From 3159bbf47cf7d60d217f6450c9ead9a82b113be1 Mon Sep 17 00:00:00 2001 From: Debanjan Maji Date: Wed, 19 Nov 2025 14:32:05 +0000 Subject: [PATCH 1/6] feat: migrate from URI-encoded API keys to Authorization header - Replace query parameter-based API key authentication with Authorization header - Implement FastAPI's APIKeyHeader security scheme in dependencies.py - Update fetch_user() to extract API key from Authorization header using Depends(api_key_header) - Update all test files to use headers={'Authorization': key} instead of ?api_key= query params - Set auto_error=False to maintain backward compatibility for public endpoints This change improves security by preventing API keys from appearing in: - Server logs - Browser history - Proxy caches - Referrer headers Follows FastAPI security best practices and RESTful API standards. --- src/routers/dependencies.py | 5 +++- tests/routers/openml/dataset_tag_test.py | 17 +++++++----- .../openml/datasets_list_datasets_test.py | 26 ++++++++++++------- tests/routers/openml/datasets_test.py | 8 +++--- .../migration/datasets_migration_test.py | 11 +++++--- tests/routers/openml/study_test.py | 6 +++-- 6 files changed, 48 insertions(+), 25 deletions(-) diff --git a/src/routers/dependencies.py b/src/routers/dependencies.py index 2ddccf8..ad6d526 100644 --- a/src/routers/dependencies.py +++ b/src/routers/dependencies.py @@ -1,12 +1,15 @@ from typing import Annotated from fastapi import Depends +from fastapi.security import APIKeyHeader from pydantic import BaseModel from sqlalchemy import Connection from database.setup import expdb_database, user_database from database.users import APIKey, User +api_key_header = APIKeyHeader(name="Authorization", auto_error=False) + def expdb_connection() -> Connection: engine = expdb_database() @@ -23,7 +26,7 @@ def userdb_connection() -> Connection: def fetch_user( - api_key: APIKey | None = None, + api_key: Annotated[APIKey | None, Depends(api_key_header)] = None, user_data: Annotated[Connection, Depends(userdb_connection)] = None, ) -> User | None: return User.fetch(api_key, user_data) if api_key else None diff --git a/tests/routers/openml/dataset_tag_test.py b/tests/routers/openml/dataset_tag_test.py index 5449862..29b2d12 100644 --- a/tests/routers/openml/dataset_tag_test.py +++ b/tests/routers/openml/dataset_tag_test.py @@ -15,10 +15,11 @@ ids=["no authentication", "invalid key"], ) def test_dataset_tag_rejects_unauthorized(key: ApiKey, py_api: TestClient) -> None: - apikey = "" if key is None else f"?api_key={key}" + headers = {} if key is None else {"Authorization": key} response = py_api.post( - f"/datasets/tag{apikey}", + "/datasets/tag", json={"data_id": next(iter(constants.PRIVATE_DATASET_ID)), "tag": "test"}, + headers=headers, ) assert response.status_code == HTTPStatus.PRECONDITION_FAILED assert response.json()["detail"] == {"code": "103", "message": "Authentication failed"} @@ -32,8 +33,9 @@ def test_dataset_tag_rejects_unauthorized(key: ApiKey, py_api: TestClient) -> No def test_dataset_tag(key: ApiKey, expdb_test: Connection, py_api: TestClient) -> None: dataset_id, tag = next(iter(constants.PRIVATE_DATASET_ID)), "test" response = py_api.post( - f"/datasets/tag?api_key={key}", + "/datasets/tag", json={"data_id": dataset_id, "tag": tag}, + headers={"Authorization": key}, ) assert response.status_code == HTTPStatus.OK assert response.json() == {"data_tag": {"id": str(dataset_id), "tag": [tag]}} @@ -45,8 +47,9 @@ def test_dataset_tag(key: ApiKey, expdb_test: Connection, py_api: TestClient) -> def test_dataset_tag_returns_existing_tags(py_api: TestClient) -> None: dataset_id, tag = 1, "test" response = py_api.post( - f"/datasets/tag?api_key={ApiKey.ADMIN}", + "/datasets/tag", json={"data_id": dataset_id, "tag": tag}, + headers={"Authorization": ApiKey.ADMIN}, ) assert response.status_code == HTTPStatus.OK assert response.json() == {"data_tag": {"id": str(dataset_id), "tag": ["study_14", tag]}} @@ -55,8 +58,9 @@ def test_dataset_tag_returns_existing_tags(py_api: TestClient) -> None: def test_dataset_tag_fails_if_tag_exists(py_api: TestClient) -> None: dataset_id, tag = 1, "study_14" # Dataset 1 already is tagged with 'study_14' response = py_api.post( - f"/datasets/tag?api_key={ApiKey.ADMIN}", + "/datasets/tag", json={"data_id": dataset_id, "tag": tag}, + headers={"Authorization": ApiKey.ADMIN}, ) assert response.status_code == HTTPStatus.INTERNAL_SERVER_ERROR expected = { @@ -79,8 +83,9 @@ def test_dataset_tag_invalid_tag_is_rejected( py_api: TestClient, ) -> None: new = py_api.post( - f"/datasets/tag?api_key{ApiKey.ADMIN}", + "/datasets/tag", json={"data_id": 1, "tag": tag}, + headers={"Authorization": ApiKey.ADMIN}, ) assert new.status_code == HTTPStatus.UNPROCESSABLE_ENTITY diff --git a/tests/routers/openml/datasets_list_datasets_test.py b/tests/routers/openml/datasets_list_datasets_test.py index bf0fbc8..b0ece0d 100644 --- a/tests/routers/openml/datasets_list_datasets_test.py +++ b/tests/routers/openml/datasets_list_datasets_test.py @@ -53,10 +53,11 @@ def test_list_filter_active(status: str, amount: int, py_api: TestClient) -> Non ], ) def test_list_accounts_privacy(api_key: ApiKey | None, amount: int, py_api: TestClient) -> None: - key = f"?api_key={api_key}" if api_key else "" + headers = {"Authorization": api_key} if api_key else {} response = py_api.post( - f"/datasets/list{key}", + "/datasets/list", json={"status": "all", "pagination": {"limit": 1000}}, + headers=headers, ) assert response.status_code == HTTPStatus.OK, response.json() assert len(response.json()) == amount @@ -69,8 +70,9 @@ def test_list_accounts_privacy(api_key: ApiKey | None, amount: int, py_api: Test def test_list_data_name_present(name: str, count: int, py_api: TestClient) -> None: # The second iris dataset is private, so we need to authenticate. response = py_api.post( - f"/datasets/list?api_key={ApiKey.ADMIN}", + "/datasets/list", json={"status": "all", "data_name": name}, + headers={"Authorization": ApiKey.ADMIN}, ) assert response.status_code == HTTPStatus.OK datasets = response.json() @@ -84,8 +86,9 @@ def test_list_data_name_present(name: str, count: int, py_api: TestClient) -> No ) def test_list_data_name_absent(name: str, py_api: TestClient) -> None: response = py_api.post( - f"/datasets/list?api_key={ApiKey.ADMIN}", + "/datasets/list", json={"status": "all", "data_name": name}, + headers={"Authorization": ApiKey.ADMIN}, ) _assert_empty_result(response) @@ -123,8 +126,9 @@ def test_list_pagination(limit: int | None, offset: int | None, py_api: TestClie ) def test_list_data_version(version: int, count: int, py_api: TestClient) -> None: response = py_api.post( - f"/datasets/list?api_key={ApiKey.ADMIN}", + "/datasets/list", json={"status": "all", "data_version": version}, + headers={"Authorization": ApiKey.ADMIN}, ) assert response.status_code == HTTPStatus.OK datasets = response.json() @@ -134,8 +138,9 @@ def test_list_data_version(version: int, count: int, py_api: TestClient) -> None def test_list_data_version_no_result(py_api: TestClient) -> None: response = py_api.post( - f"/datasets/list?api_key={ApiKey.ADMIN}", + "/datasets/list", json={"status": "all", "data_version": 4}, + headers={"Authorization": ApiKey.ADMIN}, ) _assert_empty_result(response) @@ -150,8 +155,9 @@ def test_list_data_version_no_result(py_api: TestClient) -> None: ) def test_list_uploader(user_id: int, count: int, key: str, py_api: TestClient) -> None: response = py_api.post( - f"/datasets/list?api_key={key}", + "/datasets/list", json={"status": "all", "uploader": user_id}, + headers={"Authorization": key}, ) # The dataset of user 16 is private, so can not be retrieved by other users. owner_user_id = 16 @@ -255,7 +261,7 @@ def test_list_data_identical( return hypothesis.reject() api_key = kwargs.pop("api_key") - api_key_query = f"?api_key={api_key}" if api_key else "" + headers = {"Authorization": api_key} if api_key else {} # Pagination parameters are nested in the new query style # The old style has no `limit` by default, so we mimic this with a high default @@ -264,8 +270,9 @@ def test_list_data_identical( new_style["pagination"]["offset"] = offset response = py_api.post( - f"/datasets/list{api_key_query}", + "/datasets/list", json=new_style, + headers=headers, ) # old style `/data/filter` encodes all filters as a path @@ -274,6 +281,7 @@ def test_list_data_identical( for filter_, value in kwargs.items() if value is not None ] + api_key_query = f"?api_key={api_key}" if api_key else "" uri = "/data/list" if query: uri += f"/{'/'.join([str(v) for q in query for v in q])}" diff --git a/tests/routers/openml/datasets_test.py b/tests/routers/openml/datasets_test.py index 7c1457f..d5ff7e5 100644 --- a/tests/routers/openml/datasets_test.py +++ b/tests/routers/openml/datasets_test.py @@ -167,7 +167,7 @@ def test_dataset_features_no_access(py_api: TestClient) -> None: [ApiKey.ADMIN, ApiKey.OWNER_USER], ) def test_dataset_features_access_to_private(api_key: ApiKey, py_api: TestClient) -> None: - response = py_api.get(f"/datasets/features/130?api_key={api_key}") + response = py_api.get("/datasets/features/130", headers={"Authorization": api_key}) assert response.status_code == HTTPStatus.OK @@ -194,8 +194,9 @@ def _assert_status_update_is_successful( py_api: TestClient, ) -> None: response = py_api.post( - f"/datasets/status/update?api_key={apikey}", + "/datasets/status/update", json={"dataset_id": dataset_id, "status": status}, + headers={"Authorization": apikey}, ) assert response.status_code == HTTPStatus.OK assert response.json() == { @@ -265,7 +266,8 @@ def test_dataset_status_unauthorized( py_api: TestClient, ) -> None: response = py_api.post( - f"/datasets/status/update?api_key={api_key}", + "/datasets/status/update", json={"dataset_id": dataset_id, "status": status}, + headers={"Authorization": api_key}, ) assert response.status_code == HTTPStatus.FORBIDDEN diff --git a/tests/routers/openml/migration/datasets_migration_test.py b/tests/routers/openml/migration/datasets_migration_test.py index 3faca11..d86989b 100644 --- a/tests/routers/openml/migration/datasets_migration_test.py +++ b/tests/routers/openml/migration/datasets_migration_test.py @@ -110,8 +110,8 @@ def test_private_dataset_no_user_no_access( py_api: TestClient, api_key: str | None, ) -> None: - query = f"?api_key={api_key}" if api_key else "" - response = py_api.get(f"/datasets/130{query}") + headers = {"Authorization": api_key} if api_key else {} + response = py_api.get("/datasets/130", headers=headers) # New response is 403: Forbidden instead of 412: PRECONDITION FAILED assert response.status_code == HTTPStatus.FORBIDDEN @@ -128,7 +128,9 @@ def test_private_dataset_owner_access( api_key: str, ) -> None: [private_dataset] = constants.PRIVATE_DATASET_ID - new_response = py_api.get(f"/datasets/{private_dataset}?api_key={api_key}") + new_response = py_api.get( + f"/datasets/{private_dataset}", headers={"Authorization": api_key} + ) old_response = php_api.get(f"/data/{private_dataset}?api_key={api_key}") assert old_response.status_code == HTTPStatus.OK assert old_response.status_code == new_response.status_code @@ -177,8 +179,9 @@ def test_dataset_tag_response_is_identical( ): pytest.skip("Encountered Elastic Search error.") new = py_api.post( - f"/datasets/tag?api_key={api_key}", + "/datasets/tag", json={"data_id": dataset_id, "tag": tag}, + headers={"Authorization": api_key}, ) assert original.status_code == new.status_code, original.json() diff --git a/tests/routers/openml/study_test.py b/tests/routers/openml/study_test.py index f32b6b7..a08d6fc 100644 --- a/tests/routers/openml/study_test.py +++ b/tests/routers/openml/study_test.py @@ -458,7 +458,7 @@ def test_get_task_study_by_alias(py_api: TestClient) -> None: def test_create_task_study(py_api: TestClient) -> None: response = py_api.post( - "/studies?api_key=00000000000000000000000000000000", + "/studies", json={ "name": "Test Study", "alias": "test-study", @@ -467,6 +467,7 @@ def test_create_task_study(py_api: TestClient) -> None: "tasks": [1, 2, 3], "runs": [], }, + headers={"Authorization": "00000000000000000000000000000000"}, ) assert response.status_code == HTTPStatus.OK new = response.json() @@ -512,8 +513,9 @@ def _attach_tasks_to_study( # but the current snapshot has no in-preparation studies. expdb_test.execute(text("UPDATE study SET status = 'in_preparation' WHERE id = 1")) return py_api.post( - f"/studies/attach?api_key={api_key}", + "/studies/attach", json={"study_id": study_id, "entity_ids": task_ids}, + headers={"Authorization": api_key}, ) From 1d27dd17584870f06e6736d87c2118584f6067cc Mon Sep 17 00:00:00 2001 From: Debanjan Maji Date: Wed, 19 Nov 2025 15:35:10 +0000 Subject: [PATCH 2/6] fix: apply ruff formatting to migration test file --- tests/routers/openml/migration/datasets_migration_test.py | 4 +--- 1 file changed, 1 insertion(+), 3 deletions(-) diff --git a/tests/routers/openml/migration/datasets_migration_test.py b/tests/routers/openml/migration/datasets_migration_test.py index d86989b..af82b6e 100644 --- a/tests/routers/openml/migration/datasets_migration_test.py +++ b/tests/routers/openml/migration/datasets_migration_test.py @@ -128,9 +128,7 @@ def test_private_dataset_owner_access( api_key: str, ) -> None: [private_dataset] = constants.PRIVATE_DATASET_ID - new_response = py_api.get( - f"/datasets/{private_dataset}", headers={"Authorization": api_key} - ) + new_response = py_api.get(f"/datasets/{private_dataset}", headers={"Authorization": api_key}) old_response = php_api.get(f"/data/{private_dataset}?api_key={api_key}") assert old_response.status_code == HTTPStatus.OK assert old_response.status_code == new_response.status_code From 72d17ebfebff8025bbbbb087a8ab89303803b220 Mon Sep 17 00:00:00 2001 From: Debanjan Maji Date: Wed, 19 Nov 2025 15:45:40 +0000 Subject: [PATCH 3/6] fix: resolve mypy error in mldcat_ap.py Replace direct dict type with lambda factory to satisfy mypy type checker. This fixes the pre-commit.ci mypy check failure. --- src/schemas/datasets/mldcat_ap.py | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/src/schemas/datasets/mldcat_ap.py b/src/schemas/datasets/mldcat_ap.py index 9525431..1160259 100644 --- a/src/schemas/datasets/mldcat_ap.py +++ b/src/schemas/datasets/mldcat_ap.py @@ -275,7 +275,9 @@ class DataService(JsonLDObject): class JsonLDGraph(BaseModel): - context: str | dict[str, HttpUrl] = Field(default_factory=dict, serialization_alias="@context") + context: str | dict[str, HttpUrl] = Field( + default_factory=lambda: {}, serialization_alias="@context" + ) graph: list[Distribution | DataService | Dataset | Quality | Feature | Agent | MD5Checksum] = ( Field(default_factory=list, serialization_alias="@graph") ) From 5557fc05043728769eede3279cde6e5ef01536f1 Mon Sep 17 00:00:00 2001 From: Debanjan Maji Date: Wed, 19 Nov 2025 15:51:50 +0000 Subject: [PATCH 4/6] fix: add pydantic to mypy pre-commit dependencies The mypy hook needs pydantic installed to use the pydantic.mypy plugin, which properly handles Field(default_factory=dict) in Pydantic models. --- .gitignore | 2 +- .pre-commit-config.yaml | 1 + poetry.lock | 1724 +++++++++++++++++++++++++++++ src/schemas/datasets/mldcat_ap.py | 3 +- 4 files changed, 1728 insertions(+), 2 deletions(-) create mode 100644 poetry.lock diff --git a/.gitignore b/.gitignore index 75dd10d..057a3e7 100644 --- a/.gitignore +++ b/.gitignore @@ -1,4 +1,4 @@ -docker/mysql/data +r/mysql/data # Byte-compiled / optimized / DLL files __pycache__/ diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 09b9d47..ee1e410 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -24,6 +24,7 @@ repos: additional_dependencies: - fastapi - pytest + - pydantic - repo: https://github.com/astral-sh/ruff-pre-commit rev: 'v0.6.9' diff --git a/poetry.lock b/poetry.lock new file mode 100644 index 0000000..26d9491 --- /dev/null +++ b/poetry.lock @@ -0,0 +1,1724 @@ +# This file is automatically @generated by Poetry 2.2.1 and should not be changed by hand. + +[[package]] +name = "annotated-doc" +version = "0.0.4" +description = "Document parameters, class attributes, return types, and variables inline, with Annotated." +optional = false +python-versions = ">=3.8" +groups = ["main"] +files = [ + {file = "annotated_doc-0.0.4-py3-none-any.whl", hash = "sha256:571ac1dc6991c450b25a9c2d84a3705e2ae7a53467b5d111c24fa8baabbed320"}, + {file = "annotated_doc-0.0.4.tar.gz", hash = "sha256:fbcda96e87e9c92ad167c2e53839e57503ecfda18804ea28102353485033faa4"}, +] + +[[package]] +name = "annotated-types" +version = "0.7.0" +description = "Reusable constraint types to use with typing.Annotated" +optional = false +python-versions = ">=3.8" +groups = ["main"] +files = [ + {file = "annotated_types-0.7.0-py3-none-any.whl", hash = "sha256:1f02e8b43a8fbbc3f3e0d4f0f4bfc8131bcb4eebe8849b8e5c773f3a1c582a53"}, + {file = "annotated_types-0.7.0.tar.gz", hash = "sha256:aff07c09a53a08bc8cfccb9c85b05f1aa9a2a6f23728d790723543408344ce89"}, +] + +[[package]] +name = "anyio" +version = "4.11.0" +description = "High-level concurrency and networking framework on top of asyncio or Trio" +optional = false +python-versions = ">=3.9" +groups = ["main"] +files = [ + {file = "anyio-4.11.0-py3-none-any.whl", hash = "sha256:0287e96f4d26d4149305414d4e3bc32f0dcd0862365a4bddea19d7a1ec38c4fc"}, + {file = "anyio-4.11.0.tar.gz", hash = "sha256:82a8d0b81e318cc5ce71a5f1f8b5c4e63619620b63141ef8c995fa0db95a57c4"}, +] + +[package.dependencies] +idna = ">=2.8" +sniffio = ">=1.1" +typing_extensions = {version = ">=4.5", markers = "python_version < \"3.13\""} + +[package.extras] +trio = ["trio (>=0.31.0)"] + +[[package]] +name = "babel" +version = "2.17.0" +description = "Internationalization utilities" +optional = true +python-versions = ">=3.8" +groups = ["main"] +markers = "extra == \"docs\"" +files = [ + {file = "babel-2.17.0-py3-none-any.whl", hash = "sha256:4d0b53093fdfb4b21c92b5213dba5a1b23885afa8383709427046b21c366e5f2"}, + {file = "babel-2.17.0.tar.gz", hash = "sha256:0c54cffb19f690cdcc52a3b50bcbf71e07a808d1c80d549f2459b9d2cf0afb9d"}, +] + +[package.extras] +dev = ["backports.zoneinfo ; 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"684a66fe115081970cbf00a46b601e6c9e8d35a346a94391db4e8fea10862bf2" diff --git a/src/schemas/datasets/mldcat_ap.py b/src/schemas/datasets/mldcat_ap.py index 1160259..46e965b 100644 --- a/src/schemas/datasets/mldcat_ap.py +++ b/src/schemas/datasets/mldcat_ap.py @@ -276,7 +276,8 @@ class DataService(JsonLDObject): class JsonLDGraph(BaseModel): context: str | dict[str, HttpUrl] = Field( - default_factory=lambda: {}, serialization_alias="@context" + default_factory=dict, + serialization_alias="@context", ) graph: list[Distribution | DataService | Dataset | Quality | Feature | Agent | MD5Checksum] = ( Field(default_factory=list, serialization_alias="@graph") From b695e23fe3851c66b5c46b5e7b394eb42d0f902e Mon Sep 17 00:00:00 2001 From: Debanjan Maji Date: Wed, 19 Nov 2025 15:58:30 +0000 Subject: [PATCH 5/6] fix: specify pydantic version constraint for mypy plugin compatibility - Add pydantic>=2.6,<2.7 to mypy additional_dependencies - Ensures consistent behavior between local and CI environments - Allows Field(default_factory=dict) to work with both mypy and ruff-format --- .pre-commit-config.yaml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index ee1e410..0389580 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -24,7 +24,7 @@ repos: additional_dependencies: - fastapi - pytest - - pydantic + - pydantic>=2.6,<2.7 - repo: https://github.com/astral-sh/ruff-pre-commit rev: 'v0.6.9' From 7decfe1fc8d6ad2a453dd967b2b4ecb90d1e049f Mon Sep 17 00:00:00 2001 From: Debanjan Maji Date: Wed, 19 Nov 2025 16:15:01 +0000 Subject: [PATCH 6/6] fix: improve api_constraints handling to support both string and parsed JSON - Remove TODO comment and workaround for single input limitation - Add robust JSON parsing with error handling for malformed data - Support both string (JSON-encoded) and already-parsed constraints - Only extract data_type when constraint is a valid dict with the field - Resolves #214 --- src/routers/openml/tasktype.py | 18 ++++++++++++++---- 1 file changed, 14 insertions(+), 4 deletions(-) diff --git a/src/routers/openml/tasktype.py b/src/routers/openml/tasktype.py index dcc9b1c..8c9d26a 100644 --- a/src/routers/openml/tasktype.py +++ b/src/routers/openml/tasktype.py @@ -67,10 +67,20 @@ def get_task_type( if task_type_input.requirement == "required": input_["requirement"] = task_type_input.requirement input_["name"] = task_type_input.name - # api_constraints is for one input only in the test database (TODO: patch db) - if isinstance(task_type_input.api_constraints, str): - constraint = json.loads(task_type_input.api_constraints) - input_["data_type"] = constraint["data_type"] + # Parse api_constraints if present (handles both string and already-parsed JSON) + if task_type_input.api_constraints: + if isinstance(task_type_input.api_constraints, str): + try: + constraint = json.loads(task_type_input.api_constraints) + except json.JSONDecodeError: + # If JSON parsing fails, skip constraint (database may have malformed data) + constraint = None + else: + # Already parsed as dict/list + constraint = task_type_input.api_constraints + + if constraint and isinstance(constraint, dict) and "data_type" in constraint: + input_["data_type"] = constraint["data_type"] input_types.append(input_) task_type["input"] = input_types return {"task_type": task_type}