From 68fd28804ccabfd7cf7c8ff5fd5c9d9583cf0822 Mon Sep 17 00:00:00 2001 From: RKI | Metadata Exchange <121876825+RKIMetadataExchange@users.noreply.github.com> Date: Thu, 16 May 2024 16:19:11 +0200 Subject: [PATCH] Bump cookiecutter template to 25c36c (#65) # Changes - bumped cookiecutter template to https://github.com/robert-koch-institut/mex-template/commit/25c36c --------- Co-authored-by: Nicolas Drebenstedt --- .cruft.json | 2 +- .dockerignore | 4 + .github/workflows/docker.yml | 2 +- .github/workflows/testing.yml | 2 +- .gitignore | 4 + compose.yaml | 2 +- pdm.lock | 668 ++++++++++++++++++++++------------ pyproject.toml | 31 +- requirements.txt | 2 +- tests/ingest/test_main.py | 2 - 10 files changed, 464 insertions(+), 255 deletions(-) diff --git a/.cruft.json b/.cruft.json index e11ab955..167e0472 100644 --- a/.cruft.json +++ b/.cruft.json @@ -1,6 +1,6 @@ { "template": "https://github.com/robert-koch-institut/mex-template", - "commit": "15dd517e9d8aebb087e1f0387cf726a8164e7913", + "commit": "25c36c49159f9309b55815b6606a8dfb66228858", "checkout": null, "context": { "cookiecutter": { diff --git a/.dockerignore b/.dockerignore index 0e49ff50..a9829097 100644 --- a/.dockerignore +++ b/.dockerignore @@ -113,7 +113,11 @@ dmypy.json *.db # Default exports +*.ndjson data/ +identity.csv +schema.json +work/ # Docker specifics **/.dockerignore diff --git a/.github/workflows/docker.yml b/.github/workflows/docker.yml index 37d37758..95363dff 100644 --- a/.github/workflows/docker.yml +++ b/.github/workflows/docker.yml @@ -11,4 +11,4 @@ jobs: timeout-minutes: 10 steps: - 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["install-all", "lint", "test", "doc"] } - [tool.pydantic-mypy] warn_untyped_fields = true @@ -137,5 +136,5 @@ known-first-party = ["mex", "tests"] convention = "google" [build-system] -requires = ["pdm-backend==2.1.8"] +requires = ["pdm-backend==2.3.0"] build-backend = "pdm.backend" diff --git a/requirements.txt b/requirements.txt index 8f807c9b..712004ae 100644 --- a/requirements.txt +++ b/requirements.txt @@ -1,4 +1,4 @@ cruft==2.15.0 pdm==2.15.2 -pre-commit==3.7.0 +pre-commit==3.7.1 wheel==0.43.0 diff --git a/tests/ingest/test_main.py b/tests/ingest/test_main.py index 434392d3..8972f3f3 100644 --- a/tests/ingest/test_main.py +++ b/tests/ingest/test_main.py @@ -6,7 +6,6 @@ from mex.backend.graph.connector import GraphConnector from mex.common.models import AnyExtractedModel -from mex.common.testing import Joker from tests.conftest import MockedGraph Payload = dict[str, list[dict[str, Any]]] @@ -67,7 +66,6 @@ def test_bulk_insert_malformed( "loc": ["body", "ExtractedContactPoint", 0, 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