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crenv.yaml
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name: cellranger
channels:
- bioconda
- pytorch
- nvidia
- defaults
- conda-forge
- https://repo.anaconda.com/pkgs/main
- https://repo.anaconda.com/pkgs/r
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=2_gnu
- absl-py=1.4.0=py310h06a4308_0
- aiohttp=3.9.1=py310h2372a71_0
- aiosignal=1.3.1=pyhd8ed1ab_0
- anndata=0.10.7=pyhd8ed1ab_0
- ansi2html=1.9.1=py310h06a4308_0
- anyio=3.5.0=py310h06a4308_0
- argon2-cffi=21.3.0=pyhd3eb1b0_0
- argon2-cffi-bindings=21.2.0=py310h7f8727e_0
- arpack=3.8.0=nompi_h0baa96a_101
- array-api-compat=1.6=pyhd8ed1ab_0
- arrow=1.2.3=py310h06a4308_1
- asttokens=2.0.5=pyhd3eb1b0_0
- async-lru=2.0.4=py310h06a4308_0
- async-timeout=4.0.3=pyhd8ed1ab_0
- attrs=23.1.0=py310h06a4308_0
- babel=2.11.0=py310h06a4308_0
- backoff=2.2.1=py310h06a4308_1
- beautifulsoup4=4.12.2=py310h06a4308_0
- blas=1.0=mkl
- bleach=4.1.0=pyhd3eb1b0_0
- blessed=1.20.0=py310h06a4308_0
- blinker=1.7.0=pyhd8ed1ab_0
- boto3=1.29.1=py310h06a4308_0
- botocore=1.32.1=py310h06a4308_0
- bottleneck=1.4.2=py310ha9d4c09_0
- brotli=1.0.9=h5eee18b_7
- brotli-bin=1.0.9=h5eee18b_7
- brotli-python=1.0.9=py310hd8f1fbe_8
- bzip2=1.0.8=h7b6447c_0
- c-ares=1.19.1=h5eee18b_0
- ca-certificates=2024.12.31=h06a4308_0
- cachetools=5.3.2=pyhd8ed1ab_0
- certifi=2025.1.31=py310h06a4308_0
- cffi=1.16.0=py310h5eee18b_0
- charset-normalizer=3.3.2=pyhd8ed1ab_0
- chex=0.1.83=pyhd8ed1ab_0
- click=8.1.7=py310h06a4308_0
- coloredlogs=15.0.1=py310h06a4308_2
- colormath=3.0.0=py_2
- comm=0.2.2=pyhd8ed1ab_1
- contourpy=1.2.0=py310hdb19cb5_0
- croniter=1.3.7=py310h06a4308_0
- cryptography=42.0.2=py310hb8475ec_0
- cuda-cudart=12.1.105=0
- cuda-cupti=12.1.105=0
- cuda-libraries=12.1.0=0
- cuda-nvcc=12.3.107=0
- cuda-nvrtc=12.1.105=0
- cuda-nvtx=12.1.105=0
- cuda-opencl=12.3.101=0
- cuda-runtime=12.1.0=0
- cycler=0.11.0=pyhd3eb1b0_0
- cyrus-sasl=2.1.28=h52b45da_1
- dash=2.14.2=py310h06a4308_0
- dash-ag-grid=31.2.0=pyhd8ed1ab_0
- dash-bootstrap-components=1.6.0=pyhd8ed1ab_0
- dash-core-components=2.0.0=py310h06a4308_0
- dash-html-components=2.0.0=py310h06a4308_0
- dash-table=5.0.0=py310h06a4308_0
- dateutils=0.6.12=py310h06a4308_0
- dbus=1.13.18=hb2f20db_0
- debugpy=1.6.7=py310h6a678d5_0
- decorator=5.1.1=pyhd3eb1b0_0
- deepdiff=6.7.1=py310h2f386ee_0
- defusedxml=0.7.1=pyhd3eb1b0_0
- dm-tree=0.1.7=py310h6a678d5_1
- docrep=0.3.2=pyh44b312d_0
- entrypoints=0.4=pyhd8ed1ab_1
- exceptiongroup=1.0.4=py310h06a4308_0
- executing=0.8.3=pyhd3eb1b0_0
- expat=2.5.0=h6a678d5_0
- fastapi=0.103.0=py310h06a4308_0
- ffmpeg=4.3=hf484d3e_0
- filelock=3.13.1=pyhd8ed1ab_0
- flask=2.2.5=py310h06a4308_0
- flask-compress=1.13=py310h06a4308_0
- flax=0.6.1=pyhd8ed1ab_1
- font-ttf-dejavu-sans-mono=2.37=hd3eb1b0_0
- font-ttf-inconsolata=2.001=hcb22688_0
- font-ttf-source-code-pro=2.030=hd3eb1b0_0
- font-ttf-ubuntu=0.83=h8b1ccd4_0
- fontconfig=2.14.2=h14ed4e7_0
- fonts-anaconda=1=h8fa9717_0
- fonttools=4.25.0=pyhd3eb1b0_0
- freetype=2.12.1=h4a9f257_0
- frozenlist=1.4.1=py310h2372a71_0
- fsspec=2023.10.0=py310h06a4308_0
- future=0.18.3=pyhd8ed1ab_0
- get-annotations=0.1.2=pyhd8ed1ab_0
- giflib=5.2.1=h5eee18b_3
- glib=2.69.1=he621ea3_2
- glpk=5.0=h445213a_0
- gmp=6.3.0=h59595ed_0
- gnutls=3.6.13=h85f3911_1
- google-auth=2.27.0=pyhca7485f_0
- google-auth-oauthlib=1.2.0=pyhd8ed1ab_0
- grpcio=1.56.2=py310h1b8f574_1
- gst-plugins-base=1.14.1=h6a678d5_1
- gstreamer=1.14.1=h5eee18b_1
- h11=0.14.0=py310h06a4308_0
- h2=4.1.0=pyhd8ed1ab_0
- h5py=3.9.0=py310he06866b_0
- hdf5=1.12.1=h2b7332f_3
- hpack=4.0.0=pyh9f0ad1d_0
- htslib=1.21=h5efdd21_0
- httpcore=1.0.5=pyhd8ed1ab_0
- httpx=0.27.0=pyhd8ed1ab_0
- humanfriendly=10.0=py310h06a4308_1
- humanize=3.10.0=pyhd3eb1b0_0
- hyperframe=6.0.1=pyhd8ed1ab_0
- icu=73.2=h59595ed_0
- idna=3.6=pyhd8ed1ab_0
- igraph=0.10.8=h52253d4_1
- importlib-metadata=7.0.1=pyha770c72_0
- importlib_metadata=7.0.1=hd8ed1ab_0
- importlib_resources=6.4.0=pyhd8ed1ab_0
- inquirer=3.1.4=py310h06a4308_0
- intel-openmp=2021.4.0=h06a4308_3561
- ipykernel=6.28.0=py310h06a4308_0
- ipython=8.20.0=py310h06a4308_0
- itsdangerous=2.0.1=pyhd3eb1b0_0
- jax=0.4.13=pyhd8ed1ab_0
- jaxlib=0.4.12=cpu_py310h56c674a_1
- jedi=0.18.1=py310h06a4308_1
- jinja2=3.1.3=pyhd8ed1ab_0
- jmespath=1.0.1=py310h06a4308_0
- joblib=1.4.2=pyhd8ed1ab_0
- jpeg=9e=h5eee18b_1
- json5=0.9.6=pyhd3eb1b0_0
- jsonschema=4.19.2=py310h06a4308_0
- jsonschema-specifications=2023.7.1=py310h06a4308_0
- jupyter-lsp=2.2.0=py310h06a4308_0
- jupyter_core=5.5.0=py310h06a4308_0
- jupyter_events=0.8.0=py310h06a4308_0
- jupyter_server=2.10.0=py310h06a4308_0
- jupyter_server_terminals=0.4.4=py310h06a4308_1
- jupyterlab=4.2.5=pyhd8ed1ab_0
- jupyterlab_pygments=0.1.2=py_0
- jupyterlab_server=2.27.1=pyhd8ed1ab_0
- kaleido-core=0.2.1=h7c8854e_0
- kiwisolver=1.4.4=py310h6a678d5_0
- krb5=1.20.1=h143b758_1
- lame=3.100=h166bdaf_1003
- lcms2=2.12=h3be6417_0
- ld_impl_linux-64=2.38=h1181459_1
- legacy-api-wrap=1.4=pyhd8ed1ab_1
- leidenalg=0.10.2=py310hc6cd4ac_0
- lerc=3.0=h295c915_0
- libabseil=20230125.3=cxx17_h59595ed_0
- libblas=3.9.0=12_linux64_mkl
- libbrotlicommon=1.0.9=h5eee18b_7
- libbrotlidec=1.0.9=h5eee18b_7
- libbrotlienc=1.0.9=h5eee18b_7
- libcblas=3.9.0=12_linux64_mkl
- libclang=14.0.6=default_hc6dbbc7_1
- libclang13=14.0.6=default_he11475f_1
- libcublas=12.1.0.26=0
- libcufft=11.0.2.4=0
- libcufile=1.8.1.2=0
- libcups=2.4.2=h2d74bed_1
- libcurand=10.3.4.107=0
- libcurl=8.11.1=hc9e6f67_0
- libcusolver=11.4.4.55=0
- libcusparse=12.0.2.55=0
- libdeflate=1.22=h5eee18b_0
- libedit=3.1.20230828=h5eee18b_0
- libev=4.33=h7f8727e_1
- libexpat=2.5.0=hcb278e6_1
- libffi=3.4.4=h6a678d5_0
- libgcc=14.2.0=h77fa898_1
- libgcc-ng=14.2.0=h69a702a_1
- libgfortran-ng=13.2.0=h69a702a_3
- libgfortran5=13.2.0=ha4646dd_3
- libgomp=14.2.0=h77fa898_1
- libgrpc=1.56.2=h3905398_1
- libhwloc=2.10.0=default_h2fb2949_1000
- libiconv=1.17=hd590300_2
- libjpeg-turbo=2.0.0=h9bf148f_0
- liblapack=3.9.0=12_linux64_mkl
- libleidenalg=0.11.1=h00ab1b0_0
- libllvm14=14.0.6=hdb19cb5_3
- libnghttp2=1.57.0=h2d74bed_0
- libnpp=12.0.2.50=0
- libnsl=2.0.1=hd590300_0
- libnvjitlink=12.1.105=0
- libnvjpeg=12.1.1.14=0
- libopenblas=0.3.25=pthreads_h413a1c8_0
- libpng=1.6.39=h5eee18b_0
- libpq=12.15=hdbd6064_1
- libprotobuf=4.23.3=hd1fb520_1
- libsodium=1.0.18=h7b6447c_0
- libsqlite=3.44.2=h2797004_0
- libssh2=1.11.1=h251f7ec_0
- libstdcxx-ng=13.2.0=h7e041cc_3
- libtiff=4.2.0=hecacb30_2
- libuuid=2.38.1=h0b41bf4_0
- libwebp=1.3.2=h11a3e52_0
- libwebp-base=1.3.2=h5eee18b_0
- libxcb=1.15=h7f8727e_0
- libxcrypt=4.4.36=hd590300_1
- libxkbcommon=1.6.0=hd429924_1
- libxml2=2.12.6=h232c23b_2
- libzlib=1.2.13=hd590300_5
- lightning=2.0.9.post0=py310h06a4308_0
- lightning-cloud=0.5.57=py310h06a4308_0
- lightning-utilities=0.9.0=py310h06a4308_0
- llvm-openmp=15.0.7=h0cdce71_0
- llvmlite=0.41.1=py310h1b8f574_0
- lz4-c=1.9.4=h6a678d5_0
- lzstring=1.0.4=py_1001
- markdown=3.5.2=pyhd8ed1ab_0
- markdown-it-py=2.2.0=py310h06a4308_1
- markupsafe=2.1.4=py310h2372a71_0
- mathjax=2.7.5=h06a4308_0
- matplotlib=3.9.1=py310hff52083_1
- matplotlib-base=3.9.1=py310hf02ac8c_2
- matplotlib-inline=0.1.6=py310h06a4308_0
- mdurl=0.1.0=py310h06a4308_0
- mkl=2021.4.0=h06a4308_640
- mkl-service=2.4.0=py310ha2c4b55_0
- mkl_fft=1.3.1=py310h2b4bcf5_1
- mkl_random=1.2.2=py310h00e6091_0
- ml_dtypes=0.3.1=py310h1128e8f_0
- mpmath=1.3.0=pyhd8ed1ab_0
- msgpack-python=1.0.7=py310hd41b1e2_0
- multidict=6.0.4=py310h2372a71_1
- multipledispatch=0.6.0=py_0
- multiqc=1.21=pyhdfd78af_0
- munkres=1.1.4=py_0
- mysql=5.7.24=h721c034_2
- natsort=8.4.0=pyhd8ed1ab_0
- nbclient=0.8.0=py310h06a4308_0
- nbconvert-pandoc=7.16.5=hd8ed1ab_0
- nbformat=5.9.2=py310h06a4308_0
- ncurses=6.5=h2d0b736_3
- nest-asyncio=1.5.6=py310h06a4308_0
- nettle=3.6=he412f7d_0
- networkx=3.1=py310h06a4308_0
- notebook-shim=0.2.3=py310h06a4308_0
- nspr=4.35=h6a678d5_0
- nss=3.89.1=h6a678d5_0
- numba=0.58.1=py310h7dc5dd1_0
- numexpr=2.8.4=py310h8879344_0
- numpy=1.24.3=py310hd5efca6_0
- numpy-base=1.24.3=py310h8e6c178_0
- numpyro=0.13.2=pyhd8ed1ab_0
- oauthlib=3.2.2=pyhd8ed1ab_0
- openh264=2.1.1=h780b84a_0
- openjpeg=2.4.0=h3ad879b_0
- openssl=3.4.0=h7b32b05_1
- opt-einsum=3.3.0=hd8ed1ab_2
- opt_einsum=3.3.0=pyhd3eb1b0_1
- optax=0.1.8=pyhd8ed1ab_0
- ordered-set=4.1.0=py310h06a4308_0
- orjson=3.9.10=py310h52d8a92_0
- overrides=7.4.0=py310h06a4308_0
- packaging=23.1=py310h06a4308_0
- pandas=2.2.2=py310h6a678d5_0
- pandoc=3.6.3=ha770c72_0
- pandocfilters=1.5.0=pyhd3eb1b0_0
- parso=0.8.3=pyhd3eb1b0_0
- patsy=0.5.6=pyhd8ed1ab_0
- pcre=8.45=h295c915_0
- pexpect=4.8.0=pyhd3eb1b0_3
- pillow=10.4.0=py310h5eee18b_0
- pip=23.3.1=py310h06a4308_0
- platformdirs=3.10.0=py310h06a4308_0
- plotly=5.22.0=py310h2f386ee_0
- ply=3.11=py310h06a4308_0
- prometheus_client=0.14.1=py310h06a4308_0
- prompt-toolkit=3.0.43=py310h06a4308_0
- prompt_toolkit=3.0.43=hd3eb1b0_0
- psutil=5.9.0=py310h5eee18b_0
- ptyprocess=0.7.0=pyhd3eb1b0_2
- pure_eval=0.2.2=pyhd3eb1b0_0
- pyaml-env=1.2.1=pyhd8ed1ab_0
- pyasn1=0.5.1=pyhd8ed1ab_0
- pyasn1-modules=0.3.0=pyhd8ed1ab_0
- pycparser=2.21=pyhd3eb1b0_0
- pydantic=1.10.12=py310h5eee18b_1
- pydeprecate=0.3.0=pyhd8ed1ab_0
- pygments=2.15.1=py310h06a4308_1
- pyjwt=2.4.0=py310h06a4308_0
- pynndescent=0.5.12=pyhca7485f_0
- pyopenssl=24.0.0=pyhd8ed1ab_0
- pyparsing=3.0.9=py310h06a4308_0
- pyqt=5.15.10=py310h6a678d5_0
- pyqt5-sip=12.13.0=py310h5eee18b_0
- pyro4=4.82=pyhd8ed1ab_0
- pysocks=1.7.1=pyha2e5f31_6
- python=3.10.13=hd12c33a_1_cpython
- python-dateutil=2.8.2=pyhd3eb1b0_0
- python-editor=1.0.4=pyhd3eb1b0_0
- python-fastjsonschema=2.16.2=py310h06a4308_0
- python-igraph=0.11.5=py310h65dc3d1_0
- python-json-logger=2.0.7=py310h06a4308_0
- python-kaleido=0.2.1=py310h06a4308_0
- python-multipart=0.0.6=py310h06a4308_0
- python-tzdata=2023.3=pyhd3eb1b0_0
- python_abi=3.10=2_cp310
- pytorch=2.1.2=py3.10_cuda12.1_cudnn8.9.2_0
- pytorch-cuda=12.1=ha16c6d3_5
- pytorch-lightning=1.3.8=pyhd8ed1ab_0
- pytorch-mutex=1.0=cuda
- pytz=2023.3.post1=py310h06a4308_0
- pyu2f=0.1.5=pyhd8ed1ab_0
- pyyaml=5.4.1=py310h5764c6d_4
- pyzmq=25.1.2=py310h6a678d5_0
- qhull=2020.2=hdb19cb5_2
- qt-main=5.15.2=h53bd1ea_10
- rclone=1.69.0=hdac43c8_0
- re2=2023.03.02=h8c504da_0
- readchar=4.0.5=py310h06a4308_0
- readline=8.2=h5eee18b_0
- referencing=0.30.2=py310h06a4308_0
- requests=2.31.0=pyhd8ed1ab_0
- requests-oauthlib=1.3.1=pyhd8ed1ab_0
- retrying=1.3.3=pyhd3eb1b0_2
- rfc3339-validator=0.1.4=py310h06a4308_0
- rfc3986-validator=0.1.1=py310h06a4308_0
- rich=13.3.5=py310h06a4308_0
- rich-click=1.8.3=pyhd8ed1ab_0
- rpds-py=0.10.6=py310hb02cf49_0
- rsa=4.9=pyhd8ed1ab_0
- s3transfer=0.7.0=py310h06a4308_0
- samtools=1.21=h50ea8bc_0
- scanpy=1.10.1=pyhd8ed1ab_0
- scikit-learn=1.4.2=py310h1fdf081_0
- scipy=1.12.0=py310hb13e2d6_0
- seaborn=0.13.2=hd8ed1ab_2
- seaborn-base=0.13.2=pyhd8ed1ab_2
- send2trash=1.8.2=py310h06a4308_0
- serpent=1.41=pyhd8ed1ab_0
- session-info=1.0.0=pyhd8ed1ab_0
- setuptools=59.5.0=py310hff52083_0
- simplejson=3.19.2=py310h5eee18b_0
- sip=6.7.12=py310h6a678d5_0
- six=1.16.0=pyhd3eb1b0_1
- sniffio=1.3.0=py310h06a4308_0
- soupsieve=2.5=py310h06a4308_0
- sparse=0.15.1=pyhd8ed1ab_1
- spectra=0.0.11=py_1
- sqlite=3.41.2=h5eee18b_0
- stack_data=0.2.0=pyhd3eb1b0_0
- starlette=0.27.0=py310h06a4308_0
- starsessions=1.3.0=py310h06a4308_0
- statsmodels=0.14.1=py310h1f7b6fc_0
- stdlib-list=0.10.0=pyhd8ed1ab_0
- sympy=1.12=pyh04b8f61_3
- tbb=2021.12.0=h00ab1b0_0
- tensorboard=2.15.1=pyhd8ed1ab_0
- tensorboard-data-server=0.7.0=py310h75e40e8_1
- terminado=0.17.1=py310h06a4308_0
- texttable=1.7.0=pyhd8ed1ab_0
- threadpoolctl=3.5.0=pyhc1e730c_0
- tinycss2=1.2.1=py310h06a4308_0
- tk=8.6.13=noxft_h4845f30_101
- tomli=2.0.1=py310h06a4308_0
- toolz=0.12.0=py310h06a4308_0
- torchaudio=2.1.2=py310_cu121
- torchmetrics=1.1.2=py310h06a4308_0
- torchtriton=2.1.0=py310
- torchvision=0.16.2=py310_cu121
- tornado=6.3.3=py310h5eee18b_0
- tqdm=4.65.0=py310h2f386ee_0
- traitlets=5.7.1=py310h06a4308_0
- typing-extensions=4.9.0=hd8ed1ab_0
- typing_extensions=4.9.0=pyha770c72_0
- tzdata=2023d=h04d1e81_0
- umap-learn=0.5.5=py310hff52083_1
- urllib3=2.0.3=py310h06a4308_0
- uvicorn=0.20.0=py310h06a4308_0
- wcwidth=0.2.5=pyhd3eb1b0_0
- webencodings=0.5.1=py310h06a4308_1
- websocket-client=0.58.0=py310h06a4308_4
- websockets=10.4=py310h5eee18b_1
- werkzeug=3.0.1=pyhd8ed1ab_0
- wheel=0.41.2=py310h06a4308_0
- xkeyboard-config=2.40=hd590300_0
- xorg-kbproto=1.0.7=h7f98852_1002
- xorg-libx11=1.8.7=h8ee46fc_0
- xorg-libxau=1.0.11=hd590300_0
- xorg-xextproto=7.3.0=h0b41bf4_1003
- xorg-xproto=7.0.31=h27cfd23_1007
- xz=5.4.5=h5eee18b_0
- yaml=0.2.5=h7f98852_2
- yarl=1.9.4=py310h2372a71_0
- zeromq=4.3.5=h6a678d5_0
- zipp=3.17.0=pyhd8ed1ab_0
- zlib=1.2.13=hd590300_5
- zstd=1.5.5=hc292b87_0
- pip:
- blosc2==2.7.1
- cellbender==0.3.0
- cloudpickle==3.0.0
- contextlib2==21.6.0
- farama-notifications==0.0.4
- fqdn==1.5.1
- gdown==5.0.1
- gymnasium==0.28.1
- imageio==2.33.1
- ipython-genutils==0.2.0
- ipywidgets==8.1.5
- isoduration==20.11.0
- jax-jumpy==1.0.0
- jsonpointer==3.0.0
- jupyter==1.1.1
- jupyter-client==7.4.9
- jupyter-console==6.6.3
- jupyter-contrib-core==0.4.2
- jupyter-contrib-nbextensions==0.7.0
- jupyter-highlight-selected-word==0.2.0
- jupyter-nbextensions-configurator==0.6.4
- jupyterlab-widgets==3.0.13
- lazy-loader==0.3
- loompy==3.0.7
- lxml==5.3.0
- lz4==4.3.3
- mistune==0.8.4
- ml-collections==0.1.1
- nbclassic==1.1.0
- nbconvert==6.5.4
- ndindex==1.9.2
- notebook==6.5.7
- numpy-groupies==0.11.2
- protobuf==4.25.2
- py-cpuinfo==9.0.0
- pyarrow==15.0.0
- pyro-api==0.1.2
- pyro-ppl==1.9.1
- ray==2.9.1
- ridgeplot==0.1.25
- scikit-image==0.22.0
- tables==3.10.1
- tenacity==8.3.0
- tensorboardx==2.6.2.2
- tifffile==2024.1.30
- typer==0.9.0
- uri-template==1.3.0
- webcolors==24.11.1
- widgetsnbextension==4.0.13
prefix: /home/yoavnah/miniconda3/envs/yoavshovav