conda activate 和 conda init 无法在 colab 中工作（截至 2020 年 6 月）

Question

这个问题可能与 2018 年提出的问题重复： conda environment in google colab [google-colaboratory]

但答案对我不起作用。

我注意到在 2020 年 1 月的另一个问题 Google Colab 中的 osmNX中也提到了它

并注意到数据科学堆栈上发布的相同问题 - 但答案对我也不起作用： https: //datascience.stackexchange.com/questions/75948/how-to-setup-and-run-conda-on-google-colab/75979 #75979

所以我认为问题仍然有效。

如何在Colab中激活conda环境？

找不到锻炼的方法。

重现步骤：

1. 安装迷你康达

!wget https://repo.continuum.io/miniconda/Miniconda3-4.5.4-Linux-x86_64.sh
!bash Miniconda3-4.5.4-Linux-x86_64.sh -bfp /usr/local

请注意警告：

...
installation finished.
WARNING:
    You currently have a PYTHONPATH environment variable set. This may cause
    unexpected behavior when running the Python interpreter in Miniconda3.
    For best results, please verify that your PYTHONPATH only points to
    directories of packages that are compatible with the Python interpreter
    in Miniconda3: /usr/local

2. 更新和 bash 变量

...
installation finished.
WARNING:
    You currently have a PYTHONPATH environment variable set. This may cause
    unexpected behavior when running the Python interpreter in Miniconda3.
    For best results, please verify that your PYTHONPATH only points to
    directories of packages that are compatible with the Python interpreter
    in Miniconda3: /usr/local

请注意注释已生效：

no change     /usr/local/condabin/conda
no change     /usr/local/bin/conda
no change     /usr/local/bin/conda-env
no change     /usr/local/bin/activate
no change     /usr/local/bin/deactivate
no change     /usr/local/etc/profile.d/conda.sh
no change     /usr/local/etc/fish/conf.d/conda.fish
no change     /usr/local/shell/condabin/Conda.psm1
no change     /usr/local/shell/condabin/conda-hook.ps1
no change     /usr/local/lib/python3.7/site-packages/xontrib/conda.xsh
no change     /usr/local/etc/profile.d/conda.csh
modified      /root/.bashrc

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

3. 尝试使更改生效：

%%bash
conda update conda -y -q
source /usr/local/etc/profile.d/conda.sh
conda init (or conda init bash if linux)

或者

no change     /usr/local/condabin/conda
no change     /usr/local/bin/conda
no change     /usr/local/bin/conda-env
no change     /usr/local/bin/activate
no change     /usr/local/bin/deactivate
no change     /usr/local/etc/profile.d/conda.sh
no change     /usr/local/etc/fish/conf.d/conda.fish
no change     /usr/local/shell/condabin/Conda.psm1
no change     /usr/local/shell/condabin/conda-hook.ps1
no change     /usr/local/lib/python3.7/site-packages/xontrib/conda.xsh
no change     /usr/local/etc/profile.d/conda.csh
modified      /root/.bashrc

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

4. 安装环境：就我而言：

   !conda env create -f enviroment.yml

5. 激活环境>不起作用！

   !conda activate myenv

注意评论：

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

$ conda init <SHELL_NAME>

Currently supported shells are:
  - bash
  - fish
  - tcsh
  - xonsh
  - zsh
  - powershell

See 'conda init --help' for more information and options.

IMPORTANT: You may need to close and restart your shell after running 'conda init'.

6. 所以我再试一次：

%%bash
exec bash

和

!source ~/.bashrc

=> 没有效果

另请注意以下事项：

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

$ conda init <SHELL_NAME>

Currently supported shells are:
  - bash
  - fish
  - tcsh
  - xonsh
  - zsh
  - powershell

See 'conda init --help' for more information and options.

IMPORTANT: You may need to close and restart your shell after running 'conda init'.

现在我认为环境已激活，但事实并非如此，因为python仍然没有指向conda env：

!which python
#/usr/local/bin/python 

这是一个不同的结果，我尊重答案： https: //datascience.stackexchange.com/a/75979

看到 python 指向默认值，而不是 conda 的：

%%bash
source activate myenv

python
import sys
# maybe only need this the first time we run this notebook
sys.path.append('/usr/local/lib/python3.6/site-packages')

print("Python version")
print(sys.version)

输出：

Python version
3.7.5 (default, Oct 25 2019, 15:51:11) 
[GCC 7.3.0]

另请注意，不source推荐使用以下方式激活：

%%bash
source deactivate
#DeprecationWarning: 'source deactivate' is deprecated. Use 'conda deactivate'.

任何帮助表示赞赏。

对于 Google 人员来说，默认情况下在 Colab 中设置 conda（或选择列表中的选项）将非常感激。

Answer 1

这对我有用，但如果您在尝试后仍然遇到问题，请告诉我：

%%shell
eval "$(conda shell.bash hook)" # copy conda command to shell
conda activate myenv
python --version
conda deactivate