在 gitlab CI 期间激活 conda 环境

2022-01-10 00:00:00 python gitlab conda anaconda continuous-integration

问题描述

我的 .gitlab-ci.yml 文件如下所示:

My .gitlab-ci.yml file looks like this:

anomalydetector:
  image: continuumio/miniconda:4.7.10
  stage: build
  tags:
    - docker
  script:
    - conda env create -f environment.yml
    - conda activate my-env
    - pytest tests/.

在 Gitlab 上，这项工作开始正常，并且读取了日志

On Gitlab, this job starts fine, and the logs read

$ conda env create -f environment.yml
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.7.10
  latest version: 4.7.11

好的，所以我使用的是 4.4 之后的 conda 版本，所以 conda activate 应该可以工作.但是，作业失败并显示以下内容:

Ok, so I'm using a conda version later than 4.4, so conda activate should work. However, the job fails with the following:

# To activate this environment, use
#
#     $ conda activate my-env
#
# To deactivate an active environment, use
#
#     $ conda deactivate

$ conda activate my-env

CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'.
To initialize your shell, run

    $ conda init <SHELL_NAME>

然后我尝试编辑我的 .gitlab-ci.yml 文件以便有一个命令

I have then tried editing my .gitlab-ci.yml file so that there is a command

conda init bash

然后得到消息

==> For changes to take effect, close and re-open your current shell. <==

如何在 gitlab CI 进程中激活我的 conda 环境?

How can I activate my conda environment in the gitlab CI process?

解决方案

conda init 触及 .bashrc 文件.要重新初始化 shell，您可以获取它:

conda init touches the .bashrc file. To reinitialize the shell you can source it:

  - conda create --name myenv
  - conda init bash
  - source ~/.bashrc    # <- !!!
  - conda activate myenv

我猜这是否比 source activate myenv 更好或更差是一个单独的讨论.

Whether this is better or worse than source activate myenv is a separate discussion, I guess.

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