Split into docker containers

patches/back/default_config.toml

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+# Database
+SQLALCHEMY_DATABASE_URI = "postgresql+psycopg2://postgres:postgres@db:5432/referentielsdb"
+SQLALCHEMY_TRACK_MODIFICATIONS = false
+
+# JWT Auth
+JWT_SECRET_KEY = 'jwt-secret-string'
+JWT_BLACKLIST_ENABLED = true
+JWT_BLACKLIST_TOKEN_CHECKS = ['access', 'refresh']
+
+# Application
+appName = 'GeoNature-citizen'                               # Application name in the home page
+DEFAULT_LANGUAGE = 'fr'
+
+# Debug
+DEBUG = false
+SQLALCHEMY_DEBUG_LEVEL = 'WARNING'
+
+# URL_APPLICATION = "http://mydomain.org"         # Replace mydomain.org by your domain
+URL_APPLICATION = "http://taxhub:5000"
+API_TAXHUB = "http://taxhub:5000/api/"
+# API_TAXHUB = "http://mytaxhub.org/api/"         # Replace mytaxhub.org by your TaxHub url
+
+
+
+SECRET_KEY = 'MyS3cr3tK3y'
+CONFIRM_MAIL_SALT = 'your-secret-salt' # secret salt for corfirm mail token
+
+MEDIA_FOLDER = 'media'
+
+
+[RESET_PASSWD]
+    SUBJECT = "Link"
+    FROM = 'contact@geonature-citizen.fr'
+    TEXT_TEMPLATE = '''
+    Bonjour,\r\nVoici votre nouveau mot de passe :\r\n{passwd}\r\n"{app_url}
+    '''
+    HTML_TEMPLATE = '''
+    Bonjour,<br /><br />Voici votre nouveau mot de passe :<br />
+    {passwd}
+    <br /><br />"
+    <a href="{app_url}">Connexion</a>'
+    '''
+
+[CONFIRM_EMAIL]
+    SUBJECT = "Activez votre compte"
+    FROM = 'contact@geonature-citizen.fr'
+    HTML_TEMPLATE = '''<p> Bonjour,</p><br /><p>Nous vous confirmons que votre compte a bien été créé.</p>
+     <p> Afin d'activer votre compte veuillez <a href="{activate_url}">cliquer ici.</a>
+     <p>Nous vous souhaitons la bienvenue sur notre site.</p><br />
+     <p>Bien à vous.</p>
+    '''
+
+[MAIL]
+    MAIL_USE_SSL = false
+    MAIL_STARTTLS = true
+    MAIL_HOST = 'smtpd host'
+    MAIL_PORT = 493   # mandatory SSL port
+    MAIL_AUTH_LOGIN = 'smtpd/relay host username'
+    MAIL_AUTH_PASSWD = 'smtpd/relay host password'
+
+
+# API flasgger main config

patches/back/requirements.txt

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+certifi==2019.6.16
+chardet==3.0.4
+Click==7.0
+colorlog==4.0.2
+flasgger==0.9.3
+Flask==1.1.1
+Flask-Admin==1.5.3
+Flask-CKEditor==0.4.3
+Flask-Cors==3.0.8
+Flask-JWT-Extended==3.21.0
+Flask-SQLAlchemy==2.4.0
+GeoAlchemy2==0.6.3
+geojson==2.5.0
+gunicorn==20.0.4
+idna==2.8
+itsdangerous==1.1.0
+Jinja2==2.10.1
+jsonschema==2.6.0
+MarkupSafe==1.1.1
+mistune==0.8.4
+passlib==1.7.1
+psycopg2-binary==2.8.3
+PyJWT==1.7.1
+PyYAML==5.1.2
+requests==2.22.0
+Shapely==1.7.1
+six==1.12.0
+SQLAlchemy==1.3.7
+toml==0.10.0
+urllib3==1.25.3
+Werkzeug==0.15.5
+WTForms==2.2.1
+gunicorn==20.0.4
+httplib2==0.19.0
+xlwt==1.3.0

patches/back/server.py

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+import sys
+import os
+import logging
+
+from flask import Flask, current_app
+from flask_cors import CORS
+
+from gncitizen.utils.env import (
+    db,
+    list_and_import_gnc_modules,
+    jwt,
+    swagger,
+    admin,
+    ckeditor,
+)
+from gncitizen.utils.init_data import create_schemas, populate_modules
+from gncitizen import __version__
+
+basedir = os.path.abspath(os.path.dirname(__file__))
+
+
+class ReverseProxied(object):
+    def __init__(self, app, script_name=None, scheme=None, server=None):
+        self.app = app
+        self.script_name = script_name
+        self.scheme = scheme
+        self.server = server
+
+    def __call__(self, environ, start_response):
+        script_name = environ.get("HTTP_X_SCRIPT_NAME", "") or self.script_name
+        if script_name:
+            environ["SCRIPT_NAME"] = script_name
+            path_info = environ["PATH_INFO"]
+            if path_info.startswith(script_name):
+                environ["PATH_INFO"] = path_info[len(script_name) :]
+        scheme = environ.get("HTTP_X_SCHEME", "") or self.scheme
+        if scheme:
+            environ["wsgi.url_scheme"] = scheme
+        server = environ.get("HTTP_X_FORWARDED_SERVER", "") or self.server
+        if server:
+            environ["HTTP_HOST"] = server
+        return self.app(environ, start_response)
+
+
+def get_app(config, _app=None, with_external_mods=True, url_prefix="/api"):
+    # Make sure app is a singleton
+    if _app is not None:
+        return _app
+
+    app = Flask(__name__)
+    app.config.update(config)
+
+    if app.config["DEBUG"]:
+        from flask.logging import default_handler
+        import colorlog
+
+        handler = colorlog.StreamHandler()
+        handler.setFormatter(
+            colorlog.ColoredFormatter(
+                """%(log_color)s%(asctime)s %(levelname)s:%(name)s:%(message)s [in %(pathname)s:%(lineno)d]"""
+            )
+        )
+
+        logger = logging.getLogger("werkzeug")
+        logger.addHandler(handler)
+        app.logger.removeHandler(default_handler)
+
+        for l in logging.Logger.manager.loggerDict.values():
+            if hasattr(l, "handlers"):
+                l.handlers = [handler]
+
+    # else:
+    #     # TODO: sourced from app.config['LOGGING']
+    #     logging.basicConfig()
+    #     logger = logging.getLogger()
+    #     logger.setLevel(logging.INFO)
+    logging.getLogger("sqlalchemy.engine").setLevel(
+        getattr(sys.modules["logging"], app.config["SQLALCHEMY_DEBUG_LEVEL"])
+    )
+
+    CORS(app, supports_credentials=True)
+    # app.config['PROPAGATE_EXCEPTIONS'] = False
+    # ... brings back those cors headers on error response in debug mode
+    # to trace client-side error handling
+    # but drops the embedded debugger ¯\_(ツ)_/¯
+    # https://github.com/corydolphin/flask-cors/issues/67
+    # https://stackoverflow.com/questions/29825235/getting-cors-headers-in-a-flask-500-error
+
+    # Bind app to DB
+    db.init_app(app)
+
+    # JWT Auth
+    jwt.init_app(app)
+
+    swagger.init_app(app)
+
+    admin.init_app(app)
+
+    ckeditor.init_app(app)
+
+    with app.app_context():
+
+        from gncitizen.core.users.routes import routes
+
+        app.register_blueprint(routes, url_prefix=url_prefix)
+
+        from gncitizen.core.commons.routes import routes
+
+        app.register_blueprint(routes, url_prefix=url_prefix)
+
+        from gncitizen.core.observations.routes import routes
+
+        app.register_blueprint(routes, url_prefix=url_prefix)
+
+        from gncitizen.core.ref_geo.routes import routes
+
+        app.register_blueprint(routes, url_prefix=url_prefix)
+
+        from gncitizen.core.badges.routes import routes
+
+        app.register_blueprint(routes, url_prefix=url_prefix)
+
+        from gncitizen.core.taxonomy.routes import routes
+
+        app.register_blueprint(routes, url_prefix=url_prefix)
+
+        from gncitizen.core.sites.routes import routes
+
+        app.register_blueprint(routes, url_prefix=url_prefix + "/sites")
+
+        CORS(app, supports_credentials=True)
+
+        # Chargement des mosdules tiers
+        if with_external_mods:
+            for conf, manifest, module in list_and_import_gnc_modules(app):
+                try:
+                    prefix = url_prefix + conf["api_url"]
+                except Exception as e:
+                    current_app.logger.debug(e)
+                    prefix = url_prefix
+                app.register_blueprint(
+                    module.backend.blueprint.blueprint, url_prefix=prefix
+                )
+                try:
+                    module.backend.models.create_schema(db)
+                except Exception as e:
+                    current_app.logger.debug(e)
+                # chargement de la configuration
+                # du module dans le blueprint.config
+                module.backend.blueprint.blueprint.config = conf
+                app.config[manifest["module_name"]] = conf
+
+        _app = app
+
+        create_schemas(db)
+        db.create_all()
+        populate_modules(db)
+
+
+    return app

patches/back/wsgi.py

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+"""
+    Give a unique entry point for gunicorn
+"""
+
+from gncitizen.utils.env import load_config
+from server import get_app
+
+# get the app config file
+config = load_config()
+
+# give the app context from server.py in a app object
+app = get_app(config)
+port = app.config["API_PORT"] if app.config.get("API_PORT", False) else 5002
+
+if __name__ == "__main__":
+    app.debug = True
+    app.run(host="0.0.0.0", port=port)