* bug#27858: Conda (on guix) does not activate environments @ 2017-07-28 5:49 Frederick Muriithi 2017-07-28 9:36 ` Pjotr Prins 0 siblings, 1 reply; 5+ messages in thread From: Frederick Muriithi @ 2017-07-28 5:49 UTC (permalink / raw) To: 27858 I have come across a bug on conda, installed via guix, that does not seem to be present when conda is installed via the process at https://conda.io/docs/install/quick.html#linux-miniconda-install The issue --------- Conda (on guix) does not activate environments Command ran ----------- source activate test-env Expected result --------------- The envinment should be activated, and the prompt changes from `frederick@localhost:/tmp$` to `(test-guix-conda) frederick@localhost:/tmp$` Actual result ------------- The terminal window is exited. Additional information ---------------------- This behaviour is not present on conda installed via the process presented in the conda documentation. The environment(s) created by conda on guix are available on, and can be activated by conda installed via the process in the conda documentation. I ran `bash -c "source activate test-env"` and the following error message was displayed: /gnu/store/f2dr9xbimg93pljm7xgmqb4cm5bxy98r-conda-4.3.16/bin/.deactivate-real: line 59: return: can only `return' from a function or sourced script /gnu/store/f2dr9xbimg93pljm7xgmqb4cm5bxy98r-conda-4.3.16/bin/.deactivate-real: line 94: return: can only `return' from a function or sourced script I would appreciate any help that would help in resolving this issue. ^ permalink raw reply [flat|nested] 5+ messages in thread
* bug#27858: Conda (on guix) does not activate environments 2017-07-28 5:49 bug#27858: Conda (on guix) does not activate environments Frederick Muriithi @ 2017-07-28 9:36 ` Pjotr Prins 2017-07-28 9:42 ` Frederick Muriithi 2017-07-28 10:20 ` Frederick Muriithi 0 siblings, 2 replies; 5+ messages in thread From: Pjotr Prins @ 2017-07-28 9:36 UTC (permalink / raw) To: Frederick Muriithi; +Cc: 27858 Hi Fred, Can you send the exact commands you are using so we can replicate the issue? Pj. -- ^ permalink raw reply [flat|nested] 5+ messages in thread
* bug#27858: Conda (on guix) does not activate environments 2017-07-28 9:36 ` Pjotr Prins @ 2017-07-28 9:42 ` Frederick Muriithi 2021-02-01 19:37 ` Maxim Cournoyer 2017-07-28 10:20 ` Frederick Muriithi 1 sibling, 1 reply; 5+ messages in thread From: Frederick Muriithi @ 2017-07-28 9:42 UTC (permalink / raw) To: Pjotr Prins; +Cc: 27858 1) Install conda into a profile: guix package --install=conda --profile=$HOME/guix_profiles/conda 2) Activate the profile: source $HOME/guix_profiles/conda/etc/profile 3) Create an environment with conda and install biopython conda create --name test-env biopython 4) Try to activate the environment (here's where it fails) source activate test-env ^ permalink raw reply [flat|nested] 5+ messages in thread
* bug#27858: Conda (on guix) does not activate environments 2017-07-28 9:42 ` Frederick Muriithi @ 2021-02-01 19:37 ` Maxim Cournoyer 0 siblings, 0 replies; 5+ messages in thread From: Maxim Cournoyer @ 2021-02-01 19:37 UTC (permalink / raw) To: Frederick Muriithi; +Cc: 27858-done Hello, Frederick Muriithi <fredmanglis@gmail.com> writes: > 1) Install conda into a profile: > > guix package --install=conda --profile=$HOME/guix_profiles/conda > > 2) Activate the profile: > > source $HOME/guix_profiles/conda/etc/profile > > 3) Create an environment with conda and install biopython > > conda create --name test-env biopython > > 4) Try to activate the environment (here's where it fails) > > source activate test-env I had never used conda before, so I was a bit surprised that it sneeked that into my ~/.bashrc: diff --git a/bash/.bashrc b/bash/.bashrc index d0635bc..169b2c8 100644 --- a/bash/.bashrc +++ b/bash/.bashrc @@ -119,3 +119,19 @@ function up() cd "$dir" echo "info: now in $PWD [Git repo]" } + +# >>> conda initialize >>> +# !! Contents within this block are managed by 'conda init' !! +__conda_setup="$('/gnu/store/pjkxdaryj97yffhjxql2q4wpzs70hpa3-conda-4.8.3/bin/conda' 'shell.bash' 'hook' 2> /dev/null)" +if [ $? -eq 0 ]; then + eval "$__conda_setup" +else + if [ -f "/gnu/store/pjkxdaryj97yffhjxql2q4wpzs70hpa3-conda-4.8.3/etc/profile.d/conda.sh" ]; then + . "/gnu/store/pjkxdaryj97yffhjxql2q4wpzs70hpa3-conda-4.8.3/etc/profile.d/conda.sh" + else + export PATH="/gnu/store/pjkxdaryj97yffhjxql2q4wpzs70hpa3-conda-4.8.3/bin:$PATH" + fi +fi +unset __conda_setup +# <<< conda initialize <<< + and required the presence of the 'sudo' command to be happy. With that said, $ guix environment --pure --ad-hoc conda bash coreutils sudo (base) $ conda create --name test-env biopython Then the suggested: (base) $ conda activate test-env (test-env) $ So, it seems to work. Closing. Maxim ^ permalink raw reply related [flat|nested] 5+ messages in thread
* bug#27858: Conda (on guix) does not activate environments 2017-07-28 9:36 ` Pjotr Prins 2017-07-28 9:42 ` Frederick Muriithi @ 2017-07-28 10:20 ` Frederick Muriithi 1 sibling, 0 replies; 5+ messages in thread From: Frederick Muriithi @ 2017-07-28 10:20 UTC (permalink / raw) To: Pjotr Prins; +Cc: 27858 Additional Information When installed from conda's documentation, conda installs the following packages into conda's root environment by default: asn1crypto, cffi, conda, conda-env, cryptography, idna, libffi, openssl, packaging, pip, pycosat, pycparser, pyopenssl, pyparsing, python, readline, requests, ruamel_yaml, setuptools, six, sqlite, tk, wheel, xz, yaml, zlib These do not exists in the root environment of the conda installed via guix. ^ permalink raw reply [flat|nested] 5+ messages in thread
end of thread, other threads:[~2021-02-01 19:38 UTC | newest] Thread overview: 5+ messages (download: mbox.gz / follow: Atom feed) -- links below jump to the message on this page -- 2017-07-28 5:49 bug#27858: Conda (on guix) does not activate environments Frederick Muriithi 2017-07-28 9:36 ` Pjotr Prins 2017-07-28 9:42 ` Frederick Muriithi 2021-02-01 19:37 ` Maxim Cournoyer 2017-07-28 10:20 ` Frederick Muriithi
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