Using subprocess in anaconda environment

Question

I use Python 3.6.6 :: Anaconda, Inc.

I try to use subprocess to call other python script.

subprocess.run("python -V", shell=True)

I tried this code but outcome is

Python 2.7.12

My local python get caught

I also tried

subprocess.run("bash -c 'source /home/hclee/anaconda3/envs/calamari/lib/python3.6/venv/scripts/common/activate
/home/hclee/anaconda3/envs/calamari && python -V && source deactivate'", shell=True)

but I got the same result

Answer 1

Run source activate root in linux, or activate root in Windows to activate the environment before running your code.

If this does not help you, try for a quick and dirty fix e.g.:

subprocess.run('bash -c "source activate root; python -V"', shell=True)

The reason you need to call bash is that python's run will not call the bash environment, but another which is a bit more constrained and does not contain source, so here we need to call bash... But as mentioned, if you need this command, either you are doing something special, or something is wrong with your environment...

deactivate is not needed, it does nothing cause the shell it was run on will be destroyed...

Note: For newest conda versions, the provided code will work, but there are also these options that work similarly:

conda deactivate:

subprocess.run('bash -c "conda deactivate; python -V"', shell=True)

conda activate root or base:

subprocess.run('bash -c "conda activate root; python -V"', shell=True)
subprocess.run('bash -c "conda activate base; python -V"', shell=True)