conda: error: argument COMMAND: invalid choice: ‘deactivate‘ / ‘activate‘

1. conda: error: argument COMMAND: invalid choice: ‘deactivate’

(base) yongqiang@yongqiang:~/scripts$ chmod a+x script_conda.sh
(base) yongqiang@yongqiang:~/scripts$
(base) yongqiang@yongqiang:~/scripts$ cat script_conda.sh
#!/bin/bash

conda env list

conda deactivate

(base) yongqiang@yongqiang:~/scripts$
(base) yongqiang@yongqiang:~/scripts$ ./script_conda.sh
# conda environments:
#
base                  *  /home/yongqiang/miniconda3
py37                     /home/yongqiang/miniconda3/envs/py37

usage: conda [-h] [--no-plugins] [-V] COMMAND ...
conda: error: argument COMMAND: invalid choice: 'deactivate' (choose from 'clean', 'compare', 'config', 'create', 'info', 'init', 'install', 'list', 'notices', 'package', 'remove', 'uninstall', 'rename', 'run', 'search', 'update', 'upgrade', 'doctor', 'env', 'content-trust')
(base) yongqiang@yongqiang:~/scripts$

2. conda: error: argument COMMAND: invalid choice: ‘activate’

yongqiang@yongqiang:~/scripts$ chmod a+x script_conda.sh
yongqiang@yongqiang:~/scripts$
yongqiang@yongqiang:~/scripts$ cat script_conda.sh
#!/bin/bash

conda activate base

yongqiang@yongqiang:~/scripts$
yongqiang@yongqiang:~/scripts$ ./script_conda.sh
usage: conda [-h] [--no-plugins] [-V] COMMAND ...
conda: error: argument COMMAND: invalid choice: 'activate' (choose from 'clean', 'compare', 'config', 'create', 'info', 'init', 'install', 'list', 'notices', 'package', 'remove', 'uninstall', 'rename', 'run', 'search', 'update', 'upgrade', 'doctor', 'env', 'content-trust')
yongqiang@yongqiang:~/scripts$

3. Solution 1: source ~/miniconda3/etc/profile.d/conda.sh

You need to add the new source ~/miniconda3/etc/profile.d/conda.sh line to your ~/.bashrc file to ensure Anaconda Python can enabled in subsequent terminal sessions. conda activate base and conda deactivate will need to be run in each subsequent terminal session.

(base) yongqiang@yongqiang:~/scripts$ cat script_conda.sh
#!/bin/bash

source ~/miniconda3/etc/profile.d/conda.sh

conda env list

conda deactivate

(base) yongqiang@yongqiang:~/scripts$
(base) yongqiang@yongqiang:~/scripts$ ./script_conda.sh
# conda environments:
#
base                  *  /home/yongqiang/miniconda3
py37                     /home/yongqiang/miniconda3/envs/py37

(base) yongqiang@yongqiang:~/scripts$

4. Solution 2: source script_conda.sh

(base) yongqiang@yongqiang:~/scripts$ cat script_conda.sh
#!/bin/bash

conda env list

conda deactivate

(base) yongqiang@yongqiang:~/scripts$
(base) yongqiang@yongqiang:~/scripts$ source script_conda.sh
# conda environments:
#
base                  *  /home/yongqiang/miniconda3
py37                     /home/yongqiang/miniconda3/envs/py37

yongqiang@yongqiang:~/scripts$

yongqiang@yongqiang:~/scripts$ cat script_conda.sh
#!/bin/bash

conda activate base

yongqiang@yongqiang:~/scripts$
yongqiang@yongqiang:~/scripts$ source script_conda.sh
(base) yongqiang@yongqiang:~/scripts$

5. Solution 3: source deactivate

(base) yongqiang@yongqiang:~/scripts$ cat script_conda.sh
#!/bin/bash

conda env list

source deactivate

(base) yongqiang@yongqiang:~/scripts$
(base) yongqiang@yongqiang:~/scripts$ ./script_conda.sh
# conda environments:
#
base                  *  /home/yongqiang/miniconda3
py37                     /home/yongqiang/miniconda3/envs/py37

DeprecationWarning: 'source deactivate' is deprecated. Use 'conda deactivate'.
(base) yongqiang@yongqiang:~/scripts$

References

[1] Yongqiang Cheng, https://yongqiang.blog.csdn.net/
[2] Installing via conda, https://docs.openforcefield.org/projects/toolkit/en/0.7.0/installation.html