Run python command from specific conda environment

[mike....@getcruise.com]

I'm looking for a portable one-liner for "conda activate my-env; python [args]". Something like "conda python my-env [args]". My use case involves running conda in a Makefile.

Here's what I'm currently doing. My Makefile looks like this:

mycommand:

. /home/me/miniconda3/etc/profile.d/conda.sh; \

conda activate my-env; \

python -m my.package.main

There are a few issues with this. First, the location of anaconda depends on the user. I can get around that with some effort, e.g., 

     CONDA_ROOT := $(conda info --json -s | python -c "import sys, json; print(json.load(sys.stdin)['conda_prefix']);")

but that's pretty gnarly. In particular, it's not clear to me that this JSON parsing is a "stable" part of the Conda API, since it doesn't seem to be well-documented. Moreover, when you try to activate without the conda.sh script, the error is a little misleading:

   
     Your shell has not been properly configured to use 'conda activate'.

Indeed, my .zshrc file had been configured with this line, but the Makefile doesn't use it. It's hard to track that down.

Is there a conda feature that makes this simpler? Or should I ask for one?

-Mike

[Chris Barker]

conda execute may be what you are looking for:

https://pelson.github.io/2015/conda_execute/

-CHB

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Chris....@noaa.gov

[Mike McCoy]

It seems like conda-execute is pretty close to what I'm looking for, and I'll look into it. Also, thanks for the `conda shell.posix hook` tip. That's much nicer than JSON parsing. 

Thanks for the responses,

-Mike

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Mike McCoy 

Senior Data Scientist

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