How Do I Install Conda on the Yens?
We recommend using Anaconda3 modules that are already installed on the Yens.
If you would like to have a personal installation of conda instead of using
anaconda modules on the yens, you
can download miniconda to your home directory or project directory if you are sharing project space with collaborators.
Installing Miniconda on Yens
Save the following to a file called
install_miniconda.sh. Running this script will download miniconda
and install it. We also do not let conda change our bash_profile with
auto_activate_base false which is a good practice
when running conda on a server or HPC clusters.
#!/bin/sh wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh chmod +x Miniconda3-latest-Linux-x86_64.sh ./Miniconda3-latest-Linux-x86_64.sh conda config --set auto_activate_base false
Run the miniconda install script:
$ sh install_miniconda.sh
You will have to press “ENTER” and space bar through the license agreement, then type “yes” to accept the licence terms. After that choose an install location. If you have ZFS project space, we recommend installing miniconda in your project space rather than your 50 GB home directory which is easy to fill with conda environments and large python package downloads.
Add path to miniconda
Miniconda should now be installed. Let’s add the path to miniconda bin. Modify your
bash_profile to include the path:
$ echo 'export PATH=$HOME/miniconda3/bin:$PATH' >> ~/.bash_profile
bash_profile to apply this change:
$ . ~/.bash_profile
Base conda environment
We can test that conda is installed and ready to use by running:
$ which conda
You should see:
$HOME will be your user home dir or the project space where you installed miniconda.
$ conda info -e
to display conda evironments. You will only see
base environment. Anaconda environments
let you switch between different python versions. The idea is that two python versions (or more) coexist side
by side and you can isolate an “environment” for a specific project with a specific python version and all of the necessary
python packages with their specific versions living in that environment.
Making a new conda env
Let’s now make a new conda env with python version 3.10 where we will install
pandas packages that our python project requires.
$ conda create -n py310 python=3.10
After we create the environment, we need to “activate” it which means it will replace the base environment and we will use python packages and python binary living in the activated environment.
$ source activate py310
You need to install all the necessary packages into that environment only once:
$ pip install numpy pandas matplotlib
After you are done working with the environment, “deactivate” it.
$ source deactivate
Connect with us