changing requirements.txt

.github/workflows/test.yml

@@ -21,7 +21,7 @@ jobs:
       - name: Set up Python 3.9
         uses: actions/setup-python@v4
         with:
-          python-version: "3.9"
+          python-version: "3.12"
 
       # Install dependencies using requirements.txt
       - name: Install dependencies

requirements.txt

@@ -1,117 +1,28 @@
-anndata==0.10.9
-antlr-denter==1.3.1
-antlr4-python3-runtime==4.9.3
-appnope==0.1.4
-array_api_compat==1.8
-asttokens==2.4.1
-automata-lib==8.4.0
-bandit==1.7.10
-black==24.8.0
-cached_method==0.1.0
-certifi==2024.8.30
-charset-normalizer==3.3.2
-click==8.1.7
 cloudpickle==3.0.0
-cna==0.1.6
-colorama==0.4.6
-comm==0.2.2
 contourpy==1.3.0
-coverage==7.6.1
 cycler==0.12.1
-DateTime==5.5
-debugpy==1.8.6
-decorator==5.1.1
-exceptiongroup==1.2.2
-executing==2.1.0
-filelock==3.16.0
-fonttools==4.53.1
-frozendict==2.4.4
-fsspec==2024.9.0
-h5py==3.11.0
-harmony==1.2.3613
-harmony-pytorch==0.1.8
-harmonypy==0.0.10
-idna==3.10
-iniconfig==2.0.0
-ipykernel==6.29.5
-ipython==8.27.0
-isort==5.13.2
-jedi==0.19.1
-Jinja2==3.1.4
+dunamai==1.22.0
+fonttools==4.54.1
 joblib==1.4.2
-jupyter_client==8.6.3
-jupyter_core==5.7.2
 kiwisolver==1.4.7
-legacy-api-wrap==1.4
 llvmlite==0.43.0
-mando==0.7.1
-markdown-it-py==3.0.0
-MarkupSafe==2.1.5
 matplotlib==3.9.2
-matplotlib-inline==0.1.7
-mdurl==0.1.2
-mizani==0.11.4
-mpmath==1.3.0
-multianndata==0.0.4
-mypy-extensions==1.0.0
-natsort==8.4.0
-nest-asyncio==1.6.0
-networkx==3.0
 numba==0.60.0
 numpy==2.0.2
 packaging==24.1
-pandas==2.2.2
-parso==0.8.4
-pathspec==0.12.1
+pandas==2.2.3
 patsy==0.5.6
-pbr==6.1.0
-pexpect==4.9.0
 pillow==10.4.0
-platformdirs==4.3.6
-plotnine==0.13.6
-pluggy==1.5.0
-prompt_toolkit==3.0.47
-psutil==6.0.0
-ptyprocess==0.7.0
-pure_eval==0.2.3
-pydot==3.0.1
-Pygments==2.18.0
-pynndescent==0.5.13
 pyparsing==3.1.4
-pyreadr==0.5.2
-pytest==7.4.0
 python-dateutil==2.9.0.post0
 pytz==2024.2
-PyYAML==6.0.2
-pyzmq==26.2.0
-radon==6.0.1
-requests==2.32.3
-rich==13.8.1
-scanpy==1.10.3
 scikit-learn==1.5.2
 scipy==1.14.1
-seaborn==0.13.2
-session_info==1.0.0
 shap==0.46.0
 six==1.16.0
 slicer==0.0.8
-stack-data==0.6.3
-statannotations==0.4.4
-statsmodels==0.14.3
-stdlib-list==0.10.0
-stevedore==5.3.0
-sympy==1.13.2
+statsmodels==0.14.4
 threadpoolctl==3.5.0
-tomli==2.0.1
-torch==2.4.1
-tornado==6.4.1
 tqdm==4.66.5
-traitlets==5.14.3
-typing_extensions==4.12.2
-tzdata==2024.1
-umap-learn==0.5.6
-urllib3==2.2.3
-vulture==2.12
-wcwidth==0.2.13
+tzdata==2024.2
 xgboost==2.1.1
-zope.interface==7.0.3