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Install Conda packages​

Requirements to install packages​

Requirements to install packages networked (must have Internet access)​

  • Connect to login0 of Nord4:

    mylaptop$> ssh {username}@n4login0.bsc.es
    IMPORTANT

    The Nord4 login0 is restricted to BSC staff and is only accessible from the BSC internal network or the Virtual Private Network (VPN).

  • Check the Internet connectivity from login0, for example:

    $> wget --tries=3 --timeout=5 -q --spider google.com && echo "Networked" || echo "Non-networked"
    Networked

Check the package manager​

conda is a package manager that helps you install packages under Anaconda or Miniconda (a mini version of Anaconda that includes just conda, its dependencies, and Python)

  • Load Anaconda/Miniconda in the session, for example:

    $> module load miniconda3

  • Ensure you can run conda from the command line:

    $> which conda
    /apps/MINICONDA3/py39_4.10.3/bin/conda
    $> conda --version
    conda 4.10.3

Install and manage packages​

Install packages from Anaconda.org​

  • Install a package:

    $> conda install SomePackage                    # Latest version
    $> conda install SomePackage=0.15.0             # Specific version
    $> conda install SomePackage py38_env           # Specific Python version
    $> conda install SomePackage=0.15.0 py38_env

    Or:

    $> conda install -c SomeChannel SomePackage     # From a specific channel on Anaconda.org
    $> conda install --name myenv SomePackage       # Into an existing environment "myenv" (also -n)

  • Install multiple packages at once:

    $> conda install A B C D

Install non-conda packages​

Both pip and python are included in Anaconda/Miniconda so that you can install packages the same as at:

https://www.bsc.es/supportkc/docs/Nord4/Installing%20packages/Python/english#install-and-manage-packages

IMPORTANT

pip packages do not have all the features of conda packages, so it's recommended first try to install any package with conda

Update packages​

  • Update a package:

    $> conda update SomePackage

Remove packages​

  • Remove one or more packages:

    $> conda remove SomePackage
    $> conda remove -n myenv SomePackage
    $> conda remove A B C D

Check installed packages​

  • View the list of installed packages

    $> conda list
    $> conda list -n myenv      # For an existing environment "myenv"

Work with environments​

Create environments​

  • Create an environment (at the default location, you may not have enough permissions):

    $> conda create --name myenv
    $> conda create -n myenv

  • Create an environment in a custom location:

    $> conda create --prefix /path/to/my/project/myenv
    $> conda create -p /path/to/my/project/myenv

  • Create an environment with a specific version of Python and multiple packages:

    $> conda create -n myenv python=3.9 A=0.15.0 B=0.21 C D

  • Create an environment from an environment.yml file:

    $> conda env create -f environment.yml

Activate/deactivate environments​

  • Activate a environment:

    $> conda activate myenv                         # By name
    $> conda activate /path/to/my/project/myenv     # By prefix

    Or:

    $> source activate myenv
    $> source activate /path/to/my/project/myenv

  • Deactivate a environment:

    $> conda deactivate

Check existing environments​

  • View the list of the existing environments:

    $> conda env list

    Or:

    $> conda info --envs

Remove environments​

  • Remove a environment:

    $> conda remove --name myenv --all
    $> conda remove -p /path/to/my/project/myenv --all

    Or:

    $> conda env remove -n myenv
    $> conda env remove -p /path/to/my/project/myenv