removed jupyter, added uv-tox, dependency constraints for python312

florisvdf · Oct 25, 2024 · 1dea96d · 1dea96d
1 parent c300b02
commit 1dea96d
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Showing 4 changed files with 333 additions and 1,609 deletions.
diff --git a/.github/workflows/setup-and-test.yml b/.github/workflows/setup-and-test.yml
@@ -26,10 +26,10 @@ jobs:
         run:
 #          python -m pip install --upgrade pip
 #          pip install tox
-          uv tool install tox --with tox-uv
+          uv tool install tox --with tox-uv # Allows running uv in tox.ini
 
       - name: Run Tox
-        run: tox
+        run: uv tool run tox
 
 #      - name: Install the project
 #        run: uv sync --all-extras --dev

diff --git a/pyproject.toml b/pyproject.toml
@@ -8,19 +8,18 @@ dependencies = [
     "biotite>=0.40.0",
     "matplotlib>=3.7.5",
     "pandas>=2.0.3",
-    "jupyter>=1.1.1",
     "seaborn>=0.13.2",
     "loguru>=0.7.2",
     "ruff>=0.6.9",
     "polyleven>=0.8",
     "scikit-learn>=1.3.2",
     "pytest>=8.3.3",
     "numpy>1.24.4",
-    "tox>=4.23.2",
-]
+    "scipy>=1.10.1",
 
-numpy = [
-    ">=2.0; python_version >= '3.12'"
+    "numpy>=2.0; python_version >= '3.12'",
+    "scipy>=1.14.1; python_version >= '3.12'",
+    "pandas>=2.2.2; python_version >= '3.12'"
 ]
 
 

diff --git a/tox.ini b/tox.ini
@@ -2,6 +2,7 @@
 envlist = py39, py310, py311, py312
 
 [testenv]
+runner = uv-venv-lock-runner
 deps =
     pytest
     ruff
-Original file line number
+Diff line change
@@ Expand Up / @@ -2,6 +2,7 @@ @@
     envlist = py39, py310, py311, py312
     [testenv]
+    runner = uv-venv-lock-runner
     deps =
         pytest
         ruff
@@ Expand Down @@