Working on the HPC cluster

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1. Common Commands

• Connect to Sherlock:

  ssh login.sherlock.stanford.edu
  

• Enter a computing node:

  sdev
  

• Load Python:

  module load python/3.9.0  # option 1
  ml python/3.9.0           # option 2
  

• Submit script:

  bash submit.sh
  

2. Other Commands

• Create a Python environment:

   python3 -m venv myenv
   source myenv/bin/activate
  
   python3 --version # to check python version
  
   python3 runfile.py
  
   deactivate # to deactivate the environment
  

3. Commands Needed to Troubleshoot

• Return Python version:

python --version

- Check installed packages:

pip3 list
conda info

- Identify package location:

which pip
which conda
which python3

- Go to an address

cd /d e:\

• Copy files

cp -av HPC ~/hpc-share/

• Create a link path.

ln -s /nfs/hpc/share/astudilb hpc-share

• Show what is in the path, including hidden elements:

ls -a hpc-share/

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