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authorFrederick Muriuki Muriithi2024-03-06 14:57:54 +0300
committerFrederick Muriuki Muriithi2024-03-06 14:57:54 +0300
commitb63b91cf52c148c6f7091e3845bb3fdb11052d62 (patch)
tree8542d4860383a8e169e08f38f93320f7eb0036e8 /gn2
parentb14fefe25f1536e2376efa6b0dba9dce33609725 (diff)
downloadgenenetwork2-b63b91cf52c148c6f7091e3845bb3fdb11052d62.tar.gz
Use AUTH_SERVER_URL setting from flask.current_app not gn2.utility.tools
Diffstat (limited to 'gn2')
-rw-r--r--gn2/utility/tools.py1
-rw-r--r--gn2/wqflask/oauth2/checks.py2
-rw-r--r--gn2/wqflask/oauth2/data.py19
-rw-r--r--gn2/wqflask/oauth2/users.py11
4 files changed, 13 insertions, 20 deletions
diff --git a/gn2/utility/tools.py b/gn2/utility/tools.py
index 5ed6dc7f..d8e21bcd 100644
--- a/gn2/utility/tools.py
+++ b/gn2/utility/tools.py
@@ -271,7 +271,6 @@ WEBSERVER_MODE = get_setting('WEBSERVER_MODE')
GN2_BASE_URL = get_setting('GN2_BASE_URL')
GN2_BRANCH_URL = get_setting('GN2_BRANCH_URL')
GN_SERVER_URL = get_setting('GN_SERVER_URL')
-AUTH_SERVER_URL = get_setting('AUTH_SERVER_URL')
GN_PROXY_URL = get_setting('GN_PROXY_URL')
GN3_LOCAL_URL = get_setting('GN3_LOCAL_URL')
SERVER_PORT = get_setting_int('SERVER_PORT')
diff --git a/gn2/wqflask/oauth2/checks.py b/gn2/wqflask/oauth2/checks.py
index 070e956d..4233e376 100644
--- a/gn2/wqflask/oauth2/checks.py
+++ b/gn2/wqflask/oauth2/checks.py
@@ -27,7 +27,7 @@ def require_oauth2(func):
client = OAuth2Session(
oauth2_clientid(), oauth2_clientsecret(), token=token)
resp = client.get(
- urljoin(AUTH_SERVER_URL, "auth/user/"))
+ urljoin(authserver_uri(), "auth/user/"))
user_details = resp.json()
if not user_details.get("error", False):
return func(*args, **kwargs)
diff --git a/gn2/wqflask/oauth2/data.py b/gn2/wqflask/oauth2/data.py
index a1dfdf95..29d68be0 100644
--- a/gn2/wqflask/oauth2/data.py
+++ b/gn2/wqflask/oauth2/data.py
@@ -15,14 +15,13 @@ from gn2.wqflask.oauth2.request_utils import with_flash_error
from gn2.jobs import jobs
from .ui import render_ui
from .request_utils import process_error
-from .client import oauth2_get, oauth2_post
+from .client import oauth2_get, oauth2_post, authserver_uri
data = Blueprint("data", __name__)
def __search_mrna__(query, template, **kwargs):
- from gn2.utility.tools import AUTH_SERVER_URL
species_name = kwargs["species_name"]
- search_uri = urljoin(AUTH_SERVER_URL, "auth/data/search")
+ search_uri = urljoin(authserver_uri(), "auth/data/search")
datasets = oauth2_get(
"auth/data/search",
json = {
@@ -45,9 +44,8 @@ def __selected_datasets__():
request.form.get("selected", []))
def __search_genotypes__(query, template, **kwargs):
- from gn2.utility.tools import AUTH_SERVER_URL
species_name = kwargs["species_name"]
- search_uri = urljoin(AUTH_SERVER_URL, "auth/data/search")
+ search_uri = urljoin(authserver_uri(), "auth/data/search")
datasets = oauth2_get(
"auth/data/search",
json = {
@@ -61,7 +59,7 @@ def __search_genotypes__(query, template, **kwargs):
return render_ui(template, search_uri=search_uri, **datasets, **kwargs)
def __search_phenotypes__(query, template, **kwargs):
- from gn2.utility.tools import GN_SERVER_URL, AUTH_SERVER_URL
+ from gn2.utility.tools import GN_SERVER_URL
page = int(request.args.get("page", 1))
per_page = int(request.args.get("per_page", 50))
selected_traits = request.form.getlist("selected_traits")
@@ -71,10 +69,10 @@ def __search_phenotypes__(query, template, **kwargs):
template, traits=[], per_page=per_page, query=query,
selected_traits=selected_traits, search_results=search_results,
search_endpoint=urljoin(
- AUTH_SERVER_URL, "auth/data/search"),
- gn_server_url = AUTH_SERVER_URL,
+ authserver_uri(), "auth/data/search"),
+ gn_server_url = authserver_uri(),
results_endpoint=urljoin(
- AUTH_SERVER_URL,
+ authserver_uri(),
f"auth/data/search/phenotype/{job_id}"),
**kwargs)
return oauth2_get("auth/data/search", json={
@@ -124,7 +122,6 @@ def json_search_mrna() -> Response:
@data.route("/phenotype/search", methods=["POST"])
def json_search_phenotypes() -> Response:
"""Search for phenotypes."""
- from gn2.utility.tools import AUTH_SERVER_URL
form = request.json
def __handle_error__(err):
error = process_error(err)
@@ -138,7 +135,7 @@ def json_search_phenotypes() -> Response:
"query": form.get("query", ""),
"per_page": int(form.get("per_page", 50)),
"page": int(form.get("page", 1)),
- "auth_server_uri": AUTH_SERVER_URL,
+ "auth_server_uri": authserver_uri(),
"selected_traits": form.get("selected_traits", [])
}).either(__handle_error__, jsonify)
diff --git a/gn2/wqflask/oauth2/users.py b/gn2/wqflask/oauth2/users.py
index 12d07d0c..894cce5b 100644
--- a/gn2/wqflask/oauth2/users.py
+++ b/gn2/wqflask/oauth2/users.py
@@ -11,7 +11,7 @@ from . import client
from . import session
from .ui import render_ui
from .checks import require_oauth2, user_logged_in
-from .client import oauth2_get, oauth2_post, oauth2_client
+from .client import oauth2_get, oauth2_post, oauth2_client, authserver_uri
from .request_utils import (
user_details, request_error, process_error, with_flash_error)
@@ -65,7 +65,6 @@ def request_add_to_group() -> Response:
@users.route("/login", methods=["GET", "POST"])
def login():
"""Route to allow users to sign up."""
- from gn2.utility.tools import AUTH_SERVER_URL
next_endpoint=request.args.get("next", False)
if request.method == "POST":
@@ -73,7 +72,7 @@ def login():
client = oauth2_client()
try:
token = client.fetch_token(
- urljoin(AUTH_SERVER_URL, "auth/token"),
+ urljoin(authserver_uri(), "auth/token"),
username=form.get("email_address"),
password=form.get("password"),
grant_type="password")
@@ -101,10 +100,9 @@ def login():
@users.route("/logout", methods=["GET", "POST"])
def logout():
- from gn2.utility.tools import AUTH_SERVER_URL
if user_logged_in():
resp = oauth2_client().revoke_token(
- urljoin(AUTH_SERVER_URL, "auth/revoke"))
+ urljoin(authserver_uri(), "auth/revoke"))
the_session = session.session_info()
if not bool(the_session["masquerading"]):
# Normal session - clear and go back.
@@ -124,7 +122,6 @@ def logout():
@users.route("/register", methods=["GET", "POST"])
def register_user():
- from gn2.utility.tools import AUTH_SERVER_URL
if user_logged_in():
next_endpoint=request.args.get("next", "/")
flash(("You cannot register a new user while logged in. "
@@ -137,7 +134,7 @@ def register_user():
form = request.form
response = requests.post(
- urljoin(AUTH_SERVER_URL, "auth/user/register"),
+ urljoin(authserver_uri(), "auth/user/register"),
data = {
"user_name": form.get("user_name"),
"email": form.get("email_address"),