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cell2loc_env.yml
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name: /cluster/work/boeva/jyates/EAC_singlecell/cell2loc_env
channels:
- main
- r
- conda-forge
- bioconda
- pytorch
dependencies:
- _libgcc_mutex=0.1=main
- _openmp_mutex=5.1=1_gnu
- ca-certificates=2024.3.11=h06a4308_0
- ld_impl_linux-64=2.38=h1181459_1
- libffi=3.4.4=h6a678d5_1
- libgcc-ng=11.2.0=h1234567_1
- libgomp=11.2.0=h1234567_1
- libstdcxx-ng=11.2.0=h1234567_1
- ncurses=6.4=h6a678d5_0
- openssl=3.0.13=h7f8727e_1
- pip=24.0=py39h06a4308_0
- python=3.9.19=h955ad1f_1
- readline=8.2=h5eee18b_0
- setuptools=69.5.1=py39h06a4308_0
- sqlite=3.45.3=h5eee18b_0
- tk=8.6.14=h39e8969_0
- wheel=0.43.0=py39h06a4308_0
- xz=5.4.6=h5eee18b_1
- zlib=1.2.13=h5eee18b_1
- pip:
- absl-py==2.1.0
- aiobotocore==2.5.4
- aiohttp==3.9.5
- aioitertools==0.11.0
- aiosignal==1.3.1
- anndata==0.10.7
- annotated-types==0.6.0
- anyio==4.3.0
- argon2-cffi==23.1.0
- argon2-cffi-bindings==21.2.0
- array-api-compat==1.6
- arrow==1.3.0
- asciitree==0.3.3
- asttokens==2.4.1
- async-lru==2.0.4
- async-timeout==4.0.3
- attrs==23.2.0
- babel==2.15.0
- backoff==2.2.1
- beautifulsoup4==4.12.3
- bleach==6.1.0
- blessed==1.20.0
- boto3==1.34.102
- botocore==1.31.17
- cell2location==0.1.3
- certifi==2024.2.2
- cffi==1.16.0
- charset-normalizer==3.3.2
- chex==0.1.7
- click==8.1.7
- click-plugins==1.1.1
- cligj==0.7.2
- cloudpickle==3.0.0
- colorama==0.4.6
- colorcet==3.1.0
- comm==0.2.2
- contextlib2==21.6.0
- contourpy==1.2.1
- croniter==1.4.1
- cycler==0.12.1
- dask==2024.5.0
- dask-expr==1.1.0
- dask-image==2023.8.1
- datashader==0.16.1
- dateutils==0.6.12
- debugpy==1.8.1
- decorator==5.1.1
- deepdiff==7.0.1
- defusedxml==0.7.1
- distributed==2024.5.0
- dm-tree==0.1.8
- dnspython==2.6.1
- docrep==0.3.2
- editor==1.6.6
- email-validator==2.1.1
- etils==1.5.2
- exceptiongroup==1.2.1
- executing==2.0.1
- fastapi==0.111.0
- fastapi-cli==0.0.3
- fasteners==0.19
- fastjsonschema==2.19.1
- filelock==3.14.0
- fiona==1.9.6
- flax==0.8.3
- fonttools==4.51.0
- fqdn==1.5.1
- frozenlist==1.4.1
- fsspec==2023.6.0
- geopandas==0.14.4
- get-annotations==0.1.2
- gtfparse==2.5.0
- h11==0.14.0
- h5py==3.11.0
- httpcore==1.0.5
- httptools==0.6.1
- httpx==0.27.0
- idna==3.7
- igraph==0.11.5
- imageio==2.34.1
- importlib-metadata==7.1.0
- importlib-resources==6.4.0
- infercnvpy==0.4.5
- inflect==7.2.1
- inquirer==3.2.4
- ipykernel==6.29.4
- ipython==8.18.1
- ipython-genutils==0.2.0
- ipywidgets==8.1.2
- isoduration==20.11.0
- itsdangerous==2.2.0
- jax==0.4.23
- jaxlib==0.4.23
- jedi==0.19.1
- jinja2==3.1.4
- jmespath==1.0.1
- joblib==1.4.2
- json5==0.9.25
- jsonpointer==2.4
- jsonschema==4.22.0
- jsonschema-specifications==2023.12.1
- jupyter==1.0.0
- jupyter-client==8.6.1
- jupyter-console==6.6.3
- jupyter-core==5.7.2
- jupyter-events==0.10.0
- jupyter-lsp==2.2.5
- jupyter-server==2.14.0
- jupyter-server-terminals==0.5.3
- jupyterlab==4.1.8
- jupyterlab-pygments==0.3.0
- jupyterlab-server==2.27.1
- jupyterlab-widgets==3.0.10
- kdepy==1.1.9
- kiwisolver==1.4.5
- lazy-loader==0.4
- legacy-api-wrap==1.4
- leidenalg==0.10.2
- lightning==2.0.9.post0
- lightning-cloud==0.5.69
- lightning-utilities==0.11.2
- llvmlite==0.42.0
- locket==1.0.0
- markdown-it-py==3.0.0
- markupsafe==2.1.5
- matplotlib==3.8.4
- matplotlib-inline==0.1.7
- matplotlib-scalebar==0.8.1
- mdurl==0.1.2
- mistune==3.0.2
- ml-collections==0.1.1
- ml-dtypes==0.4.0
- more-itertools==10.2.0
- mpmath==1.3.0
- msgpack==1.0.8
- mudata==0.2.3
- multidict==6.0.5
- multipledispatch==1.0.0
- multiscale-spatial-image==0.11.2
- natsort==8.4.0
- nbclient==0.10.0
- nbconvert==7.16.4
- nbformat==5.10.4
- nest-asyncio==1.6.0
- networkx==3.2.1
- notebook==6.1.5
- notebook-shim==0.2.4
- numba==0.59.1
- numcodecs==0.12.1
- numpy==1.26.4
- numpyro==0.14.0
- nvidia-cublas-cu12==12.1.3.1
- nvidia-cuda-cupti-cu12==12.1.105
- nvidia-cuda-nvrtc-cu12==12.1.105
- nvidia-cuda-runtime-cu12==12.1.105
- nvidia-cudnn-cu12==8.9.2.26
- nvidia-cufft-cu12==11.0.2.54
- nvidia-curand-cu12==10.3.2.106
- nvidia-cusolver-cu12==11.4.5.107
- nvidia-cusparse-cu12==12.1.0.106
- nvidia-nccl-cu12==2.20.5
- nvidia-nvjitlink-cu12==12.4.127
- nvidia-nvtx-cu12==12.1.105
- ome-zarr==0.8.3
- omnipath==1.0.8
- opencv-python==4.9.0.80
- opt-einsum==3.3.0
- optax==0.2.1
- orbax-checkpoint==0.5.10
- ordered-set==4.1.0
- orjson==3.10.3
- overrides==7.7.0
- packaging==24.0
- pandas==1.5.3
- pandocfilters==1.5.1
- param==2.1.0
- parso==0.8.4
- partd==1.4.2
- patsy==0.5.6
- pexpect==4.9.0
- pillow==10.3.0
- pims==0.6.1
- platformdirs==4.2.1
- polars==0.20.25
- pretty-errors==1.2.25
- prometheus-client==0.20.0
- prompt-toolkit==3.0.43
- protobuf==5.26.1
- psutil==5.9.8
- ptyprocess==0.7.0
- pure-eval==0.2.2
- pyarrow==14.0.2
- pycparser==2.22
- pyct==0.5.0
- pydantic==2.1.1
- pydantic-core==2.4.0
- pygeos==0.14
- pygments==2.18.0
- pyjwt==2.8.0
- pynndescent==0.5.12
- pyparsing==3.1.2
- pyproj==3.6.1
- pyreadr==0.5.0
- pyro-api==0.1.2
- pyro-ppl==1.9.0
- python-dateutil==2.9.0.post0
- python-dotenv==1.0.1
- python-json-logger==2.0.7
- python-multipart==0.0.9
- pytoml==0.1.21
- pytorch-lightning==2.2.4
- pytz==2024.1
- pyyaml==6.0.1
- pyzmq==26.0.3
- qtconsole==5.5.2
- qtpy==2.4.1
- readchar==4.0.6
- referencing==0.35.1
- requests==2.31.0
- rfc3339-validator==0.1.4
- rfc3986-validator==0.1.1
- rich==13.7.1
- rpds-py==0.18.1
- runs==1.2.2
- s3fs==2023.6.0
- s3transfer==0.10.1
- scanpy==1.10.1
- scikit-image==0.22.0
- scikit-learn==1.4.2
- scipy==1.11.1
- scvi-tools==1.0.4
- seaborn==0.11.2
- send2trash==1.8.3
- session-info==1.0.0
- shapely==2.0.4
- shellingham==1.5.4
- six==1.16.0
- slicerator==1.1.0
- sniffio==1.3.1
- sortedcontainers==2.4.0
- soupsieve==2.5
- sparse==0.15.1
- spatial-image==0.3.0
- spatialdata==0.0.15
- squidpy==1.4.1
- stack-data==0.6.3
- starlette==0.37.2
- starsessions==1.3.0
- statannotations==0.6.0
- statsmodels==0.14.2
- stdlib-list==0.10.0
- sympy==1.12
- tblib==3.0.0
- tensorstore==0.1.59
- terminado==0.18.1
- texttable==1.7.0
- threadpoolctl==3.5.0
- tifffile==2024.5.10
- tinycss2==1.3.0
- tomli==2.0.1
- toolz==0.12.1
- torch==2.3.0
- torchmetrics==1.4.0
- tornado==6.4
- tqdm==4.66.4
- traitlets==5.14.3
- triton==2.3.0
- typeguard==4.2.1
- typer==0.12.3
- types-python-dateutil==2.9.0.20240316
- typing-extensions==4.11.0
- tzdata==2024.1
- ujson==5.9.0
- umap-learn==0.5.6
- uri-template==1.3.0
- urllib3==1.26.18
- uvicorn==0.29.0
- uvloop==0.19.0
- validators==0.28.1
- watchfiles==0.21.0
- wcwidth==0.2.13
- webcolors==1.13
- webencodings==0.5.1
- websocket-client==1.8.0
- websockets==12.0
- widgetsnbextension==4.0.10
- wrapt==1.16.0
- xarray==2023.12.0
- xarray-dataclasses==1.7.0
- xarray-datatree==0.0.14
- xarray-schema==0.0.3
- xarray-spatial==0.4.0
- xmod==1.8.1
- yarl==1.9.4
- zarr==2.18.0
- zict==3.0.0
- zipp==3.18.1
prefix: /cluster/work/boeva/jyates/EAC_singlecell/cell2loc_env