diff --git a/.github/workflows/pypi.yml b/.github/workflows/pypi.yml new file mode 100644 index 0000000..2e45c43 --- /dev/null +++ b/.github/workflows/pypi.yml @@ -0,0 +1,54 @@ +name: Publish to PyPI + +on: + pull_request: + push: + branches: + - main + release: + types: + - published + +defaults: + run: + shell: bash + +jobs: + packages: + runs-on: ubuntu-latest + steps: + - uses: actions/checkout@v3 + + - name: Set up Python + uses: actions/setup-python@v4 + with: + python-version: "3.x" + + - name: Get tags + run: git fetch --depth=1 origin +refs/tags/*:refs/tags/* + + - name: Install build tools + run: | + python -m pip install --upgrade build twine + + - name: Build sdist and binary wheel + run: python -m build --sdist --wheel . --outdir dist + + - name: CheckFiles + run: > + ls dist + && python -m pip install --upgrade check-manifest + && check-manifest --verbose + + - name: Test wheels + run: > + cd dist + && python -m pip install *.whl + && python -m twine check * + + - name: Publish a Python distribution to PyPI + if: success() && github.event_name == 'release' + uses: pypa/gh-action-pypi-publish@release/v1 + with: + user: __token__ + password: ${{ secrets.PYPI_PASSWORD }} diff --git a/.gitignore b/.gitignore index b3a45a9..1161954 100644 --- a/.gitignore +++ b/.gitignore @@ -5,3 +5,5 @@ website/deploy/gts_regional.html website/deploy/gts_atn.html /website/deploy/asset_inventory.html .ipynb_checkpoints/ +ioos_metrics/_version.py +*.log diff --git a/MANIFEST.in b/MANIFEST.in new file mode 100644 index 0000000..c43f163 --- /dev/null +++ b/MANIFEST.in @@ -0,0 +1,24 @@ +include LICENSE +include README.md +include pyproject.toml + +graft ioos_metrics + +prune .github +prune *.egg-info +prune gts +prune website +prune tests + +exclude *.ipynb +exclude btn_metrics.py +exclude gts_atn_metrics.py +exclude gts_regional_metrics.py +exclude read_bufr.py +exclude ioos_btn_metrics.csv + +exclude ruff.toml +exclude .gitignore +exclude .pre-commit-config.yaml +exclude *.yml +exclude ioos_metrics/_version.py diff --git a/conda-lock.yml b/conda-lock.yml index 4070ac2..0dcef1b 100644 --- a/conda-lock.yml +++ b/conda-lock.yml @@ -165,7 +165,7 @@ package: category: main optional: false - name: aws-c-auth - version: 0.7.17 + version: 0.7.18 manager: conda platform: linux-64 dependencies: @@ -175,14 +175,14 @@ package: aws-c-io: '>=0.14.7,<0.14.8.0a0' aws-c-sdkutils: '>=0.1.15,<0.1.16.0a0' libgcc-ng: '>=12' - url: https://conda.anaconda.org/conda-forge/linux-64/aws-c-auth-0.7.17-he0b1f16_2.conda + url: https://conda.anaconda.org/conda-forge/linux-64/aws-c-auth-0.7.18-he0b1f16_0.conda hash: - md5: ea6d998135d5f8932cffc91381104690 - sha256: 607755dd09088b0d7898733edbe91aea979c599dc8d710b0d267b71424673032 + md5: 5f4ec63692861f4a812898a4fbd5cc20 + sha256: 03dbdc7a3bb8a92d5404fcfc2ff2a68037860bb8a54dae345384b54f206c638f category: main optional: false - name: aws-c-auth - version: 0.7.17 + version: 0.7.18 manager: conda platform: osx-64 dependencies: @@ -192,14 +192,14 @@ package: aws-c-http: '>=0.8.1,<0.8.2.0a0' aws-c-io: '>=0.14.7,<0.14.8.0a0' aws-c-sdkutils: '>=0.1.15,<0.1.16.0a0' - url: https://conda.anaconda.org/conda-forge/osx-64/aws-c-auth-0.7.17-hb47d15a_2.conda + url: https://conda.anaconda.org/conda-forge/osx-64/aws-c-auth-0.7.18-hb47d15a_0.conda hash: - 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name: aws-c-io @@ -539,10 +539,10 @@ package: __osx: '>=10.9' aws-c-cal: '>=0.6.11,<0.6.12.0a0' aws-c-common: '>=0.9.15,<0.9.16.0a0' - url: https://conda.anaconda.org/conda-forge/osx-64/aws-c-io-0.14.7-h6254544_5.conda + url: https://conda.anaconda.org/conda-forge/osx-64/aws-c-io-0.14.7-h6254544_6.conda hash: - md5: de131d00c708563c725cccbf6065c1de - sha256: f9c8231cebffc5e3fad920584d49bae4095b87d36a7dfee2a9392144e3c7d314 + md5: 9c997fbd219f8db5714dbdc240e355a0 + sha256: 5d2327f3742cfabd53bf8c935eb2cffd50e3ea8c03c9fee12940b2ffb94ad1cb category: main optional: false - name: aws-c-io @@ -553,10 +553,10 @@ package: __osx: '>=11.0' aws-c-cal: '>=0.6.11,<0.6.12.0a0' aws-c-common: '>=0.9.15,<0.9.16.0a0' - url: https://conda.anaconda.org/conda-forge/osx-arm64/aws-c-io-0.14.7-h33d81b3_5.conda + url: https://conda.anaconda.org/conda-forge/osx-arm64/aws-c-io-0.14.7-h33d81b3_6.conda hash: - md5: 2c5c28515573c50b4443be66e2d3767d - sha256: 49bec72c89420b489338fa0fae816d57faafa1841a98fe35f2a49e170cb5e6fc + md5: def574dc950fa350d49db8438ca5d1af + sha256: a93a3e23c0407cbfaa9807784a32c96a00fea32b2d015f0be59c0cb79cc4aaa5 category: main optional: false - name: aws-c-io @@ -569,14 +569,14 @@ package: ucrt: '>=10.0.20348.0' vc: '>=14.2,<15' vc14_runtime: '>=14.29.30139' - url: https://conda.anaconda.org/conda-forge/win-64/aws-c-io-0.14.7-h14865c8_5.conda + url: https://conda.anaconda.org/conda-forge/win-64/aws-c-io-0.14.7-h14865c8_6.conda hash: - md5: be79abcbd37d3d46a191713c9aa5c2ee - sha256: b418eb93549e1228bdaa039dc5bdfb5b2eaf2ec3c4c7007166471d9c9b935437 + md5: e26a1f9f7170b5e683b22a6a7e95d945 + sha256: 63046d2b42b5d7fb94fa90a261c1dbef729b458e5a2465ea8dbb74959baca0f0 category: main optional: false - name: aws-c-mqtt - version: 0.10.3 + version: 0.10.4 manager: conda platform: linux-64 dependencies: @@ -584,14 +584,14 @@ package: aws-c-http: '>=0.8.1,<0.8.2.0a0' aws-c-io: '>=0.14.7,<0.14.8.0a0' libgcc-ng: '>=12' - url: https://conda.anaconda.org/conda-forge/linux-64/aws-c-mqtt-0.10.3-h50844eb_4.conda + url: https://conda.anaconda.org/conda-forge/linux-64/aws-c-mqtt-0.10.4-h50844eb_0.conda hash: - md5: e72fdd8942f266ea79c70ec085661d6c - 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url: https://conda.anaconda.org/conda-forge/osx-arm64/aws-c-mqtt-0.10.3-h5f4abda_4.conda + url: https://conda.anaconda.org/conda-forge/osx-arm64/aws-c-mqtt-0.10.4-h5f4abda_0.conda hash: - md5: 49dfa5667f57d5a7f9716ff06f80d28f - sha256: ee1296c91f1624a67199b4885f79d3123a9bbc5b7def6de056f0d8c1c4525d0d + md5: bb102021f2ad13fc2c30ed79a387d5be + sha256: f4e440118e5d7cf62cae9ca62ca94e6b07f0fd8479a65209162aa35a07dbefb2 category: main optional: false - name: aws-c-mqtt - version: 0.10.3 + version: 0.10.4 manager: conda platform: win-64 dependencies: @@ -629,12 +629,12 @@ package: aws-c-http: '>=0.8.1,<0.8.2.0a0' aws-c-io: '>=0.14.7,<0.14.8.0a0' ucrt: '>=10.0.20348.0' - vc: '>=14.3,<15' - vc14_runtime: '>=14.38.33130' - url: https://conda.anaconda.org/conda-forge/win-64/aws-c-mqtt-0.10.3-h748201e_4.conda + vc: '>=14.2,<15' + vc14_runtime: '>=14.29.30139' + url: https://conda.anaconda.org/conda-forge/win-64/aws-c-mqtt-0.10.4-h748201e_0.conda hash: - md5: 235f22fb6ae78c9807273f7726021465 - sha256: eeec7e222cb8ecf0df2e5d5c17a511ba8b16af22b12bdf6d6a9540b6e6aeb3bd + md5: a35e9daa36cf16d096e268998d86f0dd + sha256: fa510f83f8d041011675aefd5c1a708e45afdce3317fd1a8faa3e9e2fa8b771e category: main optional: false - name: aws-c-s3 @@ -642,7 +642,7 @@ package: manager: conda platform: linux-64 dependencies: - aws-c-auth: '>=0.7.17,<0.7.18.0a0' + aws-c-auth: '>=0.7.18,<0.7.19.0a0' aws-c-cal: '>=0.6.11,<0.6.12.0a0' aws-c-common: '>=0.9.15,<0.9.16.0a0' aws-c-http: '>=0.8.1,<0.8.2.0a0' @@ -650,10 +650,10 @@ package: aws-checksums: '>=0.1.18,<0.1.19.0a0' libgcc-ng: '>=12' openssl: '>=3.2.1,<4.0a0' - url: https://conda.anaconda.org/conda-forge/linux-64/aws-c-s3-0.5.7-hb7bd14b_1.conda + url: https://conda.anaconda.org/conda-forge/linux-64/aws-c-s3-0.5.7-h6be9164_2.conda hash: - md5: 82bd3d7da86d969c62ff541bab19526a - sha256: 94e2d5174ba344357801a44c303f513ae40f37c2defcc3d3747809ac11be1e27 + md5: 88b24a3a618acd279502f5960442c8a2 + sha256: 5a7c84e3be0dc041fc537a6c5dc9a63a4d7ed535d05bba8a5d49666bc022df89 category: main optional: false - name: aws-c-s3 @@ -662,16 +662,16 @@ package: platform: osx-64 dependencies: __osx: '>=10.9' - aws-c-auth: '>=0.7.17,<0.7.18.0a0' + aws-c-auth: '>=0.7.18,<0.7.19.0a0' aws-c-cal: '>=0.6.11,<0.6.12.0a0' aws-c-common: '>=0.9.15,<0.9.16.0a0' aws-c-http: '>=0.8.1,<0.8.2.0a0' aws-c-io: '>=0.14.7,<0.14.8.0a0' aws-checksums: '>=0.1.18,<0.1.19.0a0' - url: https://conda.anaconda.org/conda-forge/osx-64/aws-c-s3-0.5.7-h4907f8a_1.conda + url: https://conda.anaconda.org/conda-forge/osx-64/aws-c-s3-0.5.7-h5d4520e_2.conda hash: - md5: 7591a42fcec5b6ccf27247f66782687f - sha256: 1a6b336545f635702c4113272a413b8509762cf3572abe7e3854bdbf9807a9ed + md5: 3b1a0cb5d4bf4adc1d238a4bc3100e67 + sha256: c4585ac05c70c581f46b8f99b600099b88f0e96db9027c63fb248145c857642d category: main optional: false - name: aws-c-s3 @@ -680,16 +680,16 @@ package: platform: osx-arm64 dependencies: __osx: '>=11.0' - aws-c-auth: '>=0.7.17,<0.7.18.0a0' + aws-c-auth: '>=0.7.18,<0.7.19.0a0' aws-c-cal: '>=0.6.11,<0.6.12.0a0' aws-c-common: '>=0.9.15,<0.9.16.0a0' aws-c-http: '>=0.8.1,<0.8.2.0a0' aws-c-io: '>=0.14.7,<0.14.8.0a0' aws-checksums: '>=0.1.18,<0.1.19.0a0' - url: https://conda.anaconda.org/conda-forge/osx-arm64/aws-c-s3-0.5.7-h606a3d2_1.conda + url: https://conda.anaconda.org/conda-forge/osx-arm64/aws-c-s3-0.5.7-h7644b7e_2.conda hash: - md5: 9bd413b520a8768af02e3a5810e9a42a - 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libgoogle-cloud: '>=2.22.0,<2.23.0a0' - libgoogle-cloud-storage: '>=2.22.0,<2.23.0a0' - libwebp-base: '>=1.3.2,<2.0a0' + libgoogle-cloud: '>=2.23.0,<2.24.0a0' + libgoogle-cloud-storage: '>=2.23.0,<2.24.0a0' + libwebp-base: '>=1.4.0,<2.0a0' libzlib: '>=1.2.13,<1.3.0a0' lz4-c: '>=1.9.3,<1.10.0a0' openssl: '>=3.2.1,<4.0a0' - spdlog: '>=1.12.0,<1.13.0a0' + spdlog: '>=1.13.0,<1.14.0a0' zstd: '>=1.5.5,<1.6.0a0' - url: https://conda.anaconda.org/conda-forge/osx-arm64/tiledb-2.21.2-h96aa536_1.conda + url: https://conda.anaconda.org/conda-forge/osx-arm64/tiledb-2.22.0-hf0716ca_3.conda hash: - md5: 5655cfe4b3bcb5175b727f5f2f0120ff - sha256: ef7eb9d3119dfa90e39f44ed444e665fd33f21cdcfd849beee32231c67caab4b + md5: 1d2b8eda91ab05de7e180210cb05082e + sha256: 770fe4f59b428320159ddd5df9ea3b3a4005336bdffdb9e74a94b4fe22ffae22 category: main optional: false - name: tiledb - version: 2.21.2 + version: 2.22.0 manager: conda platform: win-64 dependencies: - aws-crt-cpp: '>=0.26.6,<0.26.7.0a0' + aws-crt-cpp: '>=0.26.8,<0.26.9.0a0' aws-sdk-cpp: '>=1.11.267,<1.11.268.0a0' azure-core-cpp: '>=1.11.1,<1.11.2.0a0' + azure-identity-cpp: '>=1.6.0,<1.6.1.0a0' azure-storage-blobs-cpp: '>=12.10.0,<12.10.1.0a0' azure-storage-common-cpp: '>=12.5.0,<12.5.1.0a0' bzip2: '>=1.0.8,<2.0a0' @@ -12797,21 +12673,21 @@ package: libabseil: '>=20240116.1,<20240117.0a0' libcrc32c: '>=1.1.2,<1.2.0a0' libcurl: '>=8.7.1,<9.0a0' - 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filename="metric.log", + filename="metrics.log", encoding="utf-8", - level=logging.DEBUG, + level=logging.INFO, ) ua = UserAgent() @@ -86,7 +87,7 @@ def federal_partners(): df = pd.read_html(io.StringIO(html)) df_clean = df[1].drop(columns=[0, 2]) df_fed_partners = pd.concat([df_clean[1], df_clean[3]]).dropna().reset_index() - logging.info(f"{df_fed_partners[0].to_string()=}") + logger.info(f"{df_fed_partners[0].to_string()=}") return df_fed_partners.shape[0] @@ -128,7 +129,7 @@ def ngdac_gliders_fast(min_time="2000-01-01T00:00:00Z", max_time="2023-12-31T23: # Check if any value is NaN and report it. if df.isna().sum().sum(): rows = df.loc[df.isna().sum(axis=1).astype(bool)] - logging.warning(f"The following rows have missing data:\n{rows}") + logger.warning(f"The following rows have missing data:\n{rows}") df = df.dropna( axis=0, @@ -279,7 +280,7 @@ def comt(): for tag in soup.find_all("h2"): if tag.text == "Current Projects": - logging.info(f"{tag.next_sibling.find_all('li')=}") + logger.info(f"{tag.next_sibling.find_all('li')=}") comt = len(tag.next_sibling.find_all("li")) return comt @@ -296,7 +297,7 @@ def regional_associations(): for tag in soup.find_all("a"): if tag.find("strong") is not None: - logging.info(f"{tag.find('strong').text=}") + logger.info(f"{tag.find('strong').text=}") ras += 1 return ras @@ -366,7 +367,7 @@ def ott_projects(): ott_projects = 0 for entry in df[0]: - logging.info(f"{df[0][entry][0].count('new in')=}") + logger.info(f"{df[0][entry][0].count('new in')=}") ott_projects += df[0][entry][0].count("new in") return ott_projects @@ -396,7 +397,7 @@ def qartod_manuals(): qartod = 0 for tag in soup.find_all("li"): if "Real-Time Quality Control of" in tag.text: - logging.info(f"{tag.text=}") + logger.info(f"{tag.text=}") qartod += 1 return qartod @@ -561,12 +562,12 @@ def update_metrics(*, debug=False): try: num = function() except Exception: - logging.exception(f"{column=} failed.") + logger.exception(f"{column=} failed.") num = None new_row.update({column: num}) # Log status. message = _compare_metrics(column=column, num=num) - logging.info(f"{message}") + logger.info(f"{message}") else: cpu_count = joblib.cpu_count() parallel = joblib.Parallel(n_jobs=cpu_count, return_as="generator") diff --git a/ioos_metrics/national_platforms.py b/ioos_metrics/national_platforms.py index e4ac7a0..4725a46 100644 --- a/ioos_metrics/national_platforms.py +++ b/ioos_metrics/national_platforms.py @@ -27,11 +27,7 @@ from bs4 import BeautifulSoup from fake_useragent import UserAgent -logging.basicConfig( - filename="national_platforms.log", - encoding="utf-8", - level=logging.DEBUG, -) +logger = logging.getLogger(__name__) ua = UserAgent() _HEADERS = { @@ -53,7 +49,8 @@ def get_coops(): timeout=10, ).text - return sum(1 for _ in re.finditer(r"\b%s\b" % re.escape("station name"), xml)) + station_name = re.escape("station name") + return sum(1 for _ in re.finditer(rf"\b{station_name}\b", xml)) @functools.lru_cache(maxsize=128) diff --git a/pyproject.toml b/pyproject.toml new file mode 100644 index 0000000..16718ce --- /dev/null +++ b/pyproject.toml @@ -0,0 +1,63 @@ +[build-system] +build-backend = "setuptools.build_meta" +requires = [ + "setuptools>=42", + "setuptools_scm", + "wheel", +] + +[project] +name = "ioos_metrics" +description = "Package to fetch various metrics for IOOS by the numbers" +readme = "README.md" +license = {file = "LICENSE"} +maintainers = [ + {name = "Filipe Fernandes"}, +] +requires-python = ">=3.10" +classifiers = [ + "Programming Language :: Python :: 3 :: Only", + "Programming Language :: Python :: 3.10", + "Programming Language :: Python :: 3.11", + "Programming Language :: Python :: 3.12", +] +dynamic = [ + "version", +] +dependencies = [ + "bs4", + "ckanapi", + "fake-useragent", + "geopandas>=0.13.2", + "gliderpy", + "html5lib", + "joblib", + "lxml", + "pandas", + "pdfminer.six", + "pyarrow", + "requests", +] +[project.urls] +documentation = "https://ioos.github.io/ioos_metrics" +homepage = "https://github.com/ioos/ioos_metrics" +repository = "https://github.com/ioos/ioos_metrics" + +[tool.setuptools] +packages = ["ioos_metrics"] +include-package-data = true + +[tool.setuptools_scm] +write_to = "ioos_metrics/_version.py" +write_to_template = "__version__ = '{version}'" +tag_regex = "^(?Pv)?(?P[^\\+]+)(?P.*)?$" + +[tool.check-manifest] +ignore = [ + "website", + "website/*", + "gts", + "gts/*", + "tests", + "tests/*", +]