def signup():
"""Creates a new user for Genocrowd
"""
new_user = {}
local_auth = LocalAuth(ca, session)
data = request.get_json()
local_auth.check_inputs(data)
if not local_auth.get_error():
# FIXME is it safe to pass role? where does it come from?
new_user = local_auth.add_user_to_database(data['username'],
data['email'],
data['password'],
data['grade'], data['role'])
new_user['_id'] = str(new_user['_id'])
session['user'] = new_user
return kill_apollo_session(
jsonify({
'error': local_auth.get_error(),
'errorMessage': local_auth.get_error_message(),
'user': new_user
}))
def create_app(config='config/genocrowd.ini',
app_name='genocrowd',
blueprints=None):
"""Create the Genocrowd app
Parameters
----------
config : str, optional
Path to the config file
app_name : str, optional
Application name
blueprints : None, optional
Flask blueprints
Returns
-------
Flask
Genocrowd Flask application
"""
conf = configparser.ConfigParser()
conf.read(config)
sentry_dsn = None
try:
sentry_dsn = conf['sentry']['server_dsn']
except Exception:
pass
if sentry_dsn:
version = get_distribution('genocrowd').version
name = get_distribution('genocrowd').project_name
sentry_sdk.init(dsn=sentry_dsn,
release="{}@{}".format(name, version),
integrations=[FlaskIntegration(),
CeleryIntegration()])
app = Flask(app_name, static_folder='static', template_folder='templates')
app.iniconfig = FlaskIni()
with app.app_context():
app.iniconfig.read(config)
proxy_path = None
try:
proxy_path = app.iniconfig.get('genocrowd', 'reverse_proxy_path')
app.config['REVERSE_PROXY_PATH'] = proxy_path
except Exception:
pass
mongo_dbname = app.iniconfig.get('flask', 'mongo_dbname')
app.config['MONGO_DBNAME'] = mongo_dbname
mongo_uri = app.iniconfig.get('flask', 'mongo_uri')
app.config['MONGO_URI'] = mongo_uri
if not mongo_uri:
raise Exception("Missing mongo_uri in config file")
if not mongo_dbname:
raise Exception("Missing mongo_dbname in config file")
app.mongo = PyMongo(app)
app.bcrypt = Bcrypt(app)
users = app.mongo.db.users
app.mongo.db.genes
app.mongo.db.answers
groups = app.mongo.db.groups
app.genocrowd_admin_email = app.iniconfig.get('genocrowd',
'genocrowd_admin_email')
app.genocrowd_admin_password = app.iniconfig.get(
'genocrowd', 'genocrowd_admin_password')
app.apollo_admin_email = app.iniconfig.get('genocrowd',
'apollo_admin_email')
app.apollo_admin_password = app.iniconfig.get('genocrowd',
'apollo_admin_password')
app.apollo_dataset_path = app.iniconfig.get('genocrowd',
'apollo_dataset_path')
app.apollo_org_id = app.iniconfig.get('genocrowd', 'apollo_org_id')
app.apollo_url = app.iniconfig.get('genocrowd', 'apollo_url')
# We don't want ending slash
if app.apollo_url.endswith("/"):
app.apollo_url = app.apollo_url[:-1]
app.apollo_url_ext = app.iniconfig.get('genocrowd', 'apollo_url_ext')
# We don't want ending slash
if app.apollo_url_ext.endswith("/"):
app.apollo_url_ext = app.apollo_url_ext[:-1]
configure_logging(app)
if users.find_one() is None:
# Create default admin user
local_auth = LocalAuth(app, None)
local_auth.add_user_to_database('admin', app.genocrowd_admin_email,
app.genocrowd_admin_password,
'admin', 'admin')
if blueprints is None:
blueprints = BLUEPRINTS
for blueprint in blueprints:
app.register_blueprint(blueprint)
if groups.find_one() is None:
# Initiate the groups database
data = Data(app, None)
data.initiate_groups()
if proxy_path:
ReverseProxyPrefixFix(app)
return app