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conda run while another environment is active produces weird PATH behavior #11343

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justin-f-perez opened this issue Mar 16, 2022 · 3 comments
Closed

conda run while another environment is active produces weird PATH behavior #11343

justin-f-perez opened this issue Mar 16, 2022 · 3 comments
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duplicate indicate issues/PRs that are duplicates of another locked [bot] locked due to inactivity source::community catch-all for issues filed by community members type::bug describes erroneous operation, use severity::* to classify the type

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@justin-f-perez
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justin-f-perez commented Mar 16, 2022 •
edited by kenodegard

What happened?

A script that prints each command before running it:

#!/bin/zsh -i
# NOTE: `-i` is required, otherwise conda barfs a misleading error telling you to `conda init`
echo '$ which pip' && which pip
echo '$ conda activate ai.py3' && conda activate ai.py3
echo '$ which pip' && which pip
echo '$ conda run -n ai.py3 which pip3' && conda run -n ai.py3 which pip3

The output of the above script

❯ ./snaketivate.sh
$ which pip
/opt/homebrew/bin/pip
$ conda activate ai.py3
$ which pip
/opt/homebrew/Caskroom/miniconda/base/envs/ai.py3/bin/pip
$ conda run -n ai.py3 which pip3
/opt/homebrew/Caskroom/miniconda/base/bin/pip3

That last line is wrong. Clearly it should be /opt/homebrew/Caskroom/miniconda/base/envs/ai.py3/bin/pip. The combination of having the environment active and attempting to run a command inside of the same environment leads to... no environment?

Conda info

conda info 
❯ conda info | sed 's/myrealusername/condauser/g'
     active environment : None
            shell level : 0
       user config file : /Users/condauser/.condarc
 populated config files : /Users/condauser/.condarc
          conda version : 4.12.0
    conda-build version : not installed
         python version : 3.8.11.final.0
       virtual packages : __osx=11.6.2=0
                          __unix=0=0
                          __archspec=1=arm64
       base environment : /opt/homebrew/Caskroom/miniconda/base  (writable)
      conda av data dir : /opt/homebrew/Caskroom/miniconda/base/etc/conda
  conda av metadata url : None
           channel URLs : https://conda.anaconda.org/conda-forge/osx-arm64
                          https://conda.anaconda.org/conda-forge/noarch
                          https://repo.anaconda.com/pkgs/main/osx-arm64
                          https://repo.anaconda.com/pkgs/main/noarch
                          https://repo.anaconda.com/pkgs/r/osx-arm64
                          https://repo.anaconda.com/pkgs/r/noarch
          package cache : /opt/homebrew/Caskroom/miniconda/base/pkgs
                          /Users/condauser/.conda/pkgs
       envs directories : /opt/homebrew/Caskroom/miniconda/base/envs
                          /Users/condauser/.conda/envs
               platform : osx-arm64
             user-agent : conda/4.12.0 requests/2.27.1 CPython/3.8.11 Darwin/20.6.0 OSX/11.6.2
                UID:GID : 441011056:5000473
             netrc file : None
           offline mode : False

❯ conda activate ai.py3
❯ conda info | sed 's/myrealusername/condauser/g'

     active environment : ai.py3
    active env location : /opt/homebrew/Caskroom/miniconda/base/envs/ai.py3
            shell level : 1
       user config file : /Users/condauser/.condarc
 populated config files : /Users/condauser/.condarc
          conda version : 4.12.0
    conda-build version : not installed
         python version : 3.8.11.final.0
       virtual packages : __osx=11.6.2=0
                          __unix=0=0
                          __archspec=1=arm64
       base environment : /opt/homebrew/Caskroom/miniconda/base  (writable)
      conda av data dir : /opt/homebrew/Caskroom/miniconda/base/etc/conda
  conda av metadata url : None
           channel URLs : https://conda.anaconda.org/conda-forge/osx-arm64
                          https://conda.anaconda.org/conda-forge/noarch
                          https://repo.anaconda.com/pkgs/main/osx-arm64
                          https://repo.anaconda.com/pkgs/main/noarch
                          https://repo.anaconda.com/pkgs/r/osx-arm64
                          https://repo.anaconda.com/pkgs/r/noarch
          package cache : /opt/homebrew/Caskroom/miniconda/base/pkgs
                          /Users/condauser/.conda/pkgs
       envs directories : /opt/homebrew/Caskroom/miniconda/base/envs
                          /Users/condauser/.conda/envs
               platform : osx-arm64
             user-agent : conda/4.12.0 requests/2.27.1 CPython/3.8.11 Darwin/20.6.0 OSX/11.6.2
                UID:GID : 441011056:5000473
             netrc file : None
           offline mode : False

Conda config

conda config 
❯ conda config --show-sources
==> /Users/condauser/.condarc <==
auto_activate_base: False
channels:
  - conda-forge
  - defaults
report_errors: False
unsatisfiable_hints: True

Conda list

conda list 
❯ conda list --show-channel-urls
# packages in environment at /opt/homebrew/Caskroom/miniconda/base:
#
# Name                    Version                   Build  Channel
brotlipy                  0.7.0           py38h1a28f6b_1002    defaults
ca-certificates           2022.2.1             hca03da5_0    defaults
certifi                   2021.10.8        py38hca03da5_2    defaults
cffi                      1.15.0           py38h22df2f2_1    defaults
charset-normalizer        2.0.4              pyhd3eb1b0_0    defaults
colorama                  0.4.4              pyhd3eb1b0_0    defaults
conda                     4.12.0           py38hca03da5_0    defaults
conda-package-handling    1.7.3            py38h1a28f6b_1    defaults
cryptography              36.0.0           py38h834c97f_0    defaults
idna                      3.3                pyhd3eb1b0_0    defaults
libcxx                    12.0.0               hf6beb65_1    defaults
libffi                    3.4.2                hc377ac9_2    defaults
ncurses                   6.3                  h1a28f6b_2    defaults
openssl                   1.1.1m               h1a28f6b_0    defaults
pip                       21.2.4           py38hca03da5_0    defaults
pycosat                   0.6.3            py38h1a28f6b_0    defaults
pycparser                 2.21               pyhd3eb1b0_0    defaults
pyopenssl                 22.0.0             pyhd3eb1b0_0    defaults
pysocks                   1.7.1            py38hca03da5_0    defaults
python                    3.8.11          h35b60ff_4_cpython    defaults
python.app                3                py38h1230e6a_0    defaults
readline                  8.1.2                h1a28f6b_1    defaults
requests                  2.27.1             pyhd3eb1b0_0    defaults
ruamel_yaml               0.15.100         py38h1a28f6b_0    defaults
setuptools                58.0.4           py38hca03da5_1    defaults
six                       1.16.0             pyhd3eb1b0_1    defaults
sqlite                    3.38.0               h1058600_0    defaults
tk                        8.6.11               hb8d0fd4_0    defaults
tqdm                      4.63.0             pyhd3eb1b0_0    defaults
urllib3                   1.26.8             pyhd3eb1b0_0    defaults
wheel                     0.37.1             pyhd3eb1b0_0    defaults
xz                        5.2.5                h1a28f6b_0    defaults
yaml                      0.2.5                h1a28f6b_0    defaults
zlib                      1.2.11               h5a0b063_4    defaults

❯ conda activate ai.py3
❯ conda list --show-channel-urls
# packages in environment at /opt/homebrew/Caskroom/miniconda/base/envs/ai.py3:
#
# Name                    Version                   Build  Channel
appnope                   0.1.2           py310h2ec42d9_2    conda-forge
argh                      0.26.2          pyh9f0ad1d_1002    conda-forge
asttokens                 2.0.5              pyhd8ed1ab_0    conda-forge
attrs                     21.4.0             pyhd8ed1ab_0    conda-forge
backcall                  0.2.0              pyh9f0ad1d_0    conda-forge
backports                 1.0                        py_2    conda-forge
backports.functools_lru_cache 1.6.4              pyhd8ed1ab_0    conda-forge
black                     21.12b0            pyhd8ed1ab_0    conda-forge
bzip2                     1.0.8                h0d85af4_4    conda-forge
ca-certificates           2021.10.8            h033912b_0    conda-forge
click                     8.0.4           py310h2ec42d9_0    conda-forge
colorama                  0.4.4              pyh9f0ad1d_0    conda-forge
dataclasses               0.8                pyhc8e2a94_3    conda-forge
decorator                 5.1.1              pyhd8ed1ab_0    conda-forge
docopt                    0.6.2                      py_1    conda-forge
executing                 0.8.3              pyhd8ed1ab_0    conda-forge
fzf                       0.29.0               h990441c_0    conda-forge
iniconfig                 1.1.1              pyh9f0ad1d_0    conda-forge
ipython                   8.1.1           py310h2ec42d9_0    conda-forge
jedi                      0.18.1          py310h2ec42d9_0    conda-forge
libffi                    3.4.2                h0d85af4_5    conda-forge
libzlib                   1.2.11            h9173be1_1013    conda-forge
matplotlib-inline         0.1.3              pyhd8ed1ab_0    conda-forge
mypy                      0.931           py310he24745e_2    conda-forge
mypy_extensions           0.4.3           py310h2ec42d9_4    conda-forge
ncurses                   6.3                  he49afe7_0    conda-forge
openssl                   3.0.0                h0d85af4_2    conda-forge
packaging                 21.3               pyhd8ed1ab_0    conda-forge
parso                     0.8.3              pyhd8ed1ab_0    conda-forge
pathspec                  0.9.0              pyhd8ed1ab_0    conda-forge
pexpect                   4.8.0              pyh9f0ad1d_2    conda-forge
pickleshare               0.7.5                   py_1003    conda-forge
pip                       22.0.3             pyhd8ed1ab_0    conda-forge
platformdirs              2.5.1              pyhd8ed1ab_0    conda-forge
pluggy                    1.0.0           py310h2ec42d9_2    conda-forge
prompt-toolkit            3.0.27             pyha770c72_0    conda-forge
psutil                    5.9.0           py310he24745e_0    conda-forge
ptyprocess                0.7.0              pyhd3deb0d_0    conda-forge
pure_eval                 0.2.2              pyhd8ed1ab_0    conda-forge
py                        1.11.0             pyh6c4a22f_0    conda-forge
pygments                  2.11.2             pyhd8ed1ab_0    conda-forge
pyparsing                 3.0.7              pyhd8ed1ab_0    conda-forge
pytest                    7.0.1           py310h2ec42d9_0    conda-forge
pytest-watch              4.1.0           py310h2ec42d9_1003    conda-forge
python                    3.10.2          hea1dfa3_3_cpython    conda-forge
python_abi                3.10                    2_cp310    conda-forge
pyyaml                    6.0             py310he24745e_3    conda-forge
readline                  8.1                  h05e3726_0    conda-forge
setuptools                60.9.3          py310h2ec42d9_0    conda-forge
six                       1.16.0             pyh6c4a22f_0    conda-forge
sqlite                    3.37.0               h23a322b_0    conda-forge
stack_data                0.2.0              pyhd8ed1ab_0    conda-forge
tk                        8.6.12               h5dbffcc_0    conda-forge
tomli                     1.2.2              pyhd8ed1ab_0    conda-forge
traitlets                 5.1.1              pyhd8ed1ab_0    conda-forge
typed-ast                 1.5.2           py310he24745e_0    conda-forge
typing_extensions         4.1.1              pyha770c72_0    conda-forge
tzdata                    2021e                he74cb21_0    conda-forge
watchdog                  2.1.6           py310hda895ab_1    conda-forge
wcwidth                   0.2.5              pyh9f0ad1d_2    conda-forge
wheel                     0.37.1             pyhd8ed1ab_0    conda-forge
xz                        5.2.5                haf1e3a3_1    conda-forge
yaml                      0.2.5                h0d85af4_2    conda-forge
zlib                      1.2.11            h9173be1_1013    conda-forge

Additional Context

Related: #11316
@justin-f-perez justin-f-perez added the type::bug describes erroneous operation, use severity::* to classify the type label Mar 16, 2022
@justin-f-perez
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@kenodegard (if you want to add to the list)

@justin-f-perez
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ahh... actually this may be related to or even a duplicate of #11174? I'm unsure.

@kenodegard kenodegard added source::community catch-all for issues filed by community members duplicate indicate issues/PRs that are duplicates of another labels Mar 17, 2022
@kenodegard
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@justin-f-perez yup, this definitely seems to be a duplicate

@github-actions github-actions bot added the locked [bot] locked due to inactivity label Mar 17, 2023
@github-actions github-actions bot locked as resolved and limited conversation to collaborators Mar 17, 2023
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