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#!/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)" | |
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 |
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