diff options
Diffstat (limited to 'gn2/wqflask')
| -rw-r--r-- | gn2/wqflask/edit.py | 100 |
1 files changed, 47 insertions, 53 deletions
diff --git a/gn2/wqflask/edit.py b/gn2/wqflask/edit.py index ebf8449d..e7a58bc0 100644 --- a/gn2/wqflask/edit.py +++ b/gn2/wqflask/edit.py @@ -1,9 +1,14 @@ +import uuid import requests import subprocess +import time from urllib.parse import urljoin from pathlib import Path + +from gn2.wqflask.oauth2.client import oauth2_get from gn2.wqflask.oauth2.session import session_info +from gn2.wqflask.oauth2.tokens import JWTToken from pymonad.either import Either, Left, Right @@ -66,8 +71,7 @@ def save_dataset_metadata( f'{msg}', f"--author='{author}'", "--no-gpg-sign" ])) .then(lambda _: __run_cmd__(f"git -C {git_dir} \ -push origin master --dry-run".split(" "))) - ) +push origin master --dry-run".split(" ")))) @metadata.route("/edit") @@ -94,9 +98,7 @@ def metadata_edit(): edit=_metadata.get(_section), ) case _: - return redirect( - f"/datasets/{_name}" - ) + return redirect(f"/datasets/{_name}") @metadata.route("/save", methods=["POST"]) @@ -105,55 +107,47 @@ def metadata_edit(): def save(): """Save dataset edits in git.""" from gn2.utility.tools import get_setting - _gn_docs = Path( - get_setting("DATA_DIR"), - "gn-docs" - ) - # This maps the form elements to the actual path in the git - # repository - _map = { - "description": "summary.rtf", - "tissueInfo": "tissue.rtf", - "specifics": "specifics.rtf", - "caseInfo": "cases.rtf", - "platformInfo": "platform.rtf", - "processingInfo": "processing.rtf", - "notes": "notes.rtf", - "experimentDesignInfo": "experiment-design.rtf", - "acknowledgement": "acknowledgement.rtf", - "citation": "citation.rtf", - "experimentType": "experiment-type.rtf", - "contributors": "contributors.rtf" - } - _output = Path( - _gn_docs, - "general/datasets/", - request.form.get("id").split("/")[-1], - f"{_map.get(request.form.get('section'))}" - ) - match request.form.get("type"): - case "dcat:Dataset": - _session = session_info()["user"] - _author = f"{_session['name']} <{_session['email']}>" - save_dataset_metadata( - git_dir=_gn_docs, - output=_output, - author=_author, - content=request.form.get("editor"), - msg=request.form.get("edit-summary") + from gn2.utility.tools import GN3_LOCAL_URL + # Call an endpoint to GN3 with special headers + name = request.form.get('label') + metadata = requests.get( + urljoin( + GN3_LOCAL_URL, + f"api/metadata/datasets/{name}")).json() + _session = session_info()["user"] + outgoing_url = urljoin( + GN3_LOCAL_URL, + "api/metadata/datasets/edit") + iat = int(time.time()) + exp = iat + 300 # Expire after 300 seconds + token = JWTToken( + key=get_setting("JWT_SECRET_KEY"), + registered_claims={ + "iat": iat, + "iss": request.url, + "sub": request.form.get("label"), + "aud": outgoing_url, + "exp": exp, + "jti": str(uuid.uuid4())}, + private_claims={ + "account-name": _session["name"], + "email": _session['email'], + "account-roles": oauth2_get( + f"auth/resource/authorisation\ +/{metadata.get('id', '').split('/')[-1]}" ).either( - lambda error: flash( - f"{error=}", - "error" - ), - lambda x: flash( - "Successfully updated data.", - "success" - ) - ) - return redirect( - f"/datasets/{request.form.get('label')}" - ) + lambda err: {"roles": []}, + lambda val: val)}) + response = requests.post( + outgoing_url, + data=request.form, + headers=token.bearer_token) + if response.status_code == 201: + flash("Unable to update data", "alert-danger") + else: + flash("Successfully updated data", "success") + # Make a request to GN3 save endpoint + return redirect(f"/datasets/{name}") def __fetch_dataset_git_history__( |