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* gn_auth/auth/authentication/users.py: Import dataclass. Remove
NamedTuple and Tuple import.
(User): Use a frozen dataclass.
(User.get_user_id): Delete.
(User.dictify): Ditto.
* gn_auth/auth/authorisation/data/views.py: Import dataclasses.dict.
(authorisation): Replace user._asdict() with asdict(user).
(metadata_resources): Ditto.
* gn_auth/auth/authorisation/resources/groups/views.py:
(group_members): Replace dictify with asdict.
* gn_auth/auth/authorisation/resources/models.py: Import
dataclasses.asdict.
(assign_resource_user): Replace dictify(user) with asdict(user).
(unassign_resource_user): Ditto.
* gn_auth/auth/authorisation/resources/views.py:
(resource_users): Replace dictify with asdict.
* gn_auth/auth/authorisation/users/masquerade/views.py: Import
dataclasses.asdict.
(masquerade): Replace masq_user._asdict() with asdict(masq_user).
* gn_auth/auth/authorisation/users/views.py:
(list_all_users): Replace dictify with asdict.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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* gn_auth/auth/authentication/oauth2/endpoints/utilities.py
(query_token): Replace "if" with "match" syntax. Also, correctly
check for the "refresh_token".
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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* gn_auth/auth/authentication/oauth2/models/authorization_code.py:
Import "monad_from_none_or_value".
(authorisation_code): Replace if branching for Nothing/Just check with "monad_from_none_or_value".
* gn_auth/auth/authentication/oauth2/models/oauth2token.py: Import
"monad_from_none_or_value".
(__token_from_resultset__): Replace if branching for Nothing/Just
check with "monad_from_none_or_value".
(token_by_access_token): Ditto.
(token_by_refresh_token): Ditto.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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* gn_auth/auth/authentication/oauth2/models/authorization_code.py
(AuthorisationCode.__5_MINUTES__): Rename this to EXPIRY_IN_SECONDS.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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This improves readability.
* gn_auth/auth/authentication/oauth2/grants/authorisation_code_grant.py
(AuthorisationCodeGrant.save_authorization_code): Use keyword arguments.
* gn_auth/auth/authentication/oauth2/models/authorization_code.py
(authorisation_code): Ditto.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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* gn_auth/auth/db/protocols.py (DbCursor): Remove "raise" in DBCursor
Protocol. See:
<https://typing.readthedocs.io/en/latest/spec/protocol.html>
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Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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* gn_auth/auth/authorisation/data/views.py: (metadata_resources): New
end-point for authorising metadata data.
* gn_auth/auth/authorisation/resources/models.py: Import sqlite3.Row.
(__metadata_resource_data__): New function.
(__assign_resource_owner_role__): Add __metadata_resource_data__
to the "resource_data_function" map.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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* gn_auth/auth/authorisation/data/views.py (authorisation): Fix typo.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
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Handle the "NotFoundError" exception at the route level, since if we
do not, the application level handler takes over and simply returns a
JSON response with the details of the failure.
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* .guix/modules/gn-auth.scm: Import python-pylint from (gnu packages
check) and python-mypy from (gnu packages python-check).
(gn-auth-all-tests): New variable.
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* .guix/modules/gn-auth.scm (gn-auth): Inherit from gn-auth in
guix-bioinformatics.
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Previously, when the user would request to either import or delete the
collections they had created before logging in, the system would try
deleting the collections from the wrong key, leading to the
collections still showing up.
This commit fixes that by providing the code with the correct Redis
key to act upon.
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Copy the missing scripts over from GN3 and update them for
gn-auth. Update the code to invoke the scripts correctly. Set up
correct redis keys for use with the scripts.
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BCrypt has been superceded by argon, and this commit removes it and
all code depending on it from the repository.
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The schema changed a while back, and the script that is used to make
all existing data public needs to be updated for the new schema. This
commit does exactly that.
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Use the core system functions to both fetch the user and make them
into a system admin, rather than fetching with raw queries. This way,
if the way the users are fetched, or made into an admin, changes, we
do not need to update the scripts for most part.
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Make the system admin creation code part of the core system, and
simply call it from the script(s). This will help with maintenance,
since the changes are done in a single place only.
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Only commit changes if the queries are successful.
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Update query in script to provide resource_id for the user_roles tabel.
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Adds clarification that the `OAUTH2_SCOPE` setting is provided by
default, and so the final settings are only necessary to override
that.
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Add an endpoint to help users get the resources authorisation by the
resource ids.
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Get the resource used to control access to the InbredSet group by that
group's SpeciesId and InbredSetId.
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Provide a new migration to create tables to handle the InbredSet
resources. The migration also sets up the resource category and the
related privileges.
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