From f15975ae755f1da5a849acb6f8edd5662be3d72f Mon Sep 17 00:00:00 2001 From: Nico Matentzoglu Date: Fri, 25 Oct 2024 10:24:00 +0300 Subject: [PATCH] Update SSSOM schema version to 1.0 and dropping python 3.8 support (#556) --- .github/workflows/qc.yml | 4 +- poetry.lock | 2033 ++++++++++++++++++++------------------ pyproject.toml | 4 +- tests/test_reconcile.py | 2 +- tox.ini | 24 +- 5 files changed, 1085 insertions(+), 982 deletions(-) diff --git a/.github/workflows/qc.yml b/.github/workflows/qc.yml index 56a33c67..e9b63d87 100644 --- a/.github/workflows/qc.yml +++ b/.github/workflows/qc.yml @@ -12,7 +12,7 @@ jobs: strategy: matrix: os: [ubuntu-latest, windows-latest] - python-version: [ "3.8", "3.9", "3.10" ] + python-version: [ "3.9", "3.10", "3.11", "3.12" ] steps: - uses: actions/checkout@v3.0.2 @@ -56,6 +56,8 @@ jobs: # Note: The lock file will always have pandas > 2.0.0 #----------------------------------------------------- - name: Test with pandas<2.0.0 + if: matrix.python-version != '3.12' run: | poetry add "pandas<2.0.0" + poetry add "numpy<1.24" poetry run tox -e py \ No newline at end of file diff --git a/poetry.lock b/poetry.lock index 931807db..b3cec363 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,14 +1,14 @@ -# This file is automatically @generated by Poetry 1.8.2 and should not be changed by hand. +# This file is automatically @generated by Poetry 1.8.4 and should not be changed by hand. 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a/pyproject.toml +++ b/pyproject.toml @@ -11,14 +11,14 @@ license = "MIT" readme = "README.md" [tool.poetry.dependencies] -python = "^3.8.1" +python = ">=3.9,<4.0.0" click = ">=8.1.6" curies = ">=0.7.3" linkml-runtime = "^1.7.5" linkml = ">1.7.10" pandas = ">1.0.3" pansql = { version = ">=0.0.1", extras = ["pansql"] } -sssom-schema = "^0.15.2" +sssom-schema = "^1.0.0" networkx = { version = ">=3.1", extras = ["networkx"] } sparqlwrapper = ">=2.0.0" validators = ">=0.20.0" diff --git a/tests/test_reconcile.py b/tests/test_reconcile.py index 9c322704..597996d9 100644 --- a/tests/test_reconcile.py +++ b/tests/test_reconcile.py @@ -25,7 +25,7 @@ def test_filter(self): # Create a new dataframe with the confidence column having NaN values import numpy as np - self.msdf1.df["confidence"] = np.NAN + self.msdf1.df["confidence"] = np.nan df3 = filter_redundant_rows(self.msdf1.df) self.assertEqual(11, len(df3.index)) diff --git a/tox.ini b/tox.ini index a4bfd589..000f58d2 100644 --- a/tox.ini +++ 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