在 dockerfile 中运行 conda update 的问题 [英] Problems running conda update in a dockerfile

问题描述

我正在尝试创建一个带有一些 conda 环境的 docker 容器.当我以交互模式运行容器时运行

I am trying to create a docker container with some conda environments. When I run the container in interactive mode running

conda update --all
conda env create -f env.yml

运行没有问题.但是，每当我尝试使用 Docker 文件执行这些命令时，我都会收到

runs with no issues. However whenever I try to execute these commands with a Docker file I recieve

/bin/sh: 1: conda: command not foud

Docker 文件如下图所示:

Docker file is shown below:

FROM ubuntu:latest
RUN apt-get update && 
    apt-get install unzip && 
    mkdir /install && 
    apt-get install nano
COPY Anaconda3-2018.12-Linux-x86_64.sh env.yml /install/
WORKDIR /install
RUN bash Anaconda3-2018.12-Linux-x86_64.sh -b && 
    echo "export PATH="/root/anaconda3/bin:$PATH"" >> ~/.bashrc && 
    /bin/bash -c "source ~/.bashrc"
RUN conda update --all
RUN conda env create -f env.yml

所以似乎使用的是 sh 而不是 bash，所以我将 Dockerfile 编辑为以下内容:

So it appears that sh is being used instead of bash so I edited the Dockerfile to the following:

FROM ubuntu:latest
RUN apt-get update && 
    apt-get install unzip && 
    mkdir /install && 
    apt-get install nano
COPY Anaconda3-2018.12-Linux-x86_64.sh env.yml /install/
WORKDIR /install
RUN bash Anaconda3-2018.12-Linux-x86_64.sh -b && 
    echo "export PATH="/root/anaconda3/bin:$PATH"" >> ~/.bashrc && 
    /bin/bash -c "source ~/.bashrc"
RUN /bin/bash -c "conda update --all"

出现以下错误

/bin/bash: conda: command not found

推荐答案

在 Dockerfile 中执行 anaconda 之前，您必须在构建期间使用 ENV 变量将 anaconda 添加到 PATH.

You have to add anaconda to the PATH during build time with the ENV variable before executing anaconda inside the Dockerfile.

RUN bash Anaconda3-2018.12-Linux-x86_64.sh -b && 
    echo "export PATH="/root/anaconda3/bin:$PATH"" >> ~/.bashrc && 
    /bin/bash -c "source ~/.bashrc"
ENV PATH /root/anaconda3/bin:$PATH
RUN conda update --all

更新 .bashrc 中的 PATH 可以在使用 docker run 运行时调用容器内的 conda，但不能在 docker 文件中的其他 RUN 语句中调用.

Updating PATH in .bashrc will make it possible to call conda inside the container, when run with docker run, but not in other RUN statements in the docker file.

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