Conda command working in command prompt but not in bash script
If @randomwalker's method doesn't work for you, which it won't any time your script is run in a more basic shell such as sh, then you have two options.
Add this to your script:
eval $(conda shell.bash hook)Call your script with:
bash -i <scriptname>so that it runs in your interactive environment.
I solved the problem thanks to @darthbith 's comment.
Since conda is a bash function and bash functions can not be propagated to independent shells (e.g. opened by executing a bash script), one has to add the line
source /opt/anaconda/etc/profile.d/conda.sh
to the bash script before calling conda commands. Otherwise bash will not know about conda.