Last active
June 25, 2020 17:15
-
-
Save saketkc/77e3d2590b4c8e186094b06b10d01779 to your computer and use it in GitHub Desktop.
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
#!/bin/bash | |
set -eox pipefail | |
#python -c "import sys, os; dist_package_index = sys.path.index('/usr/local/lib/python3.6/dist-packages'); sys.path = sys.path[:dist_package_index] + ['/usr/local/lib/python3.6/site-packages'] + sys.path[dist_package_index:]; sys.path.append('/usr/local/lib/python3.6/site-packages/'); exec(open('rapidsai-csp-utils/colab/update_modules.py').read(), globals()); print(sys.path)" | |
python -c "import sys, os; ['', '/env/python', '/usr/lib/python36.zip', '/usr/lib/python3.6', '/usr/lib/python3.6/lib-dynload', '/usr/local/lib/python3.6/site-packages', '/usr/local/lib/python3.6/dist-packages', '/usr/lib/python3/dist-packages', '/usr/local/lib/python3.6/site-packages/']; exec(open('rapidsai-csp-utils/colab/update_modules.py').read(), globals()); print(sys.path)" | |
nvcc --version | |
conda config --add channels defaults | |
conda config --add channels bioconda | |
conda config --add channels conda-forge | |
conda config --add channels nvidia | |
conda config --add channels rapidsai | |
conda install -y dask-cuda dask-cudf cuml cugraph numba=0.48* scipy ucx-py ucx-proc=*=gpu scikit-learn louvain cupy=7 scanpy umap-learn pip | |
#r-seurat r-reticulate | |
pip install jupyter-server-proxy | |
pip install git+https://github.com/dask/dask.git | |
pip install git+https://github.com/dask/distributed.git | |
wget -c https://raw.githubusercontent.com/clara-parabricks/rapids-single-cell-examples/master/notebooks/rapids_scanpy_funcs.py |
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment