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Swarchal/colab_ai_fnet.py

Last active January 28, 2019 13:29
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conda install packages on google colab notebooks
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colab_ai_fnet.py
# install anaconda 5.10
! wget -c https://repo.continuum.io/archive/Anaconda3-5.1.0-Linux-x86_64.sh
! chmod +x Anaconda3-5.1.0-Linux-x86_64.sh
! bash ./Anaconda3-5.1.0-Linux-x86_64.sh -b -f -p /usr/local
import sys
sys.path.append('/usr/local/lib/python3.6/site-packages/')
# install conda dependencies
! conda install -y --prefix /usr/local pytorch==0.4.0 torchvision=0.1.8 -c pytorch
! conda install -y --prefix /usr/local tifffile=0.15.0 -c conda-forge
# install pytorch_fnet from github
! git clone https://github.com/AllenCellModeling/pytorch_fnet
! cd pytorch_fnet; git checkout release_1; $(which python) setup.py install
# run tests
! cd pytorch_fnet; ./scripts/test_run.sh
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