Biocluster Jupyter
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Jupyter[edit]
- There is an installation of Jupyter which is accessible at https://bioapps3.igb.illinois.edu/jupyter
Custom Conda Environment[edit]
- NOTE This must be done from the biologin nodes. It will fail on the compute nodes as they do not have access to the internet
- From Regular Command Line using SSH
- Load Anaconda Module
module load Anaconda3
- Create Conda Environment
conda create -p $HOME/testenv
- Activate Conda Environment
conda activate $HOME/testenv
- Install ipython conda package
conda install ipykernel
- Install custom ipykernel module. This will install the kernel file into $HOME/.local/share/jupyter/kernels. This can be seen by jupyterhub
ipython kernel install --user --name='testenv'
- Open Jupyterhub at https://bioapps3.igb.illinois.edu/jupyter and start a server.
- Your testenv kernel should be listed in the list of kernels
