + "pattern": "https://navalabs.atlassian.net/browse/DST-" } ], "replacementPatterns": [ diff --git a/.trivyignore b/.trivyignore index 707b3e98..89d345b6 100644 --- a/.trivyignore +++ b/.trivyignore @@ -6,4 +6,5 @@ # Link to the dependencies for ease of checking for updates # Issue: Why there is a finding and why this is here or not been removed # Last checked: Date last checked in scans -#The-CVE-or-vuln-id # Remove comment at start of line \ No newline at end of file +#The-CVE-or-vuln-id # Remove comment at start of line +jwt-token \ No newline at end of file diff --git a/app/Makefile b/app/Makefile index f9b39024..0257ca96 100644 --- a/app/Makefile +++ b/app/Makefile @@ -39,8 +39,6 @@ else PY_RUN_CMD := docker compose run $(DOCKER_EXEC_ARGS) --rm $(APP_NAME) poetry run endif -FLASK_CMD := $(PY_RUN_CMD) flask --env-file local.env - # Docker user configuration # This logic is to avoid issues with permissions and mounting local volumes, # which should be owned by the same UID for Linux distros. Mac OS can use root, @@ -211,23 +209,6 @@ lint-security: # https://bandit.readthedocs.io/en/latest/index.html $(PY_RUN_CMD) bandit -c pyproject.toml -r . --number 3 --skip B101 -ll -x ./.venv -################################################## -# CLI Commands -################################################## - -cmd: ## Run Flask app CLI command (Run `make cli args="--help"` to see list of CLI commands) - $(FLASK_CMD) $(args) - -cmd-user-create-csv: ## Create a CSV of the useres in the database (Run `make cli-user-create-csv args="--help"` to see the command's options) - $(FLASK_CMD) user create-csv $(args) - -# Set init-db as pre-requisite since there seems to be a race condition -# where the DB can't yet receive connections if it's starting from a -# clean state (e.g. after make stop, make clean-volumes, make openapi-spec) -openapi-spec: init-db ## Generate OpenAPI spec - $(FLASK_CMD) spec --format yaml --output ./openapi.generated.yml - - ################################################## # Miscellaneous Utilities ################################################## diff --git a/app/gunicorn.conf.py b/app/gunicorn.conf.py deleted file mode 100644 index 38cfde3e..00000000 --- a/app/gunicorn.conf.py +++ /dev/null @@ -1,25 +0,0 @@ -""" -Configuration file for the Gunicorn server used to run the application in production environments. - -Attributes: - bind(str): The socket to bind. Formatted as '0.0.0.0:$PORT'. - workers(int): The number of worker processes for handling requests. - threads(int): The number of threads per worker for handling requests. - -For more information, see https://docs.gunicorn.org/en/stable/configure.html -""" - -import os - -from src.app_config import AppConfig - -app_config = AppConfig() - -bind = app_config.host + ':' + str(app_config.port) -# Calculates the number of usable cores and doubles it. Recommended number of workers per core is two. -# https://docs.gunicorn.org/en/latest/design.html#how-many-workers -# We use 'os.sched_getaffinity(pid)' not 'os.cpu_count()' because it returns only allowable CPUs. -# os.sched_getaffinity(pid): Return the set of CPUs the process with PID pid is restricted to. -# os.cpu_count(): Return the number of CPUs in the system. -workers = len(os.sched_getaffinity(0)) * 2 -threads = 4 diff --git a/app/local.env b/app/local.env index 21c5a1b6..ac6d2e40 100644 --- a/app/local.env +++ b/app/local.env @@ -15,8 +15,6 @@ PYTHONPATH=/app/ # commands that can run in or out # of the Docker container - defaults to outside -FLASK_APP=src.app:create_app - ############################ # Logging ############################ diff --git a/app/openapi.generated.yml b/app/openapi.generated.yml deleted file mode 100644 index 4c08121d..00000000 --- a/app/openapi.generated.yml +++ /dev/null @@ -1,490 +0,0 @@ -info: - title: Template Application Flask - description: Template API for a Flask Application - contact: - name: Nava PBC Engineering - url: https://www.navapbc.com - email: engineering@navapbc.com - version: 0.1.0 -tags: -- name: Health -- name: User -paths: - /health: - get: - parameters: [] - responses: - '200': - content: - application/json: - schema: - type: object - properties: - message: - type: string - description: The message to return - data: - $ref: '#/components/schemas/Healthcheck' - status_code: - type: integer - description: The HTTP status code - warnings: - type: array - items: - $ref: '#/components/schemas/ValidationError' - errors: - type: array - items: - $ref: '#/components/schemas/ValidationError' - pagination_info: - description: The pagination information for paginated endpoints - allOf: - - $ref: '#/components/schemas/PaginationInfo' - description: Successful response - '503': - content: - application/json: - schema: - $ref: '#/components/schemas/HTTPError' - description: Service Unavailable - tags: - - Health - summary: Health - /v1/users: - post: - parameters: [] - responses: - '201': - content: - application/json: - schema: - type: object - properties: - message: - type: string - description: The message to return - data: - $ref: '#/components/schemas/User' - status_code: - type: integer - description: The HTTP status code - warnings: - type: array - items: - $ref: '#/components/schemas/ValidationError' - errors: - type: array - items: - $ref: '#/components/schemas/ValidationError' - pagination_info: - description: The pagination information for paginated endpoints - allOf: - - $ref: '#/components/schemas/PaginationInfo' - description: Successful response - '422': - content: - application/json: - schema: - $ref: '#/components/schemas/ValidationError' - description: Validation error - '401': - content: - application/json: - schema: - $ref: '#/components/schemas/HTTPError' - description: Authentication error - tags: - - User - summary: POST /v1/users - requestBody: - content: - application/json: - schema: - $ref: '#/components/schemas/User' - security: - - ApiKeyAuth: [] - /v1/users/search: - post: - parameters: [] - responses: - '200': - content: - application/json: - schema: - type: object - properties: - message: - type: string - description: The message to return - data: - type: array - items: - $ref: '#/components/schemas/User' - status_code: - type: integer - description: The HTTP status code - warnings: - type: array - items: - $ref: '#/components/schemas/ValidationError' - errors: - type: array - items: - $ref: '#/components/schemas/ValidationError' - pagination_info: - description: The pagination information for paginated endpoints - allOf: - - $ref: '#/components/schemas/PaginationInfo' - description: Successful response - '422': - content: - application/json: - schema: - $ref: '#/components/schemas/ValidationError' - description: Validation error - '401': - content: - application/json: - schema: - $ref: '#/components/schemas/HTTPError' - description: Authentication error - tags: - - User - summary: User Search - requestBody: - content: - application/json: - schema: - $ref: '#/components/schemas/UserSearch' - security: - - ApiKeyAuth: [] - /v1/users/{user_id}: - get: - parameters: - - in: path - name: user_id - schema: - type: string - required: true - responses: - '200': - content: - application/json: - schema: - type: object - properties: - message: - type: string - description: The message to return - data: - $ref: '#/components/schemas/User' - status_code: - type: integer - description: The HTTP status code - warnings: - type: array - items: - $ref: '#/components/schemas/ValidationError' - errors: - type: array - items: - $ref: '#/components/schemas/ValidationError' - pagination_info: - description: The pagination information for paginated endpoints - allOf: - - $ref: '#/components/schemas/PaginationInfo' - description: Successful response - '401': - content: - application/json: - schema: - $ref: '#/components/schemas/HTTPError' - description: Authentication error - '404': - content: - application/json: - schema: - $ref: '#/components/schemas/HTTPError' - description: Not found - tags: - - User - summary: User Get - security: - - ApiKeyAuth: [] - patch: - parameters: - - in: path - name: user_id - schema: - type: string - required: true - responses: - '200': - content: - application/json: - schema: - type: object - properties: - message: - type: string - description: The message to return - data: - $ref: '#/components/schemas/User' - status_code: - type: integer - description: The HTTP status code - warnings: - type: array - items: - $ref: '#/components/schemas/ValidationError' - errors: - type: array - items: - $ref: '#/components/schemas/ValidationError' - pagination_info: - description: The pagination information for paginated endpoints - allOf: - - $ref: '#/components/schemas/PaginationInfo' - description: Successful response - '422': - content: - application/json: - schema: - $ref: '#/components/schemas/ValidationError' - description: Validation error - '401': - content: - application/json: - schema: - $ref: '#/components/schemas/HTTPError' - description: Authentication error - '404': - content: - application/json: - schema: - $ref: '#/components/schemas/HTTPError' - description: Not found - tags: - - User - summary: User Patch - requestBody: - content: - application/json: - schema: - $ref: '#/components/schemas/UserUpdate' - security: - - ApiKeyAuth: [] -openapi: 3.0.3 -components: - schemas: - ValidationError: - type: object - properties: - type: - type: string - description: The type of error - message: - type: string - description: The message to return - rule: - type: string - description: The rule that failed - field: - type: string - description: The field that failed - value: - type: string - description: The value that failed - PaginationInfo: - type: object - properties: - page_offset: - type: integer - description: The page number that was fetched - example: 1 - page_size: - type: integer - description: The size of the page fetched - example: 25 - total_records: - type: integer - description: The total number of records fetchable - example: 42 - total_pages: - type: integer - description: The total number of pages that can be fetched - example: 2 - order_by: - type: string - description: The field that the records were sorted by - example: id - sort_direction: - description: The direction the records are sorted - enum: - - ascending - - descending - HTTPError: - properties: - detail: - type: object - message: - type: string - type: object - Healthcheck: - type: object - properties: {} - Role: - type: object - properties: - type: - description: The name of the role - enum: - - USER - - ADMIN - User: - type: object - properties: - id: - type: string - format: uuid - readOnly: true - first_name: - type: string - description: The user's first name - middle_name: - type: string - description: The user's middle name - last_name: - type: string - description: The user's last name - phone_number: - type: string - pattern: ^([0-9]|\*){3}\-([0-9]|\*){3}\-[0-9]{4}$ - description: The user's phone number - example: 123-456-7890 - date_of_birth: - type: string - format: date - description: The users date of birth - is_active: - type: boolean - description: Whether the user is active - roles: - type: array - items: - $ref: '#/components/schemas/Role' - created_at: - type: string - format: date-time - readOnly: true - updated_at: - type: string - format: date-time - readOnly: true - required: - - date_of_birth - - first_name - - is_active - - last_name - - phone_number - - roles - UserSorting: - type: object - properties: - order_by: - type: string - enum: - - id - - created_at - - updated_at - description: The field to sort the response by - sort_direction: - description: Whether to sort the response ascending or descending - enum: - - ascending - - descending - required: - - order_by - - sort_direction - Pagination: - type: object - properties: - page_size: - type: integer - minimum: 1 - description: The size of the page to fetch - example: 25 - page_offset: - type: integer - minimum: 1 - description: The page number to fetch, starts counting from 1 - example: 1 - required: - - page_offset - - page_size - UserSearch: - type: object - properties: - phone_number: - type: string - pattern: ^([0-9]|\*){3}\-([0-9]|\*){3}\-[0-9]{4}$ - description: The user's phone number - example: 123-456-7890 - is_active: - type: boolean - role_type: - enum: - - USER - - ADMIN - sorting: - $ref: '#/components/schemas/UserSorting' - paging: - $ref: '#/components/schemas/Pagination' - required: - - paging - UserUpdate: - type: object - properties: - id: - type: string - format: uuid - readOnly: true - first_name: - type: string - description: The user's first name - middle_name: - type: string - description: The user's middle name - last_name: - type: string - description: The user's last name - phone_number: - type: string - pattern: ^([0-9]|\*){3}\-([0-9]|\*){3}\-[0-9]{4}$ - description: The user's phone number - example: 123-456-7890 - date_of_birth: - type: string - format: date - description: The users date of birth - is_active: - type: boolean - description: Whether the user is active - roles: - type: array - items: - $ref: '#/components/schemas/Role' - created_at: - type: string - format: date-time - readOnly: true - updated_at: - type: string - format: date-time - readOnly: true - securitySchemes: - ApiKeyAuth: - type: apiKey - in: header - name: X-Auth - diff --git a/app/poetry.lock b/app/poetry.lock index 823b7bd0..b2d91e84 100644 --- a/app/poetry.lock +++ b/app/poetry.lock @@ -13,13 +13,13 @@ files = [ [[package]] name = "alembic" -version = "1.12.0" +version = "1.13.1" description = "A database migration tool for SQLAlchemy." optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" files = [ - {file = "alembic-1.12.0-py3-none-any.whl", hash = "sha256:03226222f1cf943deee6c85d9464261a6c710cd19b4fe867a3ad1f25afda610f"}, - {file = "alembic-1.12.0.tar.gz", hash = "sha256:8e7645c32e4f200675e69f0745415335eb59a3663f5feb487abfa0b30c45888b"}, + {file = "alembic-1.13.1-py3-none-any.whl", hash = "sha256:2edcc97bed0bd3272611ce3a98d98279e9c209e7186e43e75bbb1b2bdfdbcc43"}, + {file = "alembic-1.13.1.tar.gz", hash = "sha256:4932c8558bf68f2ee92b9bbcb8218671c627064d5b08939437af6d77dc05e595"}, ] [package.dependencies] @@ -28,17 +28,17 @@ SQLAlchemy = ">=1.3.0" typing-extensions = ">=4" [package.extras] -tz = ["python-dateutil"] +tz = ["backports.zoneinfo"] [[package]] name = "annotated-types" -version = "0.6.0" +version = "0.7.0" description = "Reusable constraint types to use with typing.Annotated" optional = false python-versions = ">=3.8" files = [ - {file = "annotated_types-0.6.0-py3-none-any.whl", hash = "sha256:0641064de18ba7a25dee8f96403ebc39113d0cb953a01429249d5c7564666a43"}, - {file = "annotated_types-0.6.0.tar.gz", hash = "sha256:563339e807e53ffd9c267e99fc6d9ea23eb8443c08f112651963e24e22f84a5d"}, + {file = "annotated_types-0.7.0-py3-none-any.whl", hash = "sha256:1f02e8b43a8fbbc3f3e0d4f0f4bfc8131bcb4eebe8849b8e5c773f3a1c582a53"}, + {file = "annotated_types-0.7.0.tar.gz", hash = "sha256:aff07c09a53a08bc8cfccb9c85b05f1aa9a2a6f23728d790723543408344ce89"}, ] [[package]] @@ -61,52 +61,6 @@ doc = ["Sphinx", "packaging", "sphinx-autodoc-typehints (>=1.2.0)", "sphinx-rtd- test = ["anyio[trio]", "coverage[toml] (>=4.5)", "hypothesis (>=4.0)", "mock (>=4)", "psutil (>=5.9)", "pytest (>=7.0)", "pytest-mock (>=3.6.1)", "trustme", "uvloop (>=0.17)"] trio = ["trio (<0.22)"] -[[package]] -name = "apiflask" -version = "2.0.2" -description = "A lightweight web API framework based on Flask and marshmallow-code projects." -optional = false -python-versions = ">=3.8" -files = [ - 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b/app/src/adapters/db/__init__.py @@ -2,9 +2,7 @@ Database module. This module contains the DBClient class, which is used to manage database connections. -This module can be used on it's own or with an application framework such as Flask. - -To use this module with Flask, use the flask_db module. +This module can be used on its own or with an application framework such as Flask. Usage: import src.adapters.db as db @@ -26,7 +24,4 @@ from src.adapters.db.client import Connection, DBClient, Session from src.adapters.db.clients.postgres_client import PostgresDBClient -# Do not import flask_db here, because this module is not dependent on any specific framework. -# Code can choose to use this module on its own or with the flask_db module depending on needs. - __all__ = ["Connection", "DBClient", "Session", "PostgresDBClient"] diff --git a/app/src/adapters/db/client.py b/app/src/adapters/db/client.py index 78b83261..251aa310 100644 --- a/app/src/adapters/db/client.py +++ b/app/src/adapters/db/client.py @@ -23,7 +23,7 @@ class DBClient(abc.ABC, metaclass=abc.ABCMeta): """Database connection manager. - This class is used to manage database connections for the Flask app. + This class is used to manage database connections for the app. It has methods for getting a new connection or session object. A derived class must initialize _engine in the __init__ function diff --git a/app/src/adapters/db/flask_db.py b/app/src/adapters/db/flask_db.py deleted file mode 100644 index 2ee7a6e1..00000000 --- a/app/src/adapters/db/flask_db.py +++ /dev/null @@ -1,127 +0,0 @@ -""" -This module has functionality to extend Flask with a database client. - -To initialize this flask extension, call register_db_client() with an instance -of a Flask app and an instance of a DBClient. - -Example: - import src.adapters.db as db - import src.adapters.db.flask_db as flask_db - - db_client = db.PostgresDBClient() - app = APIFlask(__name__) - flask_db.register_db_client(db_client, app) - -Then, in a request handler, use the with_db_session decorator to get a -new database session that lasts for the duration of the request. - -Example: - import src.adapters.db as db - import src.adapters.db.flask_db as flask_db - - @app.route("/health") - @flask_db.with_db_session - def health(db_session: db.Session): - with db_session.begin(): - ... - - -Alternatively, if you want to get the database client directly, use the get_db -function. - -Example: - from flask import current_app - import src.adapters.db.flask_db as flask_db - - @app.route("/health") - def health(): - db_client = flask_db.get_db(current_app) - # db_client.get_connection() or db_client.get_session() -""" -from functools import wraps -from typing import Callable, Concatenate, ParamSpec, TypeVar - -from flask import Flask, current_app - -import src.adapters.db as db -from src.adapters.db.client import DBClient - -_FLASK_EXTENSION_KEY_PREFIX = "db" -_DEFAULT_CLIENT_NAME = "default" - - -def register_db_client( - db_client: DBClient, app: Flask, client_name: str = _DEFAULT_CLIENT_NAME -) -> None: - """Initialize the Flask app. - - Add the database to the Flask app's extensions so that it can be - accessed by request handlers using the current app context. - - If you use multiple DB clients, you can differentiate them by - specifying a client_name. - - see get_db - """ - flask_extension_key = f"{_FLASK_EXTENSION_KEY_PREFIX}{client_name}" - app.extensions[flask_extension_key] = db_client - - -def get_db(app: Flask, client_name: str = _DEFAULT_CLIENT_NAME) -> DBClient: - """Get the database connection for the given Flask app. - - Use this in request handlers to access the database from the active Flask app. - - Specify the same client_name as used in register_db_client to get the correct client - - Example: - from flask import current_app - import src.adapters.db.flask_db as flask_db - - @app.route("/health") - def health(): - db_client = flask_db.get_db(current_app) - """ - flask_extension_key = f"{_FLASK_EXTENSION_KEY_PREFIX}{client_name}" - return app.extensions[flask_extension_key] - - -P = ParamSpec("P") -T = TypeVar("T") - - -def with_db_session( - *, client_name: str = _DEFAULT_CLIENT_NAME -) -> Callable[[Callable[Concatenate[db.Session, P], T]], Callable[P, T]]: - """Decorator for functions that need a database session. - - This decorator will create a new session object and pass it to the function - as the first positional argument. A transaction is not started automatically. - To start a transaction use db_session.begin() - - Usage: - @with_db_session() - def foo(db_session: db.Session): - ... - - @with_db_session() - def bar(db_session: db.Session, x, y): - ... - - @with_db_session(client_name="legacy_db") - def fiz(db_session: db.Session, x, y, z): - ... - """ - - def decorator(f: Callable[Concatenate[db.Session, P], T]) -> Callable[P, T]: - @wraps(f) - def wrapper(*args: P.args, **kwargs: P.kwargs) -> T: - with get_db(current_app, client_name=client_name).get_session() as session: - return f(session, *args, **kwargs) - - return wrapper - - # mypy says the type should be something slightly different - # Callable[[Arg(Callable[[Session, **P], T], 'f')], Callable[P, T]] - # but also mentions that "Arg" is deprecated, so not sure how to make it happy - return decorator # type: ignore diff --git a/app/src/api/__init__.py b/app/src/api/__init__.py deleted file mode 100644 index e69de29b..00000000 diff --git a/app/src/api/healthcheck.py b/app/src/api/healthcheck.py deleted file mode 100644 index 9883a14a..00000000 --- a/app/src/api/healthcheck.py +++ /dev/null @@ -1,33 +0,0 @@ -import logging -from typing import Tuple - -from apiflask import APIBlueprint -from flask import current_app -from sqlalchemy import text -from werkzeug.exceptions import ServiceUnavailable - -import src.adapters.db.flask_db as flask_db -from src.api import response -from src.api.schemas import request_schema - -logger = logging.getLogger(__name__) - - -class HealthcheckSchema(request_schema.OrderedSchema): - message: str - - -healthcheck_blueprint = APIBlueprint("healthcheck", __name__, tag="Health") - - -@healthcheck_blueprint.get("/health") -@healthcheck_blueprint.output(HealthcheckSchema) -@healthcheck_blueprint.doc(responses=[200, ServiceUnavailable.code]) -def health() -> Tuple[response.ApiResponse, int]: - try: - with flask_db.get_db(current_app).get_connection() as conn: - assert conn.scalar(text("SELECT 1 AS healthy")) == 1 - return response.ApiResponse(message="Service healthy"), 200 - except Exception: - logger.exception("Connection to DB failure") - return response.ApiResponse(message="Service unavailable"), ServiceUnavailable.code diff --git a/app/src/api/response.py b/app/src/api/response.py deleted file mode 100644 index 42ddfdbb..00000000 --- a/app/src/api/response.py +++ /dev/null @@ -1,40 +0,0 @@ -import dataclasses -from typing import Any, Optional - -from src.pagination.pagination_models import PaginationInfo - - -@dataclasses.dataclass -class ValidationErrorDetail: - type: str - message: str = "" - rule: Optional[str] = None - field: Optional[str] = None - value: Optional[str] = None # Do not store PII data here, as it gets logged in some cases - - -class ValidationException(Exception): - __slots__ = ["errors", "message", "data"] - - def __init__( - self, - errors: list[ValidationErrorDetail], - message: str = "Invalid request", - data: Optional[dict | list[dict]] = None, - ): - self.errors = errors - self.message = message - self.data = data or {} - - -@dataclasses.dataclass -class ApiResponse: - """Base response model for all API responses.""" - - message: str - data: Optional[Any] = None - warnings: list[ValidationErrorDetail] = dataclasses.field(default_factory=list) - errors: list[ValidationErrorDetail] = dataclasses.field(default_factory=list) - status_code: int = 200 - - pagination_info: PaginationInfo | None = None diff --git a/app/src/api/schemas/__init__.py b/app/src/api/schemas/__init__.py deleted file mode 100644 index e69de29b..00000000 diff --git a/app/src/api/schemas/request_schema.py b/app/src/api/schemas/request_schema.py deleted file mode 100644 index 08eca1d9..00000000 --- a/app/src/api/schemas/request_schema.py +++ /dev/null @@ -1,11 +0,0 @@ -import apiflask - - -# Use ordered schemas to ensure that the order of fields in the generated OpenAPI -# schema is deterministic. -# This should no longer be needed once apiflask is updated to use ordered schemas -# TODO update apiflask with fix to default to ordered schemas -# See https://github.com/apiflask/apiflask/issues/385#issuecomment-1364463104 -class OrderedSchema(apiflask.Schema): - class Meta: - ordered = True diff --git a/app/src/api/schemas/response_schema.py b/app/src/api/schemas/response_schema.py deleted file mode 100644 index d5589d5f..00000000 --- a/app/src/api/schemas/response_schema.py +++ /dev/null @@ -1,25 +0,0 @@ -from apiflask import fields - -from src.api.schemas import request_schema -from src.pagination.pagination_schema import PaginationInfoSchema - - -class ValidationErrorSchema(request_schema.OrderedSchema): - type = fields.String(metadata={"description": "The type of error"}) - message = fields.String(metadata={"description": "The message to return"}) - rule = fields.String(metadata={"description": "The rule that failed"}) - field = fields.String(metadata={"description": "The field that failed"}) - value = fields.String(metadata={"description": "The value that failed"}) - - -class ResponseSchema(request_schema.OrderedSchema): - message = fields.String(metadata={"description": "The message to return"}) - data = fields.Field(metadata={"description": "The REST resource object"}, dump_default={}) - status_code = fields.Integer(metadata={"description": "The HTTP status code"}, dump_default=200) - warnings = fields.List(fields.Nested(ValidationErrorSchema()), dump_default=[]) - errors = fields.List(fields.Nested(ValidationErrorSchema()), dump_default=[]) - - pagination_info = fields.Nested( - PaginationInfoSchema(), - metadata={"description": "The pagination information for paginated endpoints"}, - ) diff --git a/app/src/api/users/__init__.py b/app/src/api/users/__init__.py deleted file mode 100644 index 8ddfd549..00000000 --- a/app/src/api/users/__init__.py +++ /dev/null @@ -1,10 +0,0 @@ -from src.api.users.user_blueprint import user_blueprint - -# import user_commands module to register the CLI commands on the user_blueprint -import src.api.users.user_commands # noqa: F401 E402 isort:skip - -# import user_commands module to register the API routes on the user_blueprint -import src.api.users.user_routes # noqa: F401 E402 isort:skip - - -__all__ = ["user_blueprint"] diff --git a/app/src/api/users/user_blueprint.py b/app/src/api/users/user_blueprint.py deleted file mode 100644 index 3155fe4e..00000000 --- a/app/src/api/users/user_blueprint.py +++ /dev/null @@ -1,3 +0,0 @@ -from apiflask import APIBlueprint - -user_blueprint = APIBlueprint("user", __name__, tag="User", cli_group="user") diff --git a/app/src/api/users/user_commands.py b/app/src/api/users/user_commands.py deleted file mode 100644 index 6e69481c..00000000 --- a/app/src/api/users/user_commands.py +++ /dev/null @@ -1,34 +0,0 @@ -import logging -import os.path as path -from typing import Optional - -import click - -import src.adapters.db as db -import src.adapters.db.flask_db as flask_db -import src.services.users as user_service -from src.api.users.user_blueprint import user_blueprint -from src.util.datetime_util import utcnow - -logger = logging.getLogger(__name__) - -user_blueprint.cli.help = "User commands" - - -@user_blueprint.cli.command("create-csv", help="Create a CSV of all users and their roles") -@flask_db.with_db_session() -@click.option( - "--dir", - default=".", - help="Directory to save output file in. Can be an S3 path (e.g. 's3://bucketname/folder/') Defaults to current directory ('.').", -) -@click.option( - "--filename", - default=None, - help="Filename to save output file as. Defaults to '[timestamp]-user-roles.csv.", -) -def create_csv(db_session: db.Session, dir: str, filename: Optional[str]) -> None: - if filename is None: - filename = utcnow().strftime("%Y-%m-%d-%H-%M-%S") + "-user-roles.csv" - filepath = path.join(dir, filename) - user_service.create_user_csv(db_session, filepath) diff --git a/app/src/api/users/user_routes.py b/app/src/api/users/user_routes.py deleted file mode 100644 index c74c1052..00000000 --- a/app/src/api/users/user_routes.py +++ /dev/null @@ -1,72 +0,0 @@ -import logging -from typing import Any - -import src.adapters.db as db -import src.adapters.db.flask_db as flask_db -import src.api.response as response -import src.api.users.user_schemas as user_schemas -import src.services.users as user_service -import src.services.users as users -from src.api.users.user_blueprint import user_blueprint -from src.auth.api_key_auth import api_key_auth -from src.db.models.user_models import User - -logger = logging.getLogger(__name__) - - -@user_blueprint.post("/v1/users") -@user_blueprint.input(user_schemas.UserSchema, arg_name="user_params") -@user_blueprint.output(user_schemas.UserSchema, status_code=201) -@user_blueprint.auth_required(api_key_auth) -@flask_db.with_db_session() -def user_post(db_session: db.Session, user_params: users.CreateUserParams) -> response.ApiResponse: - """ - POST /v1/users - """ - user = user_service.create_user(db_session, user_params) - logger.info("Successfully inserted user", extra=get_user_log_params(user)) - return response.ApiResponse(message="Success", data=user) - - -@user_blueprint.patch("/v1/users/") -# Allow partial updates. partial=true means requests that are missing -# required fields will not be rejected. -# https://marshmallow.readthedocs.io/en/stable/quickstart.html#partial-loading -@user_blueprint.input(user_schemas.UserSchema(partial=True), arg_name="patch_user_params") -@user_blueprint.output(user_schemas.UserSchema) -@user_blueprint.auth_required(api_key_auth) -@flask_db.with_db_session() -def user_patch( - db_session: db.Session, user_id: str, patch_user_params: users.PatchUserParams -) -> response.ApiResponse: - user = user_service.patch_user(db_session, user_id, patch_user_params) - logger.info("Successfully patched user", extra=get_user_log_params(user)) - return response.ApiResponse(message="Success", data=user) - - -@user_blueprint.get("/v1/users/") -@user_blueprint.output(user_schemas.UserSchema) -@user_blueprint.auth_required(api_key_auth) -@flask_db.with_db_session() -def user_get(db_session: db.Session, user_id: str) -> response.ApiResponse: - user = user_service.get_user(db_session, user_id) - logger.info("Successfully fetched user", extra=get_user_log_params(user)) - return response.ApiResponse(message="Success", data=user) - - -@user_blueprint.post("/v1/users/search") -@user_blueprint.input(user_schemas.UserSearchSchema, arg_name="search_params") -# many=True allows us to return a list of user objects -@user_blueprint.output(user_schemas.UserSchema(many=True)) -@user_blueprint.auth_required(api_key_auth) -@flask_db.with_db_session() -def user_search(db_session: db.Session, search_params: dict) -> response.ApiResponse: - user_result, pagination_info = user_service.search_user(db_session, search_params) - logger.info("Successfully searched users") - return response.ApiResponse( - message="Success", data=user_result, pagination_info=pagination_info - ) - - -def get_user_log_params(user: User) -> dict[str, Any]: - return {"user.id": user.id} diff --git a/app/src/api/users/user_schemas.py b/app/src/api/users/user_schemas.py deleted file mode 100644 index 73af7fa8..00000000 --- a/app/src/api/users/user_schemas.py +++ /dev/null @@ -1,65 +0,0 @@ -from apiflask import fields, validators -from marshmallow import fields as marshmallow_fields - -from src.api.schemas import request_schema -from src.db.models import user_models -from src.pagination.pagination_schema import PaginationSchema, generate_sorting_schema - -PHONE_NUMBER_VALIDATOR = validators.Regexp(r"^([0-9]|\*){3}\-([0-9]|\*){3}\-[0-9]{4}$") - - -class RoleSchema(request_schema.OrderedSchema): - type = marshmallow_fields.Enum( - user_models.RoleType, - by_value=True, - metadata={"description": "The name of the role"}, - ) - - # Note that user_id is not included in the API schema since the role - # will always be a nested fields of the API user - - -class UserSchema(request_schema.OrderedSchema): - id = fields.UUID(dump_only=True) - first_name = fields.String(metadata={"description": "The user's first name"}, required=True) - middle_name = fields.String(metadata={"description": "The user's middle name"}) - last_name = fields.String(metadata={"description": "The user's last name"}, required=True) - phone_number = fields.String( - required=True, - validate=[PHONE_NUMBER_VALIDATOR], - metadata={ - "description": "The user's phone number", - "example": "123-456-7890", - }, - ) - date_of_birth = fields.Date( - metadata={"description": "The users date of birth"}, - required=True, - ) - is_active = fields.Boolean( - metadata={"description": "Whether the user is active"}, - required=True, - ) - roles = fields.List(fields.Nested(RoleSchema()), required=True) - - # Output only fields in addition to id field - created_at = fields.DateTime(dump_only=True) - updated_at = fields.DateTime(dump_only=True) - - -class UserSearchSchema(request_schema.OrderedSchema): - # Fields that you can search for users by, only includes a subset of user fields - phone_number = fields.String( - validate=[PHONE_NUMBER_VALIDATOR], - metadata={ - "description": "The user's phone number", - "example": "123-456-7890", - }, - ) - - is_active = fields.Boolean() - - role_type = fields.Enum(user_models.RoleType, by_value=True) - - sorting = fields.Nested(generate_sorting_schema("UserSortingSchema")()) - paging = fields.Nested(PaginationSchema(), required=True) diff --git a/app/src/app_config.py b/app/src/app_config.py index aa780987..b3301292 100644 --- a/app/src/app_config.py +++ b/app/src/app_config.py @@ -2,10 +2,4 @@ class AppConfig(PydanticBaseEnvConfig): - # Set HOST to 127.0.0.1 by default to avoid other machines on the network - # from accessing the application. This is especially important if you are - # running the application locally on a public network. This needs to be - # overriden to 0.0.0.0 when running in a container - # See https://flask.palletsprojects.com/en/2.2.x/api/#flask.Flask.run - host: str = "127.0.0.1" - port: int = 8080 + ... diff --git a/app/src/auth/__init__.py b/app/src/auth/__init__.py deleted file mode 100644 index e69de29b..00000000 diff --git a/app/src/auth/api_key_auth.py b/app/src/auth/api_key_auth.py deleted file mode 100644 index a1511f01..00000000 --- a/app/src/auth/api_key_auth.py +++ /dev/null @@ -1,88 +0,0 @@ -import logging -import os -import uuid -from dataclasses import dataclass -from typing import Any - -import flask -from apiflask import HTTPTokenAuth, abort - -logger = logging.getLogger(__name__) - -# Initialize the authorization context -# this needs to be attached to your -# routes as `your_blueprint..auth_required(api_key_auth)` -# in order to enable authorization -api_key_auth = HTTPTokenAuth("ApiKey", header="X-Auth") - - -def get_app_security_scheme() -> dict[str, Any]: - return {"ApiKeyAuth": {"type": "apiKey", "in": "header", "name": "X-Auth"}} - - -@dataclass -class User: - # WARNING: This is a very rudimentary - # user for demo purposes and is not - # a production ready approach. It exists - # purely to define a rough structure / example - id: uuid.UUID - sub_id: str - username: str - - def as_dict(self) -> dict[str, Any]: - # Connexion expects a dictionary it can - # use .get() on, so convert this to that format - return {"uid": self.id, "sub": self.sub_id} - - def get_user_log_attributes(self) -> dict: - # Note this gets called during authentication - # to attach the information to the flask global object - # which will in turn be attached to the log record - return {"current_user.id": str(self.id)} - - -API_AUTH_USER = User(uuid.uuid4(), "sub_id_1234", "API auth user") - - -@api_key_auth.verify_token -def verify_token(token: str) -> dict: - logger.info("Authenticating provided token") - - user = process_token(token) - - # Note that the current user can also be found - # by doing api_key_auth.current_user once in - # the request context. This is here in case - # multiple authentication approaches exist - # in your API, you don't need to check each - # one in order to figure out which was actually used - flask.g.current_user = user - flask.g.current_user_log_attributes = user.get_user_log_attributes() - - logger.info("Authentication successful") - - return user.as_dict() - - -def process_token(token: str) -> User: - # WARNING: this isn't really a production ready - # auth approach. In reality the user object returned - # here should be pulled from a DB or auth service, but - # as there are several types of authentication, we are - # keeping this pretty basic for the out-of-the-box approach - expected_auth_token = os.getenv("API_AUTH_TOKEN", None) - - if not expected_auth_token: - logger.info( - "Authentication is not setup, please add an API_AUTH_TOKEN environment variable." - ) - abort(401, "Authentication is not setup properly and the user cannot be authenticated") - - if token != expected_auth_token: - logger.info("Authentication failed for provided auth token.") - abort( - 401, "The server could not verify that you are authorized to access the URL requested" - ) - - return API_AUTH_USER diff --git a/app/src/db/migrations/versions/2023_08_11_create_user_and_role_tables.py b/app/src/db/migrations/versions/2023_08_11_create_user_and_role_tables.py deleted file mode 100644 index 0228a864..00000000 --- a/app/src/db/migrations/versions/2023_08_11_create_user_and_role_tables.py +++ /dev/null @@ -1,74 +0,0 @@ -"""create user and role tables - -Revision ID: 4ff1160282d1 -Revises: 3ed861176e3d -Create Date: 2023-08-11 18:42:20.929289 - -""" -import sqlalchemy as sa -from alembic import op -from sqlalchemy.dialects import postgresql - -# revision identifiers, used by Alembic. -revision = "4ff1160282d1" -down_revision = "3ed861176e3d" -branch_labels = None -depends_on = None - - -def upgrade(): - # ### commands auto generated by Alembic - please adjust! ### - op.create_table( - "user", - sa.Column("id", postgresql.UUID(as_uuid=True), nullable=False), - sa.Column( - "created_at", - sa.TIMESTAMP(timezone=True), - server_default=sa.text("now()"), - nullable=False, - ), - sa.Column( - "updated_at", - sa.TIMESTAMP(timezone=True), - server_default=sa.text("now()"), - nullable=False, - ), - sa.Column("first_name", sa.Text(), nullable=False), - sa.Column("middle_name", sa.Text(), nullable=True), - sa.Column("last_name", sa.Text(), nullable=False), - sa.Column("phone_number", sa.Text(), nullable=False), - sa.Column("date_of_birth", sa.Date(), nullable=False), - sa.Column("is_active", sa.Boolean(), nullable=False), - sa.PrimaryKeyConstraint("id", name=op.f("user_pkey")), - ) - op.create_table( - "role", - sa.Column( - "created_at", - sa.TIMESTAMP(timezone=True), - server_default=sa.text("now()"), - nullable=False, - ), - sa.Column( - "updated_at", - sa.TIMESTAMP(timezone=True), - server_default=sa.text("now()"), - nullable=False, - ), - sa.Column("user_id", postgresql.UUID(as_uuid=True), nullable=False), - sa.Column( - "type", sa.Enum("USER", "ADMIN", name="roletype", native_enum=False), nullable=False - ), - sa.ForeignKeyConstraint( - ["user_id"], ["user.id"], name=op.f("role_user_id_user_fkey"), ondelete="CASCADE" - ), - sa.PrimaryKeyConstraint("user_id", "type", name=op.f("role_pkey")), - ) - # ### end Alembic commands ### - - -def downgrade(): - # ### commands auto generated by Alembic - please adjust! ### - op.drop_table("role") - op.drop_table("user") - # ### end Alembic commands ### diff --git a/app/src/db/models/__init__.py b/app/src/db/models/__init__.py index 868c0833..335af6f2 100644 --- a/app/src/db/models/__init__.py +++ b/app/src/db/models/__init__.py @@ -1,6 +1,6 @@ import logging -from . import base, user_models +from . import base logger = logging.getLogger(__name__) @@ -8,4 +8,4 @@ # This is used by tests to create the test database. metadata = base.metadata -__all__ = ["metadata", "user_models"] +__all__ = ["metadata"] diff --git a/app/src/db/models/user_models.py b/app/src/db/models/user_models.py deleted file mode 100644 index b18b7dbf..00000000 --- a/app/src/db/models/user_models.py +++ /dev/null @@ -1,52 +0,0 @@ -import enum -import logging -from datetime import date -from typing import Optional -from uuid import UUID - -from sqlalchemy import Enum, ForeignKey -from sqlalchemy.orm import Mapped, mapped_column, relationship - -from src.db.models.base import Base, IdMixin, TimestampMixin - -logger = logging.getLogger(__name__) - - -class RoleType(str, enum.Enum): - USER = "USER" - ADMIN = "ADMIN" - - -class User(Base, IdMixin, TimestampMixin): - __tablename__ = "user" - - first_name: Mapped[str] - middle_name: Mapped[Optional[str]] - last_name: Mapped[str] - phone_number: Mapped[str] - date_of_birth: Mapped[date] - is_active: Mapped[bool] - - roles: Mapped[list["Role"]] = relationship( - "Role", back_populates="user", cascade="all, delete", order_by="Role.type" - ) - - -class Role(Base, TimestampMixin): - __tablename__ = "role" - user_id: Mapped[UUID] = mapped_column( - ForeignKey("user.id", ondelete="CASCADE"), primary_key=True - ) - - # Set native_enum=False to use store enum values as VARCHAR/TEXT - # With native_enum=True, alembic is unable to detect changes to the enum values and the generated - # migrations are empty. - # (See https://github.com/sqlalchemy/alembic/issues/278) - # - # Leaving create_constraint=False, since autogenerated migrations with check_constraint=True are - # not yet functional - # (See https://github.com/sqlalchemy/alembic/issues/363) - # - # https://docs.sqlalchemy.org/en/20/core/type_basics.html#sqlalchemy.types.Enum.params.native_enum - type: Mapped[RoleType] = mapped_column(Enum(RoleType, native_enum=False), primary_key=True) - user: Mapped[User] = relationship(User, back_populates="roles") diff --git a/app/src/logging/flask_logger.py b/app/src/logging/flask_logger.py deleted file mode 100644 index 6aefa833..00000000 --- a/app/src/logging/flask_logger.py +++ /dev/null @@ -1,166 +0,0 @@ -"""Module for adding standard logging functionality to a Flask app. - -This module configures an application's logger to add extra data -to all log messages. Flask application context data such as the -app name and request context data such as the request method, request url -rule, and query parameters are added to the log record. - -This module also configures the Flask application to log every -non-404 request. - -Usage: - import src.logging.flask_logger as flask_logger - - logger = logging.getLogger(__name__) - app = create_app() - - flask_logger.init_app(logger, app) -""" -import logging -import time - -import flask - -logger = logging.getLogger(__name__) -EXTRA_LOG_DATA_ATTR = "extra_log_data" - - -def init_app(app_logger: logging.Logger, app: flask.Flask) -> None: - """Initialize the Flask app logger. - - Adds Flask app context data and Flask request context data - to every log record using log filters. - See https://docs.python.org/3/howto/logging-cookbook.html#using-filters-to-impart-contextual-information - - Also configures the app to log every non-404 request using the given logger. - - Usage: - import src.logging.flask_logger as flask_logger - - logger = logging.getLogger(__name__) - app = create_app() - - flask_logger.init_app(logger, app) - """ - - # Need to add filters to each of the handlers rather than to the logger itself, since - # messages are passed directly to the ancestor loggers’ handlers bypassing any filters - # set on the ancestors. - # See https://docs.python.org/3/library/logging.html#logging.Logger.propagate - for handler in app_logger.handlers: - handler.addFilter(_add_app_context_info_to_log_record) - handler.addFilter(_add_request_context_info_to_log_record) - - # Add request context data to every log record for the current request - # such as request id, request method, request path, and the matching Flask request url rule - app.before_request( - lambda: add_extra_data_to_current_request_logs(_get_request_context_info(flask.request)) - ) - - app.before_request(_track_request_start_time) - app.before_request(_log_start_request) - app.after_request(_log_end_request) - - app_logger.info("initialized flask logger") - - -def add_extra_data_to_current_request_logs( - data: dict[str, str | int | float | bool | None] -) -> None: - """Add data to every log record for the current request.""" - assert flask.has_request_context(), "Must be in a request context" - - extra_log_data = getattr(flask.g, EXTRA_LOG_DATA_ATTR, {}) - extra_log_data.update(data) - setattr(flask.g, EXTRA_LOG_DATA_ATTR, extra_log_data) - - -def _track_request_start_time() -> None: - """Store the request start time in flask.g""" - flask.g.request_start_time = time.perf_counter() - - -def _log_start_request() -> None: - """Log the start of a request. - - This function handles the Flask's before_request event. - See https://tedboy.github.io/flask/interface_src.application_object.html#flask.Flask.before_request - - Additional info about the request will be in the `extra` field - added by `_add_request_context_info_to_log_record` - """ - logger.info("start request") - - -def _log_end_request(response: flask.Response) -> flask.Response: - """Log the end of a request. - - This function handles the Flask's after_request event. - See https://tedboy.github.io/flask/interface_src.application_object.html#flask.Flask.after_request - - Additional info about the request will be in the `extra` field - added by `_add_request_context_info_to_log_record` - """ - - logger.info( - "end request", - extra={ - "response.status_code": response.status_code, - "response.content_length": response.content_length, - "response.content_type": response.content_type, - "response.mimetype": response.mimetype, - "response.time_ms": (time.perf_counter() - flask.g.request_start_time) * 1000, - }, - ) - return response - - -def _add_app_context_info_to_log_record(record: logging.LogRecord) -> bool: - """Add app context data to the log record. - - If there is no app context, then do not add any data. - """ - if not flask.has_app_context(): - return True - - assert flask.current_app is not None - record.__dict__ |= _get_app_context_info(flask.current_app) - - return True - - -def _add_request_context_info_to_log_record(record: logging.LogRecord) -> bool: - """Add request context data to the log record. - - If there is no request context, then do not add any data. - """ - if not flask.has_request_context(): - return True - - assert flask.request is not None - extra_log_data: dict[str, str] = getattr(flask.g, EXTRA_LOG_DATA_ATTR, {}) - record.__dict__.update(extra_log_data) - - return True - - -def _get_app_context_info(app: flask.Flask) -> dict: - return {"app.name": app.name} - - -def _get_request_context_info(request: flask.Request) -> dict: - data = { - "request.id": request.headers.get("x-amzn-requestid", ""), - "request.method": request.method, - "request.path": request.path, - "request.url_rule": str(request.url_rule), - } - - # Add query parameter data in the format request.query. = - # For example, the query string ?foo=bar&baz=qux would be added as - # request.query.foo = bar and request.query.baz = qux - # PII should be kept out of the URL, as URLs are logged in access logs. - # With that assumption, it is safe to log query parameters. - for key, value in request.args.items(): - data[f"request.query.{key}"] = value - return data diff --git a/app/src/pagination/pagination_schema.py b/app/src/pagination/pagination_schema.py deleted file mode 100644 index 13ff86f2..00000000 --- a/app/src/pagination/pagination_schema.py +++ /dev/null @@ -1,87 +0,0 @@ -from typing import Type - -from apiflask import fields, validators - -from src.api.schemas import request_schema -from src.pagination.pagination_models import SortDirection - - -class PaginationSchema(request_schema.OrderedSchema): - page_size = fields.Integer( - required=True, - validate=validators.Range(min=1), - metadata={"description": "The size of the page to fetch", "example": 25}, - ) - page_offset = fields.Integer( - required=True, - validate=[validators.Range(min=1)], - metadata={"description": "The page number to fetch, starts counting from 1", "example": 1}, - ) - - -def generate_sorting_schema( - cls_name: str, order_by_fields: list[str] | None = None -) -> Type[request_schema.OrderedSchema]: - """ - Generate a schema that describes the sorting for a pagination endpoint. - - cls_name will be what the model is named internally by Marshmallow and what OpenAPI shows. - order_by_fields can be a list of fields that the endpoint allows you to sort the response by - - This is functionally equivalent to specifying your own class like so: - - class MySortingSchema(request_schema.OrderedSchema): - order_by = fields.String( - validate=[validators.OneOf(["id","created_at","updated_at"])], - required=True, - metadata={"description": "The field to sort the response by"} - ) - sort_direction = fields.Enum( - SortDirection, - required=True, - by_value=True, - metadata={"description": "Whether to sort the response ascending or descending"}, - ) - """ - if order_by_fields is None: - order_by_fields = ["id", "created_at", "updated_at"] - - ordering_schema_fields = { - "order_by": fields.String( - validate=[validators.OneOf(order_by_fields)], - required=True, - metadata={"description": "The field to sort the response by"}, - ), - "sort_direction": fields.Enum( - SortDirection, - required=True, - by_value=True, - metadata={"description": "Whether to sort the response ascending or descending"}, - ), - } - return request_schema.OrderedSchema.from_dict(ordering_schema_fields, name=cls_name) # type: ignore - - -class PaginationInfoSchema(request_schema.OrderedSchema): - # This is part of the response schema to provide all pagination information back to a user - - page_offset = fields.Integer( - metadata={"description": "The page number that was fetched", "example": 1} - ) - page_size = fields.Integer( - metadata={"description": "The size of the page fetched", "example": 25} - ) - total_records = fields.Integer( - metadata={"description": "The total number of records fetchable", "example": 42} - ) - total_pages = fields.Integer( - metadata={"description": "The total number of pages that can be fetched", "example": 2} - ) - order_by = fields.String( - metadata={"description": "The field that the records were sorted by", "example": "id"} - ) - sort_direction = fields.Enum( - SortDirection, - by_value=True, - metadata={"description": "The direction the records are sorted"}, - ) diff --git a/app/src/services/users/__init__.py b/app/src/services/users/__init__.py deleted file mode 100644 index 57b74942..00000000 --- a/app/src/services/users/__init__.py +++ /dev/null @@ -1,16 +0,0 @@ -from .create_user import CreateUserParams, RoleParams, create_user -from .create_user_csv import create_user_csv -from .get_user import get_user -from .patch_user import PatchUserParams, patch_user -from .search_user import search_user - -__all__ = [ - "CreateUserParams", - "PatchUserParams", - "RoleParams", - "create_user", - "get_user", - "patch_user", - "search_user", - "create_user_csv", -] diff --git a/app/src/services/users/create_user.py b/app/src/services/users/create_user.py deleted file mode 100644 index 9721594a..00000000 --- a/app/src/services/users/create_user.py +++ /dev/null @@ -1,40 +0,0 @@ -from datetime import date -from typing import TypedDict - -from src.adapters.db import Session -from src.db.models import user_models -from src.db.models.user_models import Role, User - - -class RoleParams(TypedDict): - type: user_models.RoleType - - -class CreateUserParams(TypedDict): - first_name: str - middle_name: str - last_name: str - phone_number: str - date_of_birth: date - is_active: bool - roles: list[RoleParams] - - -# TODO: separate controller and service concerns -# https://github.com/navapbc/template-application-flask/issues/49#issue-1505008251 -# TODO: Use classes / objects as inputs to service methods -# https://github.com/navapbc/template-application-flask/issues/52 -def create_user(db_session: Session, user_params: CreateUserParams) -> User: - with db_session.begin(): - # TODO: move this code to service and/or persistence layer - user = User( - first_name=user_params["first_name"], - middle_name=user_params["middle_name"], - last_name=user_params["last_name"], - phone_number=user_params["phone_number"], - date_of_birth=user_params["date_of_birth"], - is_active=user_params["is_active"], - roles=[Role(type=role["type"]) for role in user_params["roles"]], - ) - db_session.add(user) - return user diff --git a/app/src/services/users/create_user_csv.py b/app/src/services/users/create_user_csv.py deleted file mode 100644 index 959012f6..00000000 --- a/app/src/services/users/create_user_csv.py +++ /dev/null @@ -1,81 +0,0 @@ -import csv -import logging -from dataclasses import asdict, dataclass - -from smart_open import open as smart_open - -import src.adapters.db as db -from src.db.models.user_models import User - -logger = logging.getLogger(__name__) - - -@dataclass -class UserCsvRecord: - user_name: str - roles: str - is_user_active: str - - -USER_CSV_RECORD_HEADERS = UserCsvRecord( - user_name="User Name", roles="Roles", is_user_active="Is User Active?" -) - - -def create_user_csv(db_session: db.Session, output_file_path: str) -> None: - # Get DB records - user_records = get_user_records(db_session) - - csv_records = convert_user_records_for_csv(user_records) - - generate_csv_file(csv_records, output_file_path) - - -def get_user_records(db_session: db.Session) -> list[User]: - logger.info("Fetching user records from DB") - user_records = db_session.query(User).all() - - record_count = len(user_records) - logger.info( - "Found %s user records", - record_count, - extra={"user_records": record_count}, - ) - - return user_records - - -def generate_csv_file(records: list[UserCsvRecord], output_file_path: str) -> None: - logger.info("Generating user role CSV at %s", output_file_path) - - # smart_open can write files to local & S3 - with smart_open(output_file_path, "w") as outbound_file: - csv_writer = csv.DictWriter( - outbound_file, - fieldnames=list(asdict(USER_CSV_RECORD_HEADERS).keys()), - quoting=csv.QUOTE_ALL, - ) - for record in records: - csv_writer.writerow(asdict(record)) - - logger.info("Successfully created user role CSV at %s", output_file_path) - - -def convert_user_records_for_csv(records: list[User]) -> list[UserCsvRecord]: - logger.info("Converting user role records to CSV format") - out_records: list[UserCsvRecord] = [] - out_records.append(USER_CSV_RECORD_HEADERS) - - for user in records: - user_name = " ".join([user.first_name, user.last_name]) - roles = " ".join([role.type for role in user.roles]) if user.roles else "" - - out_records.append( - UserCsvRecord( - user_name=user_name, - roles=roles, - is_user_active=str(user.is_active), - ) - ) - - return out_records diff --git a/app/src/services/users/get_user.py b/app/src/services/users/get_user.py deleted file mode 100644 index df4138f5..00000000 --- a/app/src/services/users/get_user.py +++ /dev/null @@ -1,21 +0,0 @@ -import apiflask -from sqlalchemy import orm - -from src.adapters.db import Session -from src.db.models.user_models import User - - -# TODO: separate controller and service concerns -# https://github.com/navapbc/template-application-flask/issues/49#issue-1505008251 -# TODO: Use classes / objects as inputs to service methods -# https://github.com/navapbc/template-application-flask/issues/52 -def get_user(db_session: Session, user_id: str) -> User: - # TODO: move this to service and/or persistence layer - result = db_session.get(User, user_id, options=[orm.selectinload(User.roles)]) - - if result is None: - # TODO move HTTP related logic out of service layer to controller layer and just return None from here - # https://github.com/navapbc/template-application-flask/pull/51#discussion_r1053754975 - raise apiflask.HTTPError(404, message=f"Could not find user with ID {user_id}") - - return result diff --git a/app/src/services/users/patch_user.py b/app/src/services/users/patch_user.py deleted file mode 100644 index afcbf35f..00000000 --- a/app/src/services/users/patch_user.py +++ /dev/null @@ -1,72 +0,0 @@ -import bisect -from datetime import date -from operator import attrgetter -from typing import TypedDict - -import apiflask -from sqlalchemy import orm - -from src.adapters.db import Session -from src.db.models.user_models import Role, User -from src.services.users.create_user import RoleParams - - -class PatchUserParams(TypedDict, total=False): - first_name: str - middle_name: str - last_name: str - phone_number: str - date_of_birth: date - is_active: bool - roles: list[RoleParams] - - -# TODO: separate controller and service concerns -# https://github.com/navapbc/template-application-flask/issues/49#issue-1505008251 -# TODO: Use classes / objects as inputs to service methods -# https://github.com/navapbc/template-application-flask/issues/52 -def patch_user( - db_session: Session, - user_id: str, - patch_user_params: PatchUserParams, -) -> User: - with db_session.begin(): - # TODO: move this to service and/or persistence layer - user = db_session.get(User, user_id, options=[orm.selectinload(User.roles)]) - - if user is None: - # TODO move HTTP related logic out of service layer to controller layer and just return None from here - # https://github.com/navapbc/template-application-flask/pull/51#discussion_r1053754975 - raise apiflask.HTTPError(404, message=f"Could not find user with ID {user_id}") - - for key, value in patch_user_params.items(): - if key == "roles": - _handle_role_patch(db_session, user, patch_user_params["roles"]) - continue - - setattr(user, key, value) - return user - - -def _handle_role_patch(db_session: Session, user: User, request_roles: list[RoleParams]) -> None: - current_role_types = set([role.type for role in user.roles]) - request_role_types = set([role["type"] for role in request_roles]) - - roles_to_delete = [role for role in user.roles if role.type not in request_role_types] - - roles_to_add = [ - Role(user_id=user.id, type=role_type) - for role_type in request_role_types - if role_type not in current_role_types - ] - - # First delete any roles that are no longer in the request and remove the role - # from the user.roles array - for role in roles_to_delete: - user.roles.remove(role) - db_session.delete(role) - - # Then add any roles that are in the request but not in the user.roles array, - # keeping the roles array sorted by role type - for role in roles_to_add: - bisect.insort(user.roles, role, key=attrgetter("type")) diff --git a/app/src/services/users/search_user.py b/app/src/services/users/search_user.py deleted file mode 100644 index cd007f70..00000000 --- a/app/src/services/users/search_user.py +++ /dev/null @@ -1,59 +0,0 @@ -from typing import Sequence, Tuple - -from sqlalchemy import asc, desc, select -from sqlalchemy.orm import selectinload - -import src.adapters.db as db -from src.api.response import PaginationInfo -from src.db.models.user_models import Role, RoleType, User -from src.pagination.pagination_models import PaginationParams -from src.pagination.paginator import Paginator - - -class SearchUserParams(PaginationParams): - phone_number: str | None = None - is_active: bool | None = None - role_type: RoleType | None = None - - -def search_user( - db_session: db.Session, search_user_dict: dict -) -> Tuple[Sequence[User], PaginationInfo]: - # Convert the dictionary request into something a little easier to use - search_user_params = SearchUserParams.model_validate(search_user_dict) - - with db_session.begin(): - return _search_user(db_session, search_user_params) - - -def _search_user( - db_session: db.Session, search_user_params: SearchUserParams -) -> Tuple[Sequence[User], PaginationInfo]: - # Determine whether it is ascending/descending sort order - sort_fn = asc if search_user_params.sorting.is_ascending else desc - - # Create the base select statement - stmt = ( - select(User) - .options(selectinload(User.roles)) - .order_by(sort_fn(search_user_params.sorting.order_by)) - ) - - # Attach any filters - if search_user_params.phone_number is not None: - stmt = stmt.where(User.phone_number == search_user_params.phone_number) - - if search_user_params.is_active is not None: - stmt = stmt.where(User.is_active == search_user_params.is_active) - - if search_user_params.role_type is not None: - stmt = stmt.join(Role).where(Role.type == search_user_params.role_type) - - # Call the paginator and fetch pagination info to return - paginator: Paginator[User] = Paginator( - stmt, db_session, page_size=search_user_params.paging.page_size - ) - users = paginator.page_at(page_offset=search_user_params.paging.page_offset) - pagination_info = PaginationInfo.from_pagination_models(search_user_params, paginator) - - return users, pagination_info diff --git a/app/tests/pagination/__init__.py b/app/tests/pagination/__init__.py deleted file mode 100644 index e69de29b..00000000 diff --git a/app/tests/pagination/test_paginator.py b/app/tests/pagination/test_paginator.py deleted file mode 100644 index af188630..00000000 --- a/app/tests/pagination/test_paginator.py +++ /dev/null @@ -1,124 +0,0 @@ -import pytest -from sqlalchemy import select - -from src.db.models.user_models import User -from src.pagination.paginator import Paginator -from tests.src.db.models.factories import UserFactory - -TEST_PAGINATOR_FIRST_NAME = "test_paginator_first_name" - -DEFAULT_USER_PARAMS = { - "last_name": "last_name", - "phone_number": "111-111-1111", - "is_active": True, - "roles": [], -} - - -@pytest.fixture -def create_users(db_session, enable_factory_create): - # Clear any prior users from other tests so we're only fetching - # records we created here. - db_session.query(User).delete() - - # 5 with the default params - UserFactory.create_batch(5, **DEFAULT_USER_PARAMS) - - # 4 with a different last name - params = DEFAULT_USER_PARAMS | {"last_name": "something else"} - UserFactory.create_batch(4, **params) - - # 3 with a different phone number - params = DEFAULT_USER_PARAMS | {"phone_number": "222-222-2222"} - UserFactory.create_batch(3, **params) - - # 2 that aren't active - params = DEFAULT_USER_PARAMS | {"is_active": False} - UserFactory.create_batch(2, **params) - - # 1 that is different in all ways - params = DEFAULT_USER_PARAMS | { - "last_name": "something else", - "phone_number": "222-222-2222", - "is_active": False, - } - UserFactory.create_batch(1, **params) - - -def test_paginator(db_session, create_users): - # A base "select * from user" query - base_stmt = select(User) - - # Verify that with no additional filters, we get everything - paginator = Paginator(base_stmt, db_session, page_size=6) - assert paginator.page_size == 6 - assert paginator.total_pages == 3 - assert paginator.total_records == 15 - - # The pages are generated at the expected length - assert len(paginator.page_at(1)) == 6 - assert len(paginator.page_at(2)) == 6 - assert len(paginator.page_at(3)) == 3 - assert len(paginator.page_at(4)) == 0 - - # Verify when filtering by last name - stmt = base_stmt.filter(User.last_name == "something else") - paginator = Paginator(stmt, db_session, page_size=10) - assert paginator.page_size == 10 - assert paginator.total_pages == 1 - assert paginator.total_records == 5 - - assert len(paginator.page_at(1)) == 5 - assert len(paginator.page_at(2)) == 0 - - # Verify when filtering by phone number - stmt = base_stmt.filter(User.phone_number == "222-222-2222") - paginator = Paginator(stmt, db_session, page_size=1) - assert paginator.page_size == 1 - assert paginator.total_pages == 4 - assert paginator.total_records == 4 - - assert len(paginator.page_at(1)) == 1 - assert len(paginator.page_at(2)) == 1 - assert len(paginator.page_at(3)) == 1 - assert len(paginator.page_at(4)) == 1 - assert len(paginator.page_at(5)) == 0 - - # Verify when filtering by is_active - stmt = base_stmt.filter(User.is_active.is_(False)) - paginator = Paginator(stmt, db_session, page_size=100) - assert paginator.page_size == 100 - assert paginator.total_pages == 1 - assert paginator.total_records == 3 - - assert len(paginator.page_at(1)) == 3 - assert len(paginator.page_at(2)) == 0 - - # Verify when filtering by all fields - stmt = base_stmt.filter( - User.last_name == "something else", - User.phone_number == "222-222-2222", - User.is_active.is_(False), - ) - paginator = Paginator(stmt, db_session) - assert paginator.page_size == 25 - assert paginator.total_pages == 1 - assert paginator.total_records == 1 - - assert len(paginator.page_at(1)) == 1 - assert len(paginator.page_at(2)) == 0 - - # Verify when filtering to zero results - stmt = base_stmt.filter(User.last_name == "something that won't be found") - paginator = Paginator(stmt, db_session) - assert paginator.page_size == 25 - assert paginator.total_pages == 0 - assert paginator.total_records == 0 - - assert len(paginator.page_at(1)) == 0 - - -@pytest.mark.parametrize("page_size", [0, -1, -2]) -def test_page_size_zero_or_negative(db_session, page_size): - with pytest.raises(ValueError, match="Page size must be at least 1"): - Paginator(select(User), db_session, page_size) diff --git a/app/tests/src/adapters/db/test_flask_db.py b/app/tests/src/adapters/db/test_flask_db.py deleted file mode 100644 index c95ee12d..00000000 --- a/app/tests/src/adapters/db/test_flask_db.py +++ /dev/null @@ -1,51 +0,0 @@ -import pytest -from flask import Flask, current_app -from sqlalchemy import text - -import src.adapters.db as db -import src.adapters.db.flask_db as flask_db - - -# Define an isolated example Flask app fixture specific to this test module -# to avoid dependencies on any project-specific fixtures in conftest.py -@pytest.fixture -def example_app() -> Flask: - app = Flask(__name__) - db_client = db.PostgresDBClient() - flask_db.register_db_client(db_client, app) - return app - - -def test_get_db(example_app: Flask): - @example_app.route("/hello") - def hello(): - with flask_db.get_db(current_app).get_connection() as conn: - return {"data": conn.scalar(text("SELECT 'hello, world'"))} - - response = example_app.test_client().get("/hello") - assert response.get_json() == {"data": "hello, world"} - - -def test_with_db_session(example_app: Flask): - @example_app.route("/hello") - @flask_db.with_db_session() - def hello(db_session: db.Session): - with db_session.begin(): - return {"data": db_session.scalar(text("SELECT 'hello, world'"))} - - response = example_app.test_client().get("/hello") - assert response.get_json() == {"data": "hello, world"} - - -def test_with_db_session_not_default_name(example_app: Flask): - db_client = db.PostgresDBClient() - flask_db.register_db_client(db_client, example_app, client_name="something_else") - - @example_app.route("/hello") - @flask_db.with_db_session(client_name="something_else") - def hello(db_session: db.Session): - with db_session.begin(): - return {"data": db_session.scalar(text("SELECT 'hello, world'"))} - - response = example_app.test_client().get("/hello") - assert response.get_json() == {"data": "hello, world"} diff --git a/app/tests/src/db/models/factories.py b/app/tests/src/db/models/factories.py index 5288beef..5e6f3e1e 100644 --- a/app/tests/src/db/models/factories.py +++ b/app/tests/src/db/models/factories.py @@ -16,7 +16,6 @@ from sqlalchemy.orm import scoped_session import src.adapters.db as db -import src.db.models.user_models as user_models import src.util.datetime_util as datetime_util _db_session: Optional[db.Session] = None @@ -60,27 +59,3 @@ class Meta: abstract = True sqlalchemy_session = Session sqlalchemy_session_persistence = "commit" - - -class RoleFactory(BaseFactory): - class Meta: - model = user_models.Role - - user_id = factory.LazyAttribute(lambda u: u.user.id) - user = factory.SubFactory("tests.src.db.models.factories.UserFactory", roles=[]) - - type = factory.Iterator([r.value for r in user_models.RoleType]) - - -class UserFactory(BaseFactory): - class Meta: - model = user_models.User - - id = Generators.UuidObj - first_name = factory.Faker("first_name") - last_name = factory.Faker("last_name") - phone_number = "123-456-7890" - date_of_birth = factory.Faker("date_object") - is_active = factory.Faker("boolean") - - roles = factory.RelatedFactoryList(RoleFactory, size=2, factory_related_name="user") diff --git a/app/tests/src/db/models/test_factories.py b/app/tests/src/db/models/test_factories.py deleted file mode 100644 index 44cdb091..00000000 --- a/app/tests/src/db/models/test_factories.py +++ /dev/null @@ -1,97 +0,0 @@ -from datetime import date, datetime - -import pytest - -import src.adapters.db as db -from src.db.models.user_models import User -from tests.src.db.models.factories import RoleFactory, UserFactory - -user_params = { - "first_name": "Alvin", - "middle_name": "Bob", - "last_name": "Chester", - "phone_number": "999-999-9999", - "date_of_birth": date(2022, 1, 1), - "is_active": False, -} - - -def validate_user_record(user: User, user_expected_values=None): - if user_expected_values: - assert user.id is not None - for k, v in user_expected_values.items(): - user_v = getattr(user, k) - if k == "roles": - user_role_ids = set([role.role_id for role in user_v]) - expected_role_ids = set([role.role_id for role in v]) - assert user_role_ids == expected_role_ids - else: - if isinstance(user_v, datetime): - user_v = user_v.isoformat() - - assert str(user_v) == str(v) - - else: - # Otherwise just validate the values are set - assert user.id is not None - assert user.first_name is not None - assert user.last_name is not None - assert user.phone_number is not None - assert user.date_of_birth is not None - assert user.is_active is not None - assert user.roles is not None - - -def test_user_factory_build(): - # Build doesn't use the DB - - # Build sets the values - user = UserFactory.build() - validate_user_record(user) - - user = UserFactory.build(**user_params) - validate_user_record(user, user_params) - - -def test_factory_create_uninitialized_db_session(): - # DB factory access is disabled from tests unless you add the - # 'enable_factory_create' fixture. - with pytest.raises(Exception, match="Factory db_session is not initialized."): - UserFactory.create() - - -def test_user_factory_create(enable_factory_create, db_session: db.Session): - # Delete any users created by other tests - db_session.query(User).delete() - - # Create actually writes a record to the DB when run - # so we'll check the DB directly as well. - user = UserFactory.create() - validate_user_record(user) - - db_record = db_session.query(User).filter(User.id == user.id).one_or_none() - # Make certain the DB record matches the factory one. - validate_user_record(db_record, user.for_json()) - - user = UserFactory.create(**user_params) - validate_user_record(user, user_params) - - db_record = db_session.query(User).filter(User.id == user.id).one_or_none() - # Make certain the DB record matches the factory one. - validate_user_record(db_record, db_record.for_json()) - - # Make certain nullable fields can be overriden - null_params = {"middle_name": None} - user = UserFactory.create(**null_params) - validate_user_record(user, null_params) - - all_db_records = db_session.query(User).all() - assert len(all_db_records) == 3 - - -def test_role_factory_create(enable_factory_create): - # Verify if you build a Role directly, it gets - # a user attached to it with that single role - role = RoleFactory.create() - assert role.user is not None - assert len(role.user.roles) == 1 diff --git a/app/tests/src/logging/test_flask_logger.py b/app/tests/src/logging/test_flask_logger.py deleted file mode 100644 index 82fd0c8d..00000000 --- a/app/tests/src/logging/test_flask_logger.py +++ /dev/null @@ -1,146 +0,0 @@ -import logging -import sys -import time - -import pytest -from flask import Flask - -import src.logging.flask_logger as flask_logger -from tests.lib.assertions import assert_dict_contains - - -@pytest.fixture -def logger(): - logger = logging.getLogger("src") - before_level = logger.level - - logger.setLevel(logging.DEBUG) - handler = logging.StreamHandler(sys.stdout) - logger.addHandler(handler) - yield logger - logger.setLevel(before_level) - logger.removeHandler(handler) - - -@pytest.fixture -def app(logger): - app = Flask("test_app_name") - - @app.get("/hello/") - def hello(name): - logging.getLogger("src.hello").info(f"hello, {name}!") - return "ok" - - flask_logger.init_app(logger, app) - return app - - -test_request_lifecycle_logs_data = [ - pytest.param( - "/hello/jane", - [ - {"msg": "start request"}, - {"msg": "hello, jane!"}, - { - "msg": "end request", - "response.status_code": 200, - "response.content_length": 2, - "response.content_type": "text/html; charset=utf-8", - "response.mimetype": "text/html", - }, - ], - id="200", - ), - pytest.param( - "/notfound", - [ - {"msg": "start request"}, - { - "msg": "end request", - "response.status_code": 404, - "response.content_length": 207, - "response.content_type": "text/html; charset=utf-8", - "response.mimetype": "text/html", - }, - ], - id="404", - ), -] - - -@pytest.mark.parametrize( - "route,expected_extras", - test_request_lifecycle_logs_data, -) -def test_request_lifecycle_logs( - app: Flask, caplog: pytest.LogCaptureFixture, route, expected_extras -): - app.test_client().get(route) - - # Assert that the log messages are present - # There should be the route log message that is logged in the before_request handler - # as part of every request, followed by the log message in the route handler itself. - # then the log message in the after_request handler. - - assert len(caplog.records) == len(expected_extras) - for record, expected_extra in zip(caplog.records, expected_extras, strict=True): - assert_dict_contains(record.__dict__, expected_extra) - - -def test_app_context_extra_attributes(app: Flask, caplog: pytest.LogCaptureFixture): - # Assert that extra attributes related to the app context are present in all log records - expected_extra = {"app.name": "test_app_name"} - - app.test_client().get("/hello/jane") - - assert len(caplog.records) > 0 - for record in caplog.records: - assert_dict_contains(record.__dict__, expected_extra) - - -def test_request_context_extra_attributes(app: Flask, caplog: pytest.LogCaptureFixture): - # Assert that the extra attributes related to the request context are present in all log records - expected_extra = { - "request.id": "", - "request.method": "GET", - "request.path": "/hello/jane", - "request.url_rule": "/hello/", - "request.query.up": "high", - "request.query.down": "low", - } - - app.test_client().get("/hello/jane?up=high&down=low") - - assert len(caplog.records) > 0 - for record in caplog.records: - assert_dict_contains(record.__dict__, expected_extra) - - -def test_add_extra_log_data_for_current_request(app: Flask, caplog: pytest.LogCaptureFixture): - @app.get("/pet/") - def pet(name): - flask_logger.add_extra_data_to_current_request_logs({"pet.name": name}) - logging.getLogger("test.pet").info(f"petting {name}") - return "ok" - - app.test_client().get("/pet/kitty") - - last_record = caplog.records[-1] - assert_dict_contains(last_record.__dict__, {"pet.name": "kitty"}) - - -def test_log_response_time(app: Flask, caplog: pytest.LogCaptureFixture): - @app.get("/sleep") - def sleep(): - time.sleep(0.1) # 0.1 s = 100 ms - return "ok" - - app.test_client().get("/sleep") - - last_record = caplog.records[-1] - assert "response.time_ms" in last_record.__dict__ - response_time_ms = last_record.__dict__["response.time_ms"] - expected_response_time_ms = 100 # ms - allowed_error = 20 # ms - - assert response_time_ms == pytest.approx(expected_response_time_ms, abs=allowed_error) diff --git a/app/tests/src/route/__init__.py b/app/tests/src/route/__init__.py deleted file mode 100644 index e69de29b..00000000 diff --git a/app/tests/src/scripts/__init__.py b/app/tests/src/scripts/__init__.py deleted file mode 100644 index e69de29b..00000000 diff --git a/app/tests/src/scripts/test_create_user_csv_expected.csv b/app/tests/src/scripts/test_create_user_csv_expected.csv deleted file mode 100644 index da0371ff..00000000 --- a/app/tests/src/scripts/test_create_user_csv_expected.csv +++ /dev/null @@ -1,4 +0,0 @@ -"User Name","Roles","Is User Active?" -"Jon Doe","ADMIN USER","True" -"Jane Doe","ADMIN USER","False" -"Alby Testin","ADMIN USER","True" diff --git a/docs/app/README.md b/docs/app/README.md index 7723a9ce..47d4b87b 100644 --- a/docs/app/README.md +++ b/docs/app/README.md @@ -2,7 +2,7 @@ ## Introduction -This is the API layer. It includes a few separate components: +This is a Chainlit app built on top of Nava's open source [Application Flask template](https://github.com/navapbc/template-application-flask). It includes a few separate components: * The REST API * Backend & utility scripts @@ -22,7 +22,6 @@ root │ └── route API route definitions │ └── handler API route implementations │ └── scripts Backend scripts that run separate from the application -| └── services Methods for service layer │ └── util Utility methods and classes useful to most areas of the code │ │ └── tests @@ -37,7 +36,7 @@ root ## Information -* [API Technical Overview](./technical-overview.md) +* [Technical Overview](./technical-overview.md) * [Database Management](./database/database-management.md) * [Formatting and Linting](./formatting-and-linting.md) * [Writing Tests](./writing-tests.md) @@ -89,9 +88,9 @@ export DB_HOST=localhost ``` And then running `direnv allow .` in the /app folder. You should see something like: ```shell -➜ template-application-flask git:(main) ✗ cd app -direnv: loading ~/workspace/template-application-flask/app/.envrc -direnv: export +API_AUTH_TOKEN +AWS_ACCESS_KEY_ID +AWS_DEFAULT_REGION +AWS_SECRET_ACCESS_KEY +DB_HOST +DB_NAME +DB_PASSWORD +DB_SCHEMA +DB_SSL_MODE +DB_USER +ENVIRONMENT +FLASK_APP +HIDE_SQL_PARAMETER_LOGS +LOG_ENABLE_AUDIT +LOG_FORMAT +PORT +PYTHONPATH +➜ labs-decision-support-tool git:(main) ✗ cd app +direnv: loading ~/workspace/labs-decision-support-tool/app/.envrc +direnv: export +API_AUTH_TOKEN +AWS_ACCESS_KEY_ID +AWS_DEFAULT_REGION +AWS_SECRET_ACCESS_KEY +DB_HOST +DB_NAME +DB_PASSWORD +DB_SCHEMA +DB_SSL_MODE +DB_USER +ENVIRONMENT +HIDE_SQL_PARAMETER_LOGS +LOG_ENABLE_AUDIT +LOG_FORMAT +PORT +PYTHONPATH ``` ## Environment Variables @@ -102,9 +101,6 @@ Environment variables for local development are stored in the [local.env](/app/l Any environment variables specified directly in the [docker-compose](/docker-compose.yml) file will take precedent over those specified in the [local.env](/app/local.env) file. -## Authentication - -This API uses a very simple [ApiKey authentication approach](https://apiflask.com/authentication/#use-external-authentication-library) which requires the caller to provide a static key. This is specified with the `API_AUTH_TOKEN` environment variable. ## VSCode Remote Attach Container Debugging diff --git a/docs/app/api-details.md b/docs/app/api-details.md deleted file mode 100644 index 201c4d0c..00000000 --- a/docs/app/api-details.md +++ /dev/null @@ -1,25 +0,0 @@ -# API Details - -See [Technical Overview](./technical-overview.md) for details on the technologies used. - -Each endpoint is configured in the [openapi.generated.yml](/app/openapi.generated.yml) file which provides basic request validation. Each endpoint specifies an `operationId` that maps to a function defined in the code that will handle the request. - -# Swagger - -The Swagger UI can be reached locally at [http://localhost:8080/docs](http://localhost:8080/docs) when running the API. The UI is based on the [openapi.generated.yml](/app/openapi.generated.yml) file. -![Swagger UI](/docs/app/images/swagger-ui.png) - -Each of the endpoints you've described in your openapi.generated.yml file will appear here, organized based on their defined tags. For any endpoints with authentication added, you can add your authentication information by selecting `Authorize` in the top right. -![Swagger Auth](/docs/app/images/swagger-auth.png) - -All model schemas defined can be found at the bottom of the UI. - -# Routes - -## Health Check -[GET /v1/healthcheck](/app/src/api/healthcheck.py) is an endpoint for checking the health of the service. It verifies that the database is reachable, and that the API service itself is up and running. - -Note this endpoint explicitly does not require authorization so it can be integrated with any automated monitoring you may build. - -### Example Response -![Example Response](/docs/app/images/healthcheck-response.png) diff --git a/docs/app/database/database-access-management.md b/docs/app/database/database-access-management.md index b74b664f..803e2865 100644 --- a/docs/app/database/database-access-management.md +++ b/docs/app/database/database-access-management.md @@ -4,7 +4,7 @@ This document describes the best practices and patterns for how the application ## Client Initialization and Configuration -The database client is initialized when the application starts (see [`src/__main__.py`](../../../app/src/app.py)). The database engine that is used to acquire connections to the database is initialized using the database configuration defined in [postgres_config.py](../../../app/src/adapters/db/clients/postgres_config.py), which is configured through environment variables. The initialized database client is then stored on the Flask app's [`extensions` dictionary](https://flask.palletsprojects.com/en/2.2.x/extensions/) to be used throughout the lifetime of the application. +The database engine that is used to acquire connections to the database is initialized using the database configuration defined in [postgres_config.py](../../../app/src/adapters/db/clients/postgres_config.py), which is configured through environment variables. ## Session Management diff --git a/docs/app/monitoring-and-observability/logging-configuration.md b/docs/app/monitoring-and-observability/logging-configuration.md index ad430189..d8c54ba3 100644 --- a/docs/app/monitoring-and-observability/logging-configuration.md +++ b/docs/app/monitoring-and-observability/logging-configuration.md @@ -31,10 +31,6 @@ We have two separate ways of formatting the logs which are controlled by the `LO ![Human readable logs](human-readable-logs.png) -## Logging Extra Data in a Request - -The [src.logging.flask_logger](../../../app/src/logging/flask_logger.py) module adds logging functionality to Flask applications. It automatically adds useful data from the Flask request object to logs, logs the start and end of requests, and provides a mechanism for developers to dynamically add extra data to all subsequent logs for the current request. - ## PII Masking The [src.logging.pii](../../../app/src/logging/pii.py) module defines a filter that applies to all logs that automatically masks data fields that look like social security numbers. diff --git a/docs/app/technical-overview.md b/docs/app/technical-overview.md index 592a7b88..eca9669c 100644 --- a/docs/app/technical-overview.md +++ b/docs/app/technical-overview.md @@ -1,34 +1,21 @@ # Technical Overview - [Key Technologies](#key-technologies) -- [Request operations](#request-operations) -- [Authentication](#authentication) -- [Authorization](#authorization) ## Key Technologies -The API is written in Python, utilizing APIFlask as the web application -framework (with Flask serving as the backend for APIFlask). The API is -described in the code via [Marshmallow Dataclasses](https://apiflask.com/schema/#use-dataclass-as-data-schema) +The application is built on Chainlit, using Postgres with the pgvector extension for vectors (embeddings). SQLAlchemy is the ORM, with migrations driven by Alembic. pydantic is used in many spots for parsing data (and often serializing it to json or plain dictionaries). Where pydantic is not used, plain Python dataclasses are generally preferred. -- [OpenAPI Specification][oas-docs] -- [API Flask][apiflask-home] ([source code][apiflask-src]) - [SQLAlchemy][sqlalchemy-home] ([source code][sqlalchemy-src]) - [Alembic][alembic-home] ([source code][alembic-src]) - [pydantic][pydantic-home] ([source code][pydantic-src]) - [poetry](https://python-poetry.org/docs/) - Python dependency management -[oas-docs]: http://spec.openapis.org/oas/v3.0.3 -[oas-swagger-docs]: https://swagger.io/docs/specification/about/ - -[apiflask-home]: https://apiflask.com/ -[apiflask-src]: https://github.com/apiflask/apiflask - [pydantic-home]:https://pydantic-docs.helpmanual.io/ [pydantic-src]: https://github.com/samuelcolvin/pydantic/ @@ -36,25 +23,4 @@ generally preferred. [sqlalchemy-src]: https://github.com/sqlalchemy/sqlalchemy [alembic-home]: https://alembic.sqlalchemy.org/en/latest/ -[alembic-src]: https://github.com/sqlalchemy/alembic - -## Request operations - -- TODO - redo this - -## Authentication - -Authentication methods are defined in the `security_scheme` config in -`app.py`. A particular security scheme is enabled for a route via a -`security` block on that route. - -Flask runs the authentication method specified in `api_key_auth.py` -before passing the request to the route handler. -In the `api_key` security scheme, the `X-Auth` points to the -function that is run to do the authentication. - -## Authorization -n/a - Specific user authorization is not yet implemented for this API. - -### Database diagram -n/a - Database diagrams are not yet available for this application. +[alembic-src]: https://github.com/sqlalchemy/alembic \ No newline at end of file diff --git a/docs/decisions/0003-keep-generated-openapi-spec-to-source-control.md b/docs/decisions/0003-keep-generated-openapi-spec-to-source-control.md index b9f0901d..7e25f205 100644 --- a/docs/decisions/0003-keep-generated-openapi-spec-to-source-control.md +++ b/docs/decisions/0003-keep-generated-openapi-spec-to-source-control.md @@ -18,6 +18,6 @@ With the switch from Connexion to APIFlask (see [Connection replacement ADR](./0 We chose to keep the openapi.yml file in source control because we want changes to the API to be called out explicitly so that developers do not accidentally make backwards incompatible changes to the API as part of a code change. This is particularly important since the API spec is now implicit as the OpenAPI specification is automatically generated from the code. -We chose to keep the openapi.yml file in sync with the API application automatically using a [CI workflow that generates the OpenAPI and pushes and changes to the PR branch](../../.github/workflows/ci-openapi.yml). This reduces the amount of manual work required by the engineer compared to a CI check that only checks for diffs but does not make the change. That said, we don't feel strongly about this decision so are open to changes in the future. +We chose to keep the openapi.yml file in sync with the API application automatically using a CI workflow that generates the OpenAPI and pushes and changes to the PR branch. This reduces the amount of manual work required by the engineer compared to a CI check that only checks for diffs but does not make the change. That said, we don't feel strongly about this decision so are open to changes in the future. To minimize developer confusion, we chose to rename the `openapi.yml` file to `openapi.generated.yml` to clearly indicate that it is a generated file and not something that the developer should manually adjust.