Execute conda in subshell script10 Nov 2019
conda activate in a
bash script, I came across a similar error
message to this.
CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'
With a quick Google search, this thread showed up and has been helpful with several suggestions.
The most voted on and immediate solution was adding this to my
source ~/anaconda3/etc/profile.d/conda.sh conda activate my_env
For your use, you’d have to change your Anaconda/conda path and conda environment name.
One other solution includes using this instead.
eval "$(conda shell.bash hook)" conda active my_env
At first glance, the
conda shell.bash hook appears to come out of nowhere.
Doing some copy-paste-searching around, this appears to be
part of the conda initialization script. In
other words, this is the more flexible and generalizable form of the solution
above because you don’t have to change or specify where that
The last solution suggested is calling the script with
bash -i to invoke the
interactive environment, which loads the
~/.bashrc file. This file presumably
has the conda activation script in there.