merge avec cli_update_db

conf/env.example

@@ -0,0 +1,2 @@
+export HALFORM_SECRET="halform_secret"
+export HALFORM_DSN="dbname=api user=api password= host=127.0.0.1 port=5432"

halfapi/app.py

@@ -2,6 +2,7 @@
 # builtins
 import importlib
 import sys
+from os import environ
 
 # asgi framework
 from starlette.applications import Starlette
@@ -220,9 +221,15 @@ def startup():
 async def root(request):
     return JSONResponse({'payload': request.payload})
 
+def check_conf():
+    if not environ.get('HALFORM_SECRET', False):
+        print('Missing HALFORM_SECRET variable from configuration')
+    if not environ.get('HALFORM_DSN', False):
+        print('Missing HALFORM_DSN variable from configuration')
+
 app = Starlette(
     middleware=[
-        Middleware(AuthenticationMiddleware, backend=JWTAuthenticationBackend(secret_key=open('/etc/half_orm/secret').read())),
+        Middleware(AuthenticationMiddleware, backend=JWTAuthenticationBackend(secret_key=environ.get('HALFORM_DSN'))),
         Middleware(AclCallerMiddleware),
     ],
     on_startup=[startup],

halfapi/cli.py

@@ -18,7 +18,7 @@ from .models.api.acl_function import AclFunction
 from .models.api.acl import Acl
 
 # module libraries
-from halfapi.app import check_conf
+from .app import check_conf
 
 HALFORM_DSN=''
 HALFORM_SECRET=''
@@ -36,8 +36,13 @@ def cli(ctx):
 @click.option('--port', default='8000')
 @click.option('--debug', default=False)
 @click.option('--dev', default=True)
+@click.option('--dbname', default='api')
+@click.option('--dbhost', default='127.0.0.1')
+@click.option('--dbport', default=5432)
+@click.option('--dbuser', default='api')
+@click.option('--dbpassword', default='')
 @cli.command()
-def run(host, port, debug, dev):
+def run(host, port, debug, dev, dbname, dbhost, dbport, dbuser, dbpassword):
     if dev:
         debug = True
         reload = True
@@ -46,6 +51,20 @@ def run(host, port, debug, dev):
         reload = False
         log_level = 'info'
 
+    # Helper function to convert the string-based dsn to a dict
+    dsntodict = lambda dsn: dict(
+        map(lambda x:
+            map(lambda y: y.strip("'\""),
+            x.split('=')
+            ),
+        dsn.split()))
+
+    dicttodsn = lambda dsn_d: (' '.join(
+        [ '{key}={val}'.format(key=key, val=dsn_d[key])
+          for key in dsn_d.keys()
+        ]
+    ))
+
     click.echo('Launching application with default parameters')
     click.echo(f'''Parameters : \n
     Host : {host}

poetry.lock

@@ -0,0 +1,472 @@
+[[package]]
+category = "dev"
+description = "Atomic file writes."
+name = "atomicwrites"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+version = "1.4.0"
+
+[[package]]
+category = "dev"
+description = "Classes Without Boilerplate"
+name = "attrs"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+version = "19.3.0"
+
+[package.extras]
+azure-pipelines = ["coverage", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "zope.interface", "pytest-azurepipelines"]
+dev = ["coverage", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "zope.interface", "sphinx", "pre-commit"]
+docs = ["sphinx", "zope.interface"]
+tests = ["coverage", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "zope.interface"]
+
+[[package]]
+category = "dev"
+description = "Python package for providing Mozilla's CA Bundle."
+name = "certifi"
+optional = false
+python-versions = "*"
+version = "2020.6.20"
+
+[[package]]
+category = "dev"
+description = "Universal encoding detector for Python 2 and 3"
+name = "chardet"
+optional = false
+python-versions = "*"
+version = "3.0.4"
+
+[[package]]
+category = "main"
+description = "Composable command line interface toolkit"
+name = "click"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
+version = "7.1.2"
+
+[[package]]
+category = "dev"
+description = "Cross-platform colored terminal text."
+marker = "sys_platform == \"win32\""
+name = "colorama"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
+version = "0.4.3"
+
+[[package]]
+category = "main"
+description = "A pure-Python, bring-your-own-I/O implementation of HTTP/1.1"
+name = "h11"
+optional = false
+python-versions = "*"
+version = "0.9.0"
+
+[[package]]
+category = "main"
+description = "A simple ORM in Python only dealing with the DML part of SQL."
+name = "half-orm"
+optional = false
+python-versions = "*"
+version = "0.2.0"
+
+[package.dependencies]
+PyYAML = "*"
+psycopg2-binary = "*"
+
+[package.source]
+reference = "942da6ccee989f4de33c553b37c8bcbfbd33e19c"
+type = "git"
+url = "git@gite.lirmm.fr:/newsi/halfORM.git"
+[[package]]
+category = "main"
+description = "A collection of framework independent HTTP protocol utils."
+marker = "sys_platform != \"win32\" and sys_platform != \"cygwin\" and platform_python_implementation != \"PyPy\""
+name = "httptools"
+optional = false
+python-versions = "*"
+version = "0.1.1"
+
+[package.extras]
+test = ["Cython (0.29.14)"]
+
+[[package]]
+category = "dev"
+description = "Internationalized Domain Names in Applications (IDNA)"
+name = "idna"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+version = "2.10"
+
+[[package]]
+category = "dev"
+description = "Read metadata from Python packages"
+marker = "python_version < \"3.8\""
+name = "importlib-metadata"
+optional = false
+python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,>=2.7"
+version = "1.7.0"
+
+[package.dependencies]
+zipp = ">=0.5"
+
+[package.extras]
+docs = ["sphinx", "rst.linker"]
+testing = ["packaging", "pep517", "importlib-resources (>=1.3)"]
+
+[[package]]
+category = "dev"
+description = "More routines for operating on iterables, beyond itertools"
+name = "more-itertools"
+optional = false
+python-versions = ">=3.5"
+version = "8.4.0"
+
+[[package]]
+category = "dev"
+description = "plugin and hook calling mechanisms for python"
+name = "pluggy"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+version = "0.13.1"
+
+[package.dependencies]
+[package.dependencies.importlib-metadata]
+python = "<3.8"
+version = ">=0.12"
+
+[package.extras]
+dev = ["pre-commit", "tox"]
+
+[[package]]
+category = "main"
+description = "psycopg2 - Python-PostgreSQL Database Adapter"
+name = "psycopg2-binary"
+optional = false
+python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*"
+version = "2.8.5"
+
+[[package]]
+category = "dev"
+description = "library with cross-python path, ini-parsing, io, code, log facilities"
+name = "py"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+version = "1.9.0"
+
+[[package]]
+category = "main"
+description = "JSON Web Token implementation in Python"
+name = "pyjwt"
+optional = false
+python-versions = "*"
+version = "1.7.1"
+
+[package.extras]
+crypto = ["cryptography (>=1.4)"]
+flake8 = ["flake8", "flake8-import-order", "pep8-naming"]
+test = ["pytest (>=4.0.1,<5.0.0)", "pytest-cov (>=2.6.0,<3.0.0)", "pytest-runner (>=4.2,<5.0.0)"]
+
+[[package]]
+category = "dev"
+description = "pytest: simple powerful testing with Python"
+name = "pytest"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*"
+version = "3.10.1"
+
+[package.dependencies]
+atomicwrites = ">=1.0"
+attrs = ">=17.4.0"
+colorama = "*"
+more-itertools = ">=4.0.0"
+pluggy = ">=0.7"
+py = ">=1.5.0"
+setuptools = "*"
+six = ">=1.10.0"
+
+[[package]]
+category = "main"
+description = "YAML parser and emitter for Python"
+name = "pyyaml"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
+version = "5.3.1"
+
+[[package]]
+category = "dev"
+description = "Python HTTP for Humans."
+name = "requests"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*"
+version = "2.24.0"
+
+[package.dependencies]
+certifi = ">=2017.4.17"
+chardet = ">=3.0.2,<4"
+idna = ">=2.5,<3"
+urllib3 = ">=1.21.1,<1.25.0 || >1.25.0,<1.25.1 || >1.25.1,<1.26"
+
+[package.extras]
+security = ["pyOpenSSL (>=0.14)", "cryptography (>=1.3.4)"]
+socks = ["PySocks (>=1.5.6,<1.5.7 || >1.5.7)", "win-inet-pton"]
+
+[[package]]
+category = "dev"
+description = "Python 2 and 3 compatibility utilities"
+name = "six"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*"
+version = "1.15.0"
+
+[[package]]
+category = "main"
+description = "The little ASGI library that shines."
+name = "starlette"
+optional = false
+python-versions = ">=3.6"
+version = "0.13.4"
+
+[package.extras]
+full = ["aiofiles", "graphene", "itsdangerous", "jinja2", "python-multipart", "pyyaml", "requests", "ujson"]
+
+[[package]]
+category = "dev"
+description = "HTTP library with thread-safe connection pooling, file post, and more."
+name = "urllib3"
+optional = false
+python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, <4"
+version = "1.25.9"
+
+[package.extras]
+brotli = ["brotlipy (>=0.6.0)"]
+secure = ["certifi", "cryptography (>=1.3.4)", "idna (>=2.0.0)", "pyOpenSSL (>=0.14)", "ipaddress"]
+socks = ["PySocks (>=1.5.6,<1.5.7 || >1.5.7,<2.0)"]
+
+[[package]]
+category = "main"
+description = "The lightning-fast ASGI server."
+name = "uvicorn"
+optional = false
+python-versions = "*"
+version = "0.11.5"
+
+[package.dependencies]
+click = ">=7.0.0,<8.0.0"
+h11 = ">=0.8,<0.10"
+httptools = ">=0.1.0,<0.2.0"
+uvloop = ">=0.14.0"
+websockets = ">=8.0.0,<9.0.0"
+
+[package.extras]
+watchgodreload = ["watchgod (>=0.6,<0.7)"]
+
+[[package]]
+category = "main"
+description = "Fast implementation of asyncio event loop on top of libuv"
+marker = "sys_platform != \"win32\" and sys_platform != \"cygwin\" and platform_python_implementation != \"PyPy\""
+name = "uvloop"
+optional = false
+python-versions = "*"
+version = "0.14.0"
+
+[[package]]
+category = "main"
+description = "An implementation of the WebSocket Protocol (RFC 6455 & 7692)"
+name = "websockets"
+optional = false
+python-versions = ">=3.6.1"
+version = "8.1"
+
+[[package]]
+category = "dev"
+description = "Backport of pathlib-compatible object wrapper for zip files"
+marker = "python_version < \"3.8\""
+name = "zipp"
+optional = false
+python-versions = ">=3.6"
+version = "3.1.0"
+
+[package.extras]
+docs = ["sphinx", "jaraco.packaging (>=3.2)", "rst.linker (>=1.9)"]
+testing = ["jaraco.itertools", "func-timeout"]
+
+[metadata]
+content-hash = "3edb86728d2a823eabbe056a2ff9581fd2d80aa8fe7fcbba4ac9b3307a6280c0"
+python-versions = "^3.7.0"
+
+[metadata.files]
+atomicwrites = [
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+]
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+]
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+]
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+]
+half-orm = []
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requirements.txt

@@ -2,3 +2,4 @@ starlette
 uvicorn
 jwt
 half_orm @ git+ssh://git@gite.lirmm.fr/newsi/halfORM.git
+organigramme @ git+ssh://git@gite.lirmm.fr/api/newsi/halfapi.git

setup.py

@@ -51,7 +51,8 @@ setup(
         "starlette",
         "uvicorn"],
     extras_require={
-        "tests":["pytest", "requests"]
+        "tests":["pytest", "requests"],
+        "domains":["organigramme"]
     },
     entry_points={
         "console_scripts":[