Activating conda environment from bash script

Question

I would like to change my conda environment from a bash script. I want to run bash script_yxz, where 'script_xyz' is like:

#!/bin/bash

conda activate my_env

and switch to my_env.

This already works if I run source script_yxz. But I have the problem that I am not able to 'source' on remote machines with 'sshpass'.

To better understand my purposes, my goal is to run on my terminal

sshpass -p "password" ssh -o user@server "bash script_xyz"

and changing the environment on the server. This is why I need to use bash instead of source.

I have read a lot of solutions on various forums but none of them works.

Answer 1

seems like the conda script is not imported by default so this should fix it

source ~/anaconda3/etc/profile.d/conda.sh
conda activate <env>

Answer 2

You can use bash,zsh or any shell aliases for this purposes. You just add

alias my_conda='source /home/$USER/anaconda3/bin/activate && conda activate MyPy38'

line into the .bashrc,.zshrc or .any_other_shell_rc.

"N.B. My environment name is MyPy38". So,replace it according name as well as the path /home/$USER/anaconda3. Also you can create separate file for aliases. Just create a file called .bash_aliases and add

if [ -f ~/.bash_aliases ]; then
    . ~/.bash_aliases
fi

lines to .bashrc,.zshrc or .any_other_shell_rc and keep the command

alias my_conda='source /home/$USER/anaconda3/bin/activate && conda activate MyPy38'

into the .bash_aliases. Now, source ~/.zshrc ~/.bashrc or just close and open a new terminal. Run the command my_conda and BOOM!

Also, you can add some other aliases for jupyter-notebook jupyter-lab spyder etc. like

# Just activate my conda
alias my_conda='source /home/$USER/anaconda3/bin/activate && conda activate MyPy38'

# Open Jupyter Notebook in my Env
alias my_jupn='source /home/$USER/anaconda3/bin/activate && conda activate MyPy38 && jupyter-notebook'

# Open Jupyter Lab in my Env
alias my_jupl='source /home/$USER/anaconda3/bin/activate && conda activate MyPy38 && jupyter-lab'

# Open Spyder in my Env
alias my_spyder='source /home/$USER/anaconda3/bin/activate && conda activate MyPy38 && spyder'

To confirm active environment name python code

import sys
print(sys.executable)

Answer 3

#!/bin/bash

eval "$(conda shell.bash hook)"
source ~/anaconda3/etc/profile.d/conda.sh

conda create -n testing python=3.10 -y

conda activate testing
python --version

#output