From 3355b9d716ea4556cb655be2e894440c3190b76c Mon Sep 17 00:00:00 2001 From: phil Date: Mon, 6 Nov 2023 17:04:17 +0530 Subject: [PATCH] Initial commit --- .gitignore | 162 +++++++ .vscode/launch.json | 21 + .vscode/settings.json | 8 + README.md | 1 + package.json | 16 + pdm.lock | 916 +++++++++++++++++++++++++++++++++++ pyproject.toml | 32 ++ src/api.py | 88 ++++ src/application.py | 5 + src/config.py | 69 +++ src/database.py | 16 + src/models/authentication.py | 60 +++ src/models/category.py | 103 ++++ src/security.py | 138 ++++++ tests/__init__.py | 0 15 files changed, 1635 insertions(+) create mode 100644 .gitignore create mode 100644 .vscode/launch.json create mode 100644 .vscode/settings.json create mode 100644 README.md create mode 100644 package.json create mode 100644 pdm.lock create mode 100644 pyproject.toml create mode 100644 src/api.py create mode 100644 src/application.py create mode 100644 src/config.py create mode 100644 src/database.py create mode 100644 src/models/authentication.py create mode 100644 src/models/category.py create mode 100644 src/security.py create mode 100644 tests/__init__.py diff --git a/.gitignore b/.gitignore new file mode 100644 index 0000000..4b3ab30 --- /dev/null +++ b/.gitignore @@ -0,0 +1,162 @@ +# Byte-compiled / optimized / DLL files +__pycache__/ +*.py[cod] +*$py.class + +# C extensions +*.so + +# Distribution / packaging +.Python +build/ +develop-eggs/ +dist/ +downloads/ +eggs/ +.eggs/ +lib/ +lib64/ +parts/ +sdist/ +var/ +wheels/ +share/python-wheels/ +*.egg-info/ +.installed.cfg +*.egg +MANIFEST + +# PyInstaller +# Usually these files are written by a python script from a template +# before PyInstaller builds the exe, so as to inject date/other infos into it. +*.manifest +*.spec + +# Installer logs +pip-log.txt +pip-delete-this-directory.txt + +# Unit test / coverage reports +htmlcov/ +.tox/ +.nox/ +.coverage +.coverage.* +.cache +nosetests.xml +coverage.xml +*.cover +*.py,cover +.hypothesis/ +.pytest_cache/ +cover/ + +# Translations +*.mo +*.pot + +# Django stuff: +*.log +local_settings.py +db.sqlite3 +db.sqlite3-journal + +# Flask stuff: +instance/ +.webassets-cache + +# Scrapy stuff: +.scrapy + +# Sphinx documentation +docs/_build/ + +# PyBuilder +.pybuilder/ +target/ + +# Jupyter Notebook +.ipynb_checkpoints + +# IPython +profile_default/ +ipython_config.py + +# pyenv +# For a library or package, you might want to ignore these files since the code is +# intended to run in multiple environments; otherwise, check them in: +# .python-version + +# pipenv +# According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control. +# However, in case of collaboration, if having platform-specific dependencies or dependencies +# having no cross-platform support, pipenv may install dependencies that don't work, or not +# install all needed dependencies. +#Pipfile.lock + +# poetry +# Similar to Pipfile.lock, it is generally recommended to include poetry.lock in version control. +# This is especially recommended for binary packages to ensure reproducibility, and is more +# commonly ignored for libraries. +# https://python-poetry.org/docs/basic-usage/#commit-your-poetrylock-file-to-version-control +#poetry.lock + +# pdm +# Similar to Pipfile.lock, it is generally recommended to include pdm.lock in version control. +#pdm.lock +# pdm stores project-wide configurations in .pdm.toml, but it is recommended to not include it +# in version control. +# https://pdm.fming.dev/#use-with-ide +.pdm.toml +.pdm-python +.pdm-build/ + +# PEP 582; used by e.g. github.com/David-OConnor/pyflow and github.com/pdm-project/pdm +__pypackages__/ + +# Celery stuff +celerybeat-schedule +celerybeat.pid + +# SageMath parsed files +*.sage.py + +# Environments +.env +.venv +env/ +venv/ +ENV/ +env.bak/ +venv.bak/ + +# Spyder project settings +.spyderproject +.spyproject + +# Rope project settings +.ropeproject + +# mkdocs documentation +/site + +# mypy +.mypy_cache/ +.dmypy.json +dmypy.json + +# Pyre type checker +.pyre/ + +# pytype static type analyzer +.pytype/ + +# Cython debug symbols +cython_debug/ + +# PyCharm +# JetBrains specific template is maintained in a separate JetBrains.gitignore that can +# be found at https://github.com/github/gitignore/blob/main/Global/JetBrains.gitignore +# and can be added to the global gitignore or merged into this file. For a more nuclear +# option (not recommended) you can uncomment the following to ignore the entire idea folder. +#.idea/ diff --git a/.vscode/launch.json b/.vscode/launch.json new file mode 100644 index 0000000..446995e --- /dev/null +++ b/.vscode/launch.json @@ -0,0 +1,21 @@ +{ + // Use IntelliSense to learn about possible attributes. + // Hover to view descriptions of existing attributes. + // For more information, visit: https://go.microsoft.com/fwlink/?linkid=830387 + "version": "0.2.0", + "configurations": [ + { + "name": "Python: FastAPI", + "type": "python", + "request": "launch", + "module": "uvicorn", + "args": [ + "src.application:app", + "--port=5003", + "--reload" + ], + "jinja": true, + "justMyCode": false + } + ] +} \ No newline at end of file diff --git a/.vscode/settings.json b/.vscode/settings.json new file mode 100644 index 0000000..0fa4149 --- /dev/null +++ b/.vscode/settings.json @@ -0,0 +1,8 @@ +{ + "python.analysis.extraPaths": [ + "${workspaceFolder}/__pypackages__/3.11/lib" + ], + "python.autoComplete.extraPaths": [ + "${workspaceFolder}/__pypackages__/3.11/lib" + ] +} \ No newline at end of file diff --git a/README.md b/README.md new file mode 100644 index 0000000..8f760bf --- /dev/null +++ b/README.md @@ -0,0 +1 @@ +# Gisaf diff --git a/package.json b/package.json new file mode 100644 index 0000000..c113239 --- /dev/null +++ b/package.json @@ -0,0 +1,16 @@ + +{ + "name": "frontend-app", + "version": "1.0.0", + "description": "", + "main": "index.js", + "scripts": { + "generate-client": "openapi --input http://localhost:4200/v2/openapi.json --output ./src/client/Gisaf/openapi --client angular" + }, + "author": "", + "license": "", + "devDependencies": { + "openapi-typescript-codegen": "^0.20.1", + "typescript": "^4.6.2" + } +} diff --git a/pdm.lock b/pdm.lock new file mode 100644 index 0000000..b42b2c0 --- /dev/null +++ b/pdm.lock @@ -0,0 +1,916 @@ +# This file is @generated by PDM. +# It is not intended for 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"phil.dev@philome.mooo.com"}, +] +dependencies = [ + "fastapi>=0.104.1", + "uvicorn>=0.23.2", + "pandas>=2.1.1", + "geopandas>=0.14.0", + "psycopg2-binary>=2.9.9", + "sqlalchemy[asyncio]", + "asyncpg>=0.28.0", + "sqlmodel>=0.0.11", + "python-jose[cryptography]>=3.3.0", + "geoalchemy2>=0.14.2", +] +requires-python = ">=3.11" +readme = "README.md" +license = {text = "MIT"} + +[project.optional-dependencies] +dev = [ + "ipdb>=0.13.13", +] + +[tool.pdm.version] +source = "scm" +write_to = "src/_version.py" +write_template = "__version__ = '{}'" \ No newline at end of file diff --git a/src/api.py b/src/api.py new file mode 100644 index 0000000..a46994c --- /dev/null +++ b/src/api.py @@ -0,0 +1,88 @@ +from datetime import timedelta + +from fastapi import Depends, FastAPI, HTTPException, status +from fastapi.security import OAuth2PasswordRequestForm + +from sqlmodel import select +from sqlmodel.ext.asyncio.session import AsyncSession + +from sqlalchemy.orm import selectinload, joinedload + +from .models.authentication import ( + User, UserRead, + Role, RoleRead, + UserRoleLink +) +from .models.category import ( + CategoryGroup, CategoryModelType, + Category, CategoryRead +) +from .database import get_db_session, pandas_query +from .security import ( + User, Token, + authenticate_user, get_current_active_user, create_access_token, + ) +from .config import conf + +api = FastAPI() + + +@api.get("/nothing") +async def get_nothing() -> str: + return '' + +@api.post("/token", response_model=Token) +async def login_for_access_token(form_data: OAuth2PasswordRequestForm = Depends()): + user = await authenticate_user(form_data.username, form_data.password) + if not user: + raise HTTPException( + status_code=status.HTTP_401_UNAUTHORIZED, + detail="Incorrect username or password", + headers={"WWW-Authenticate": "Bearer"}, + ) + access_token_expires = timedelta( + minutes=conf.security['access_token_expire_minutes']) + access_token = create_access_token( + data={"sub": user.username}, + expires_delta=access_token_expires) + return {"access_token": access_token, "token_type": "bearer"} + +@api.get("/users") +async def get_users( + *, db_session: AsyncSession = Depends(get_db_session) + ) -> list[UserRead]: + query = select(User).options(selectinload(User.roles)) + data = await db_session.exec(query) + return data.all() + +@api.get("/roles") +async def get_roles( + *, db_session: AsyncSession = Depends(get_db_session) + ) -> list[RoleRead]: + query = select(Role).options(selectinload(Role.users)) + data = await db_session.exec(query) + return data.all() + +@api.get("/categories") +async def get_categories( + *, db_session: AsyncSession = Depends(get_db_session) + ) -> list[CategoryRead]: + query = select(Category) + data = await db_session.exec(query) + return data.all() + + +@api.get("/categories_p") +async def get_categories_p( + *, db_session: AsyncSession = Depends(get_db_session) + ) -> list[CategoryRead]: + query = select(Category) + df = await db_session.run_sync(pandas_query, query) + return df.to_dict(orient="records") + +# @api.get("/user-role") +# async def get_user_role_relation( +# *, db_session: AsyncSession = Depends(get_db_session) +# ) -> list[UserRoleLink]: +# roles = await db_session.exec(select(UserRoleLink)) +# return roles.all() \ No newline at end of file diff --git a/src/application.py b/src/application.py new file mode 100644 index 0000000..759ac3d --- /dev/null +++ b/src/application.py @@ -0,0 +1,5 @@ +from fastapi import Depends, FastAPI +from .api import api + +app = FastAPI() +app.mount('/v2', api) \ No newline at end of file diff --git a/src/config.py b/src/config.py new file mode 100644 index 0000000..5be0631 --- /dev/null +++ b/src/config.py @@ -0,0 +1,69 @@ +from os import environ +import logging +from pathlib import Path +import yaml + +from sqlalchemy.ext.asyncio.engine import AsyncEngine +from sqlalchemy.orm.session import sessionmaker + +logger = logging.getLogger(__name__) +ENV = environ.get('env', 'prod') + + +class Config: + app: dict + postgres: dict + storage: dict + map: dict + security: dict + version: str + engine: AsyncEngine + session_maker: sessionmaker + + def __init__(self) -> None: + from ._version import __version__ + self.version = __version__ + + +conf = Config() + + +def set_app_config(app) -> None: + raw_configs = [] + with open(Path(__file__).parent / 'defaults.yml') as cf: + raw_configs.append(cf.read()) + for cf_path in ( + Path(Path.cwd().root) / 'etc' / 'gisaf' / ENV, + Path.home() / '.local' / 'gisaf' / ENV + ): + try: + with open(cf_path.with_suffix('.yml')) as cf: + raw_configs.append(cf.read()) + except FileNotFoundError: + pass + + yaml_config = yaml.safe_load('\n'.join(raw_configs)) + + conf.app = yaml_config['app'] + conf.postgres = yaml_config['postgres'] + conf.storage = yaml_config['storage'] + conf.map = yaml_config['map'] + conf.security = yaml_config['security'] + # create_dirs() + + +# def create_dirs(): +# """ +# Create the directories needed for a proper functioning of the app +# """ +# ## Avoid circular imports +# from treetrail.api_v1 import attachment_types +# for type in attachment_types: +# base_dir = Path(conf.storage['root_attachment_path']) / type +# base_dir.mkdir(parents=True, exist_ok=True) +# logger.info(f'Cache dir: {get_cache_dir()}') +# get_cache_dir().mkdir(parents=True, exist_ok=True) + + +def get_cache_dir() -> Path: + return Path(conf.storage['root_cache_path']) \ No newline at end of file diff --git a/src/database.py b/src/database.py new file mode 100644 index 0000000..cb5bf0d --- /dev/null +++ b/src/database.py @@ -0,0 +1,16 @@ +from sqlalchemy.ext.asyncio import create_async_engine +from sqlmodel.ext.asyncio.session import AsyncSession + +import pandas as pd + +echo = False +pg_url = "postgresql+asyncpg://avgis@localhost/avgis" + +engine = create_async_engine(pg_url, echo=echo) + +async def get_db_session(): + async with AsyncSession(engine) as session: + yield session + +def pandas_query(session, query): + return pd.read_sql_query(query, session.connection()) \ No newline at end of file diff --git a/src/models/authentication.py b/src/models/authentication.py new file mode 100644 index 0000000..1eef017 --- /dev/null +++ b/src/models/authentication.py @@ -0,0 +1,60 @@ +from sqlmodel import Field, SQLModel, MetaData, Relationship + +schema = 'gisaf_admin' +metadata = MetaData(schema=schema) + +class UserRoleLink(SQLModel, table=True): + metadata = metadata + __tablename__: str = 'roles_users' + user_id: int | None = Field( + default=None, foreign_key="user.id", primary_key=True + ) + role_id: int | None = Field( + default=None, foreign_key="role.id", primary_key=True + ) + + +class UserBase(SQLModel): + username: str + email: str + + +class User(UserBase, table=True): + metadata = metadata + id: int | None = Field(default=None, primary_key=True) + roles: list["Role"] = Relationship(back_populates="users", + link_model=UserRoleLink) + password: str | None = None + + +class RoleBase(SQLModel): + name: str = Field(unique=True) + +class RoleWithDescription(RoleBase): + description: str | None + +class Role(RoleWithDescription, table=True): + metadata = metadata + id: int | None = Field(default=None, primary_key=True) + users: list[User] = Relationship(back_populates="roles", + link_model=UserRoleLink) + + +class UserReadNoRoles(UserBase): + id: int + email: str | None + + +class RoleRead(RoleBase): + id: int + users: list[UserReadNoRoles] = [] + + +class RoleReadNoUsers(RoleBase): + id: int + + +class UserRead(UserBase): + id: int + email: str | None + roles: list[RoleReadNoUsers] = [] \ No newline at end of file diff --git a/src/models/category.py b/src/models/category.py new file mode 100644 index 0000000..d3511f7 --- /dev/null +++ b/src/models/category.py @@ -0,0 +1,103 @@ +from typing import Any +from sqlmodel import Field, SQLModel, MetaData, JSON, TEXT, Relationship, Column + +schema = 'gisaf_survey' +metadata = MetaData(schema=schema) + +mapbox_type_mapping = { + 'Point': 'symbol', + 'Line': 'line', + 'Polygon': 'fill', +} + +class CategoryGroup(SQLModel, table=True): + metadata = metadata + name: str = Field(min_length=4, max_length=4, + default=None, primary_key=True) + major: str + long_name: str + + class Admin: + menu = 'Other' + flask_admin_model_view = 'CategoryGroupModelView' + + +class CategoryModelType(SQLModel, table=True): + metadata = metadata + name: str = Field(default=None, primary_key=True) + + class Admin: + menu = 'Other' + flask_admin_model_view = 'MyModelViewWithPrimaryKey' + + +class CategoryBase(SQLModel): + metadata = metadata + + class Admin: + menu = 'Other' + flask_admin_model_view = 'CategoryModelView' + + name: str | None = Field(default=None, primary_key=True) + description: str | None + group: str = Field(min_length=4, max_length=4, + foreign_key="CategoryGroup.name", index=True) + #group_: CategoryGroup = Relationship() + minor_group_1: str = Field(min_length=4, max_length=4, default='----') + minor_group_2: str = Field(min_length=4, max_length=4, default='----') + status: str = Field(min_length=1, max_length=1) + custom: bool | None + auto_import: bool = True + model_type: str = Field(max_length=50, + foreign_key='CategoryModelType.name', default='Point') + long_name: str | None = Field(max_length=50) + style: str | None = Field(sa_column=Column(TEXT)) + symbol: str | None = Field(max_length=1) + mapbox_type_custom: str | None = Field(max_length=32) + mapbox_paint: dict[str, Any] | None = Field(sa_column=Column(JSON, none_as_null=True)) + mapbox_layout: dict[str, Any] | None = Field(sa_column=Column(JSON, none_as_null=True)) + viewable_role: str | None + extra: dict[str, Any] | None = Field(sa_column=Column(JSON, none_as_null=True)) + + +class Category(CategoryBase, table=True): + name: str = Field(default=None, primary_key=True) + + +class CategoryRead(CategoryBase): + name: str + domain = 'V' # Survey + + @property + def layer_name(self): + """ + ISO compliant layer name (see ISO 13567) + :return: str + """ + return '{self.domain}-{self.group:4s}-{self.minor_group_1:4s}-{self.minor_group_2:4s}-{self.status:1s}'.format(self=self) + + @property + def table_name(self): + """ + Table name + :return: + """ + if self.minor_group_2 == '----': + return '{self.domain}_{self.group:4s}_{self.minor_group_1:4s}'.format(self=self) + else: + return '{self.domain}_{self.group:4s}_{self.minor_group_1:4s}_{self.minor_group_2:4s}'.format(self=self) + + @property + def raw_survey_table_name(self): + """ + Table name + :return: + """ + if self.minor_group_2 == '----': + return 'RAW_{self.domain}_{self.group:4s}_{self.minor_group_1:4s}'.format(self=self) + else: + return 'RAW_{self.domain}_{self.group:4s}_{self.minor_group_1:4s}_{self.minor_group_2:4s}'.format(self=self) + + @property + def mapbox_type(self): + return self.mapbox_type_custom or mapbox_type_mapping[self.model_type] diff --git a/src/security.py b/src/security.py new file mode 100644 index 0000000..4ecf08a --- /dev/null +++ b/src/security.py @@ -0,0 +1,138 @@ +from datetime import datetime, timedelta +from passlib.context import CryptContext + +from fastapi import Depends, HTTPException, status +from fastapi.security import OAuth2PasswordBearer +from pydantic import BaseModel +from jose import JWTError, jwt + +from sqlalchemy.future import select + +from .config import conf +from .models.authentication import User as UserInDB + + +# openssl rand -hex 32 +# import secrets +# SECRET_KEY = secrets.token_hex(32) +ALGORITHM: str = "HS256" + + +class Token(BaseModel): + access_token: str + token_type: str + + +class TokenData(BaseModel): + username: str | None = None + + +class User(BaseModel): + username: str + email: str | None = None + full_name: str | None = None + disabled: bool | None = None + + +oauth2_scheme = OAuth2PasswordBearer(tokenUrl="token") + +pwd_context = CryptContext(schemes=["bcrypt"], deprecated="auto") + + +def get_password_hash(password: str): + return pwd_context.hash(password) + + +async def delete_user(username): + async with conf.session_maker.begin() as session: + user_in_db: UserInDB | None = await get_user(username) + if user_in_db is None: + raise SystemExit(f'User {username} does not exist in the database') + await session.delete(user_in_db) + + +async def enable_user(username, enable=True): + async with conf.session_maker.begin() as session: + user_in_db: UserInDB | None = await get_user(username) + if user_in_db is None: + raise SystemExit(f'User {username} does not exist in the database') + user_in_db.disabled = not enable # type: ignore + session.add(user_in_db) + await session.commit() + + +async def create_user(username: str, password: str, full_name: str, + email: str, **kwargs): + async with conf.session_maker.begin() as session: + user_in_db: UserInDB | None = await get_user(username) + if user_in_db is None: + user = UserInDB( + username=username, + password=get_password_hash(password), + full_name=full_name, + email=email, + disabled=False + ) + session.add(user) + else: + user_in_db.full_name = full_name # type: ignore + user_in_db.email = email # type: ignore + user_in_db.password = get_password_hash(password) # type: ignore + await session.commit() + + +async def get_user(username: str) -> (UserInDB | None): + async with conf.session_maker.begin() as session: + req = await session.execute(select(UserInDB).where(UserInDB.username==username)) + return req.scalar() + + +def verify_password(plain_password, hashed_password): + return pwd_context.verify(plain_password, hashed_password) + + +async def get_current_user(token: str = Depends(oauth2_scheme)) -> User: + credentials_exception = HTTPException( + status_code=status.HTTP_401_UNAUTHORIZED, + detail="Could not validate credentials", + headers={"WWW-Authenticate": "Bearer"}, + ) + try: + payload = jwt.decode(token, conf.security['secret_key'], algorithms=[ALGORITHM]) + username: str = payload.get("sub", '') + if username == '': + raise credentials_exception + token_data = TokenData(username=username) + except JWTError: + raise credentials_exception + user = await get_user(username=token_data.username) # type: ignore + if user is None: + raise credentials_exception + return User(username=user.username, # type: ignore + email=user.email, # type: ignore + full_name=user.full_name) # type: ignore + + +async def authenticate_user(username: str, password: str): + user = await get_user(username) + if not user: + return False + if not verify_password(password, user.password): + return False + return user + + +async def get_current_active_user(current_user: User = Depends(get_current_user)): + if current_user.disabled: + raise HTTPException(status_code=400, detail="Inactive user") + return current_user + + +def create_access_token(data: dict, expires_delta: timedelta): + to_encode = data.copy() + expire = datetime.utcnow() + expires_delta + to_encode.update({"exp": expire}) + encoded_jwt = jwt.encode(to_encode, + conf.security['secret_key'], + algorithm=ALGORITHM) + return encoded_jwt diff --git a/tests/__init__.py b/tests/__init__.py new file mode 100644 index 0000000..e69de29