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Source code for galaxy.webapps.galaxy.controllers.user
"""
Contains the user interface in the Universe class
"""
import logging
from datetime import datetime, timedelta
from markupsafe import escape
from six.moves.urllib.parse import unquote
from sqlalchemy import or_
from sqlalchemy.orm.exc import NoResultFound
from galaxy import (
util,
web
)
from galaxy.exceptions import Conflict
from galaxy.managers import users
from galaxy.queue_worker import send_local_control_task
from galaxy.security.validate_user_input import (
validate_email,
validate_password,
validate_publicname
)
from galaxy.web import expose_api_anonymous_and_sessionless
from galaxy.web import url_for
from galaxy.webapps.base.controller import (
BaseUIController,
CreatesApiKeysMixin,
UsesFormDefinitionsMixin
)
log = logging.getLogger(__name__)
def _filtered_registration_params_dict(payload):
return {k: v for (k, v) in payload.items() if k in ['email', 'username', 'password', 'confirm', 'subscribe']}
[docs]class User(BaseUIController, UsesFormDefinitionsMixin, CreatesApiKeysMixin):
installed_len_files = None
[docs] def __init__(self, app):
super(User, self).__init__(app)
self.user_manager = users.UserManager(app)
def __handle_role_and_group_auto_creation(self, trans, user, roles, auto_create_roles=False,
auto_create_groups=False, auto_assign_roles_to_groups_only=False):
for role_name in roles:
role = None
group = None
if auto_create_roles:
try:
# first try to find the role
role = trans.app.security_agent.get_role(role_name)
except NoResultFound:
# or create it
role, num_in_groups = trans.app.security_agent.create_role(
role_name, "Auto created upon user registration", [], [],
create_group_for_role=auto_create_groups)
if auto_create_groups:
trans.log_event("Created role and group for auto-registered user.")
else:
trans.log_event("Created role for auto-registered user.")
if auto_create_groups:
# only create a group if not existing yet
try:
group = self.sa_session.query(trans.app.model.Group).filter(
trans.app.model.Group.table.c.name == role_name).first()
except NoResultFound:
group = self.model.Group(name=role_name)
self.sa_session.add(group)
trans.app.security_agent.associate_user_group(user, group)
if auto_assign_roles_to_groups_only and group and role:
trans.log_event("Assigning role to group only")
trans.app.security_agent.associate_group_role(group, role)
elif not auto_assign_roles_to_groups_only and role:
trans.log_event("Assigning role to newly created user")
trans.app.security_agent.associate_user_role(user, role)
def __autoregistration(self, trans, login, password):
"""
Does the autoregistration if enabled. Returns a message
"""
try:
autoreg = trans.app.auth_manager.check_auto_registration(trans, login, password)
except Conflict as conflict:
return "Auto-registration failed, {}".format(conflict), None
user = None
if autoreg["auto_reg"]:
email = autoreg["email"]
username = autoreg["username"]
message = " ".join([validate_email(trans, email, allow_empty=True),
validate_publicname(trans, username)]).rstrip()
if not message:
user = self.user_manager.create(email=email, username=username, password="")
if trans.app.config.user_activation_on:
self.user_manager.send_activation_email(trans, email, username)
# The handle_user_login() method has a call to the history_set_default_permissions() method
# (needed when logging in with a history), user needs to have default permissions set before logging in
if not trans.user_is_admin:
trans.handle_user_login(user)
trans.log_event("User (auto) created a new account")
trans.log_event("User logged in")
if "attributes" in autoreg and "roles" in autoreg["attributes"]:
self.__handle_role_and_group_auto_creation(
trans, user, autoreg["attributes"]["roles"],
auto_create_groups=autoreg["auto_create_groups"],
auto_create_roles=autoreg["auto_create_roles"],
auto_assign_roles_to_groups_only=autoreg["auto_assign_roles_to_groups_only"])
else:
message = "Auto-registration failed, contact your local Galaxy administrator. %s" % message
else:
message = "No such user or invalid password."
return message, user
[docs] @expose_api_anonymous_and_sessionless
def login(self, trans, payload={}, **kwd):
return self.__validate_login(trans, payload, **kwd)
def __validate_login(self, trans, payload={}, **kwd):
'''Handle Galaxy Log in'''
if not payload:
payload = kwd
message = trans.check_csrf_token(payload)
if message:
return self.message_exception(trans, message)
login = payload.get("login")
password = payload.get("password")
redirect = payload.get("redirect")
status = None
if not login or not password:
return self.message_exception(trans, "Please specify a username and password.")
user = trans.sa_session.query(trans.app.model.User).filter(or_(
trans.app.model.User.table.c.email == login,
trans.app.model.User.table.c.username == login
)).first()
log.debug("trans.app.config.auth_config_file: %s" % trans.app.config.auth_config_file)
if user is None:
message, user = self.__autoregistration(trans, login, password)
if message:
return self.message_exception(trans, message)
elif user.deleted:
message = "This account has been marked deleted, contact your local Galaxy administrator to restore the account."
if trans.app.config.error_email_to is not None:
message += " Contact: %s." % trans.app.config.error_email_to
return self.message_exception(trans, message, sanitize=False)
elif user.external:
message = "This account was created for use with an external authentication method, contact your local Galaxy administrator to activate it."
if trans.app.config.error_email_to is not None:
message += " Contact: %s." % trans.app.config.error_email_to
return self.message_exception(trans, message, sanitize=False)
elif not trans.app.auth_manager.check_password(user, password):
return self.message_exception(trans, "Invalid password.")
elif trans.app.config.user_activation_on and not user.active: # activation is ON and the user is INACTIVE
if (trans.app.config.activation_grace_period != 0): # grace period is ON
if self.is_outside_grace_period(trans, user.create_time): # User is outside the grace period. Login is disabled and he will have the activation email resent.
message, status = self.resend_activation_email(trans, user.email, user.username)
return self.message_exception(trans, message, sanitize=False)
else: # User is within the grace period, let him log in.
trans.handle_user_login(user)
trans.log_event("User logged in")
else: # Grace period is off. Login is disabled and user will have the activation email resent.
message, status = self.resend_activation_email(trans, user.email, user.username)
return self.message_exception(trans, message, sanitize=False)
else: # activation is OFF
pw_expires = trans.app.config.password_expiration_period
if pw_expires and user.last_password_change < datetime.today() - pw_expires:
# Password is expired, we don't log them in.
return {"message": "Your password has expired. Please reset or change it to access Galaxy.", "status": "warning", "expired_user": trans.security.encode_id(user.id)}
trans.handle_user_login(user)
trans.log_event("User logged in")
if pw_expires and user.last_password_change < datetime.today() - timedelta(days=pw_expires.days / 10):
# If password is about to expire, modify message to state that.
expiredate = datetime.today() - user.last_password_change + pw_expires
return {"message": "Your password will expire in %s day(s)." % expiredate.days, "status": "warning"}
return {"message": "Success.", "redirect": self.__get_redirect_url(redirect)}
[docs] @web.expose
def resend_verification(self, trans):
"""
Exposed function for use outside of the class. E.g. when user click on the resend link in the masthead.
"""
message, status = self.resend_activation_email(trans, None, None)
if status:
return trans.show_ok_message(message)
else:
return trans.show_error_message(message)
[docs] def resend_activation_email(self, trans, email, username):
"""
Function resends the verification email in case user wants to log in with an inactive account or he clicks the resend link.
"""
if email is None: # User is coming from outside registration form, load email from trans
email = trans.user.email
if username is None: # User is coming from outside registration form, load email from trans
username = trans.user.username
is_activation_sent = self.user_manager.send_activation_email(trans, email, username)
if is_activation_sent:
message = 'This account has not been activated yet. The activation link has been sent again. Please check your email address <b>%s</b> including the spam/trash folder. <a target="_top" href="%s">Return to the home page</a>.' % (escape(email), url_for('/'))
else:
message = 'This account has not been activated yet but we are unable to send the activation link. Please contact your local Galaxy administrator. <a target="_top" href="%s">Return to the home page</a>.' % url_for('/')
if trans.app.config.error_email_to is not None:
message += ' Error contact: %s.' % trans.app.config.error_email_to
return message, is_activation_sent
[docs] def is_outside_grace_period(self, trans, create_time):
"""
Function checks whether the user is outside the config-defined grace period for inactive accounts.
"""
# Activation is forced and the user is not active yet. Check the grace period.
activation_grace_period = trans.app.config.activation_grace_period
delta = timedelta(hours=int(activation_grace_period))
time_difference = datetime.utcnow() - create_time
return (time_difference > delta or activation_grace_period == 0)
[docs] @web.expose
def logout(self, trans, logout_all=False, **kwd):
message = trans.check_csrf_token(kwd)
if message:
return self.message_exception(trans, message)
if trans.user:
# Queue a quota recalculation (async) task -- this takes a
# while sometimes, so we don't want to block on logout.
send_local_control_task(trans.app,
"recalculate_user_disk_usage",
kwargs={"user_id": trans.security.encode_id(trans.user.id)})
# Since logging an event requires a session, we'll log prior to ending the session
trans.log_event("User logged out")
trans.handle_user_logout(logout_all=logout_all)
[docs] @expose_api_anonymous_and_sessionless
def create(self, trans, payload={}, **kwd):
if not payload:
payload = kwd
message = trans.check_csrf_token(payload)
if message:
return self.message_exception(trans, message)
user, message = self.user_manager.register(trans, **_filtered_registration_params_dict(payload))
if message:
return self.message_exception(trans, message, sanitize=False)
elif user and not trans.user_is_admin:
trans.handle_user_login(user)
trans.log_event("User created a new account")
trans.log_event("User logged in")
return {"message": "Success."}
[docs] @web.expose
def activate(self, trans, **kwd):
"""
Check whether token fits the user and then activate the user's account.
"""
params = util.Params(kwd, sanitize=False)
email = params.get('email', None)
if email is not None:
email = unquote(email)
activation_token = params.get('activation_token', None)
if email is None or activation_token is None:
# We don't have the email or activation_token, show error.
return trans.show_error_message("You are using an invalid activation link. Try to log in and we will send you a new activation email. <br><a href='%s'>Go to login page.</a>") % web.url_for(controller="root", action="index")
else:
# Find the user
user = trans.sa_session.query(trans.app.model.User).filter(trans.app.model.User.table.c.email == email).first()
if not user:
# Probably wrong email address
return trans.show_error_message("You are using an invalid activation link. Try to log in and we will send you a new activation email. <br><a href='%s'>Go to login page.</a>") % web.url_for(controller="root", action="index")
# If the user is active already don't try to activate
if user.active is True:
return trans.show_ok_message("Your account is already active. Nothing has changed. <br><a href='%s'>Go to login page.</a>") % web.url_for(controller='root', action='index')
if user.activation_token == activation_token:
user.activation_token = None
user.active = True
trans.sa_session.add(user)
trans.sa_session.flush()
return trans.show_ok_message("Your account has been successfully activated! <br><a href='%s'>Go to login page.</a>") % web.url_for(controller='root', action='index')
else:
# Tokens don't match. Activation is denied.
return trans.show_error_message("You are using an invalid activation link. Try to log in and we will send you a new activation email. <br><a href='%s'>Go to login page.</a>") % web.url_for(controller='root', action='index')
return
[docs] @expose_api_anonymous_and_sessionless
def change_password(self, trans, payload={}, **kwd):
"""
Allows to change own password.
:type payload: dict
:param payload: dictionary structure containing:
* id: encoded user id
* current: current user password
* token: temporary token to change password (instead of id and current)
* password: new password
* confirm: new password (confirmation)
"""
user, message = self.user_manager.change_password(trans, **payload)
if user is None:
return self.message_exception(trans, message)
trans.handle_user_login(user)
return {"message": "Password has been changed."}
[docs] @expose_api_anonymous_and_sessionless
def reset_password(self, trans, payload={}, **kwd):
"""Reset the user's password. Send an email with token that allows a password change."""
message = self.user_manager.send_reset_email(trans, payload)
if message:
return self.message_exception(trans, message)
return {"message": "Reset link has been sent to your email."}
def __validate(self, trans, email, password, confirm, username):
message = "\n".join([validate_email(trans, email),
validate_password(trans, password, confirm),
validate_publicname(trans, username)]).rstrip()
return message
def __get_redirect_url(self, redirect):
if not redirect or redirect == "None":
return None
root_url = url_for('/', qualified=True)
# compare urls, to prevent a redirect from pointing (directly) outside of galaxy
# or to enter a logout/login loop
if not util.compare_urls(root_url, redirect, compare_path=False) or util.compare_urls(url_for(controller='user', action='logout', qualified=True), redirect):
log.warning('Redirect URL is outside of Galaxy, will redirect to Galaxy root instead: %s', redirect)
redirect = root_url
elif util.compare_urls(url_for(controller='user', action='logout', qualified=True), redirect):
redirect = root_url
return redirect