diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index f1832c1..0de3735 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -1,13 +1,34 @@ +default_install_hook_types: + - pre-commit + - commit-msg + - pre-push + repos: -- repo: https://github.com/pre-commit/pre-commit-hooks - rev: v2.3.0 + - repo: https://github.com/pre-commit/pre-commit-hooks + rev: v4.3.0 hooks: - - id: check-yaml - - id: check-json - exclude : aodn_cloud_optimised/config/dataset/dataset_template.json - - id: end-of-file-fixer - - id: trailing-whitespace -- repo: https://github.com/psf/black + - id: check-yaml + files: \.ya?ml$ + - id: check-json + files: \.json$ + exclude: ^aodn_cloud_optimised/config/dataset/dataset_template.json$ + - id: end-of-file-fixer + - id: trailing-whitespace + - id: check-toml + + - repo: https://github.com/psf/black rev: 22.10.0 hooks: - - id: black + - id: black + + - repo: https://github.com/python-poetry/poetry + rev: '1.8.3' + hooks: + - id: poetry-export + args: ["-f", "requirements.txt"] + verbose: true + - id: poetry-check + args: ["--lock"] + verbose: true + - id: poetry-lock + - id: poetry-install diff --git a/README.md b/README.md index 01dc6cf..f2d906b 100644 --- a/README.md +++ b/README.md @@ -21,8 +21,18 @@ Requirements: mamba env create --file=environment.yml mamba activate CloudOptimisedParquet -poetry install +poetry install --with dev ``` +### Update dependencies + +1. Update manually the pyproject.toml file with the required package versions +2. run +```bash +poetry update +``` +to update the poetry.lock file. Commit the changes to poetry.lock + + # Requirements AWS SSO to push files to S3 diff --git a/aodn_cloud_optimised/config/dataset/argo_core.json b/aodn_cloud_optimised/config/dataset/argo_core.json index 069f615..887c446 100644 --- a/aodn_cloud_optimised/config/dataset/argo_core.json +++ b/aodn_cloud_optimised/config/dataset/argo_core.json @@ -395,9 +395,6 @@ }, "polygon": { "type": "string" - }, - "DATA_CENTRE": { - "type": "string" } }, "dataset_gattrs": { diff --git a/poetry.lock b/poetry.lock index d7122b3..b0ebbad 100644 --- a/poetry.lock +++ b/poetry.lock @@ -142,6 +142,17 @@ files = [ [package.dependencies] frozenlist = ">=1.1.0" +[[package]] +name = "appnope" +version = "0.1.4" +description = "Disable App Nap on macOS >= 10.9" +optional = false +python-versions = ">=3.6" +files = [ + {file = "appnope-0.1.4-py2.py3-none-any.whl", hash = "sha256:502575ee11cd7a28c0205f379b525beefebab9d161b7c964670864014ed7213c"}, + {file = "appnope-0.1.4.tar.gz", hash = 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"pytest-ignore-flaky", "pytest-mypy", "pytest-ruff (>=0.2.1)"] - -[extras] -interactive = [] -testing = [] +doc = ["furo", "jaraco.packaging (>=9.3)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-lint"] +test = ["big-O", "jaraco.functools", "jaraco.itertools", "jaraco.test", "more-itertools", "pytest (>=6,!=8.1.*)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=2.2)", "pytest-ignore-flaky", "pytest-mypy", "pytest-ruff (>=0.2.1)"] [metadata] lock-version = "2.0" python-versions = "==3.10.14" -content-hash = "d8dba6808e504b980ff6e94baf3842075a7101a2fabc4bbc2edc9064557e966e" +content-hash = "7dc4b00a7c40ae9db4a6dc2df451d1e5996b66a3ea955a220a7e310cb5c11951" diff --git a/pyproject.toml b/pyproject.toml index 4ae006b..fe30124 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -44,9 +44,15 @@ shapely = ">=2.0.4" xarray = { version = ">=2024.3.0", extras = ["complete"] } zarr = ">=2.18.0" -[tool.poetry.extras] -testing = ["pytest", "ipython", "ipdb"] -interactive = ["pytest", "ipython", "ipdb"] +[tool.poetry.dev-dependencies] +pytest = "^8.2.1" +ipdb = "^0.13" +ipython = "^7.5.3" + + +#[tool.poetry.extras] +#testing = ["pytest", "ipython", "ipdb"] +#interactive = ["pytest", "ipython", "ipdb"] [tool.poetry.scripts] @@ -63,13 +69,13 @@ soop_xbt_nrt_to_parquet = "aodn_cloud_optimised.bin.soop_xbt_nrt_to_parquet:main srs_oc_ljco_to_parquet = "aodn_cloud_optimised.bin.srs_oc_ljco_to_parquet:main" srs_l3s_1d_dn_to_zarr = "aodn_cloud_optimised.bin.srs_l3s_1d_dn_to_zarr:main" - #[tool.poetry.include] #data = ["aodn_cloud_optimised/config/*.json", "aodn_cloud_optimised/config/dataset/*.json"] [tool.poetry.group.dev.dependencies] pytest = "^8.2.1" coverage = "^7.5.3" +pre-commit = "^3.7.1" [tool.pre_commit] version = "2.3.0" diff --git a/requirements.txt b/requirements.txt index 227226f..108df31 100644 --- a/requirements.txt +++ b/requirements.txt @@ -8,16 +8,16 @@ attrs==23.2.0 ; python_full_version == "3.10.14" bokeh==3.4.1 ; python_full_version == "3.10.14" boto3==1.34.106 ; python_full_version == "3.10.14" botocore==1.34.106 ; python_full_version == "3.10.14" -certifi==2024.2.2 ; python_full_version == "3.10.14" +certifi==2024.6.2 ; python_full_version == "3.10.14" cftime==1.6.3 ; python_full_version == "3.10.14" click==8.1.7 ; python_full_version == "3.10.14" cloudpickle==3.0.0 ; python_full_version == "3.10.14" colorama==0.4.6 ; python_full_version == "3.10.14" and platform_system == "Windows" contourpy==1.2.1 ; python_full_version == "3.10.14" -dask[array,diagnostics]==2024.5.1 ; python_full_version == "3.10.14" +dask[array,diagnostics]==2024.5.2 ; python_full_version == "3.10.14" fasteners==0.19 ; sys_platform != "emscripten" and python_full_version == "3.10.14" frozenlist==1.4.1 ; python_full_version == "3.10.14" -fsspec==2024.5.0 ; python_full_version == "3.10.14" +fsspec==2024.6.0 ; python_full_version == "3.10.14" h5netcdf==1.3.0 ; python_full_version == "3.10.14" h5py==3.11.0 ; python_full_version == "3.10.14" idna==3.7 ; python_full_version == "3.10.14" @@ -44,7 +44,7 @@ pyyaml==6.0.1 ; python_full_version == "3.10.14" rechunker==0.5.2 ; python_full_version == "3.10.14" referencing==0.35.1 ; python_full_version == "3.10.14" rpds-py==0.18.1 ; python_full_version == "3.10.14" -s3fs==2024.5.0 ; python_full_version == "3.10.14" +s3fs==2024.6.0 ; python_full_version == "3.10.14" s3transfer==0.10.1 ; python_full_version == "3.10.14" scipy==1.13.1 ; python_full_version == "3.10.14" shapely==2.0.4 ; python_full_version == "3.10.14" @@ -58,4 +58,4 @@ xarray[complete]==2024.5.0 ; python_full_version == "3.10.14" xyzservices==2024.4.0 ; python_full_version == "3.10.14" yarl==1.9.4 ; python_full_version == "3.10.14" zarr==2.18.2 ; python_full_version == "3.10.14" -zipp==3.19.0 ; python_full_version == "3.10.14" +zipp==3.19.1 ; python_full_version == "3.10.14" diff --git a/test_aodn_cloud_optimised/resources/argo_core.json b/test_aodn_cloud_optimised/resources/argo_core.json index 936aa53..db6f54f 100644 --- a/test_aodn_cloud_optimised/resources/argo_core.json +++ b/test_aodn_cloud_optimised/resources/argo_core.json @@ -384,9 +384,6 @@ }, "polygon": { "type": "string" - }, - "DATA_CENTRE": { - "type": "string" } }, "dataset_gattrs": {