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try micromamba environment
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@kevinrue
kevinrue committed Aug 22, 2024
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282 changes: 281 additions & 1 deletion R/basilisk.R
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channels = c("bioconda", "conda-forge"),
packages = c(
c(
'scvelo==0.2.4'
'_libgcc_mutex==0.1',
'_openmp_mutex==4.5',
'absl-py==2.1.0',
'anndata==0.10.8',
'annotated-types==0.7.0',
'anyio==4.4.0',
'aom==3.9.1',
'array-api-compat==1.8',
'arrow==1.3.0',
'backoff==2.2.1',
'beautifulsoup4==4.12.3',
'blessed==1.19.1',
'blosc==1.21.6',
'boto3==1.35.3',
'botocore==1.35.3',
'brotli==1.1.0',
'brotli-bin==1.1.0',
'brotli-python==1.1.0',
'bzip2==1.0.8',
'c-ares==1.33.0',
'ca-certificates==2024.7.4',
'cachecontrol==0.14.0',
'cachecontrol-with-filecache==0.14.0',
'cached-property==1.5.2',
'cached_property==1.5.2',
'certifi==2024.7.4',
'cffi==1.17.0',
'charset-normalizer==3.3.2',
'chex==0.1.86',
'cleo==2.1.0',
'click==8.1.7',
'colorama==0.4.6',
'contextlib2==21.6.0',
'contourpy==1.2.1',
'crashtest==0.4.1',
'croniter==1.4.1',
'cryptography==43.0.0',
'cycler==0.12.1',
'dateutils==0.6.12',
'dav1d==1.2.1',
'dbus==1.13.6',
'deepdiff==7.0.1',
'distlib==0.3.8',
'dnspython==2.6.1',
'docrep==0.3.2',
'dulwich==0.21.7',
'email-validator==2.2.0',
'email_validator==2.2.0',
'et_xmlfile==1.1.0',
'etils==1.9.2',
'exceptiongroup==1.2.2',
'expat==2.6.2',
'fastapi==0.112.1',
'fastapi-cli==0.0.5',
'filelock==3.15.4',
'flax==0.8.5',
'fonttools==4.53.1',
'freetype==2.12.1',
'fsspec==2024.6.1',
'get-annotations==0.1.2',
'gmp==6.3.0',
'gmpy2==2.1.5',
'h11==0.14.0',
'h2==4.1.0',
'h5py==3.11.0',
'hdf5==1.14.3',
'hpack==4.0.0',
'httpcore==1.0.5',
'httpx==0.27.0',
'hyperframe==6.0.1',
'icu==75.1',
'idna==3.7',
'importlib-metadata==8.4.0',
'importlib_metadata==8.4.0',
'importlib_resources==6.4.4',
'inquirer==3.1.4',
'itsdangerous==2.2.0',
'jaraco.classes==3.4.0',
'jax==0.4.31',
'jaxlib==0.4.31',
'jeepney==0.8.0',
'jinja2==3.1.4',
'jmespath==1.0.1',
'joblib==1.4.2',
'keyring==24.3.1',
'keyutils==1.6.1',
'kiwisolver==1.4.5',
'krb5==1.21.3',
'lcms2==2.16',
'ld_impl_linux-64==2.40',
'legacy-api-wrap==1.4',
'lerc==4.0.0',
'libabseil==20240116.2',
'libaec==1.1.3',
'libavif16==1.1.1',
'libblas==3.9.0',
'libbrotlicommon==1.1.0',
'libbrotlidec==1.1.0',
'libbrotlienc==1.1.0',
'libcblas==3.9.0',
'libcurl==8.9.1',
'libdeflate==1.21',
'libedit==3.1.20191231',
'libev==4.33',
'libexpat==2.6.2',
'libffi==3.4.2',
'libgcc-ng==14.1.0',
'libgfortran-ng==14.1.0',
'libgfortran5==14.1.0',
'libglib==2.80.3',
'libgomp==14.1.0',
'libgrpc==1.62.2',
'libhwloc==2.11.1',
'libiconv==1.17',
'libjpeg-turbo==3.0.0',
'liblapack==3.9.0',
'libllvm14==14.0.6',
'libnghttp2==1.58.0',
'libnsl==2.0.1',
'libopenblas==0.3.27',
'libpng==1.6.43',
'libprotobuf==4.25.3',
'libre2-11==2023.09.01',
'libsqlite==3.46.0',
'libssh2==1.11.0',
'libstdcxx-ng==14.1.0',
'libtiff==4.6.0',
'libtorch==2.3.1',
'libuuid==2.38.1',
'libuv==1.48.0',
'libwebp-base==1.4.0',
'libxcb==1.16',
'libxcrypt==4.4.36',
'libxml2==2.12.7',
'libzlib==1.3.1',
'lightning==2.0.9.post0',
'lightning-cloud==0.5.70',
'lightning-utilities==0.11.6',
'llvmlite==0.43.0',
'loompy==3.0.6',
'lz4-c==1.9.4',
'markdown-it-py==3.0.0',
'markupsafe==2.1.5',
'matplotlib-base==3.9.2',
'mdurl==0.1.2',
'ml-collections==0.1.1',
'ml_dtypes==0.4.0',
'more-itertools==10.4.0',
'mpc==1.3.1',
'mpfr==4.2.1',
'mpmath==1.3.0',
'msgpack-python==1.0.8',
'mudata==0.3.0',
'multipledispatch==0.6.0',
'munkres==1.1.4',
'natsort==8.4.0',
'ncurses==6.5',
'nest-asyncio==1.6.0',
'networkx==3.3',
'nomkl==1.0',
'numba==0.60.0',
'numpy==1.26.4',
'numpy_groupies==0.11.2',
'numpyro==0.15.2',
'openjpeg==2.5.2',
'openpyxl==3.1.5',
'openssl==3.3.1',
'opt-einsum==3.3.0',
'opt_einsum==3.3.0',
'optax==0.2.2',
'orbax-checkpoint==0.4.4',
'ordered-set==4.1.0',
'orjson==3.10.7',
'packaging==24.1',
'pandas==2.2.2',
'patsy==0.5.6',
'pcre2==10.44',
'pexpect==4.9.0',
'pillow==10.4.0',
'pip==24.2',
'pkginfo==1.11.1',
'platformdirs==4.2.2',
'poetry==1.8.3',
'poetry-core==1.9.0',
'poetry-plugin-export==1.8.0',
'protobuf==4.25.3',
'psutil==6.0.0',
'pthread-stubs==0.4',
'ptyprocess==0.7.0',
'pybind11-abi==4',
'pycparser==2.22',
'pydantic==2.1.1',
'pydantic-core==2.4.0',
'pygments==2.18.0',
'pyjwt==2.9.0',
'pynndescent==0.5.13',
'pyparsing==3.1.2',
'pyproject_hooks==1.1.0',
'pyro-api==0.1.2',
'pyro-ppl==1.9.1',
'pysocks==1.7.1',
'python==3.11.9',
'python-build==1.2.1',
'python-dateutil==2.9.0',
'python-editor==1.0.4',
'python-fastjsonschema==2.20.0',
'python-installer==0.7.0',
'python-multipart==0.0.9',
'python-tzdata==2024.1',
'python_abi==3.11',
'pytorch==2.3.1',
'pytorch-lightning==2.4.0',
'pytz==2024.1',
'pyyaml==6.0.2',
'qhull==2020.2',
'rapidfuzz==3.9.6',
'rav1e==0.6.6',
're2==2023.09.01',
'readchar==4.2.0',
'readline==8.2',
'requests==2.32.3',
'requests-toolbelt==1.0.0',
'rich==13.7.1',
's3transfer==0.10.2',
'scanpy==1.10.2',
'scikit-learn==1.1.3',
'scipy==1.13.1',
'scvelo==0.3.2',
'scvi-tools==1.1.6',
'seaborn==0.13.2',
'seaborn-base==0.13.2',
'secretstorage==3.3.3',
'session-info==1.0.0',
'setuptools==72.2.0',
'shellingham==1.5.4',
'six==1.16.0',
'sleef==3.6.1',
'snappy==1.2.1',
'sniffio==1.3.1',
'soupsieve==2.5',
'sparse==0.15.4',
'starlette==0.38.2',
'starsessions==1.3.0',
'statsmodels==0.14.2',
'stdlib-list==0.10.0',
'svt-av1==2.1.2',
'sympy==1.13.2',
'tbb==2021.12.0',
'tensorstore==0.1.62',
'threadpoolctl==3.5.0',
'tk==8.6.13',
'tomli==2.0.1',
'tomlkit==0.13.2',
'toolz==0.12.1',
'torchmetrics==1.4.0.post0',
'tqdm==4.66.5',
'traitlets==5.14.3',
'trove-classifiers==2024.7.2',
'typer==0.12.4',
'typer-slim==0.12.4',
'typer-slim-standard==0.12.4',
'types-python-dateutil==2.9.0.20240821',
'typing-extensions==4.12.2',
'typing_extensions==4.12.2',
'tzdata==2024a',
'umap-learn==0.5.6',
'urllib3==2.2.2',
'uvicorn==0.30.6',
'virtualenv==20.26.3',
'wcwidth==0.2.13',
'websocket-client==1.8.0',
'websockets==12.0',
'wheel==0.44.0',
'xarray==2024.7.0',
'xorg-libxau==1.0.11',
'xorg-libxdmcp==1.1.3',
'xz==5.2.6',
'yaml==0.2.5',
'zipp==3.20.0',
'zstandard==0.23.0',
'zstd==1.5.6'
)
)
)
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