在dockerfile中运行conda更新时出现问题 [英] Problems running conda update in a dockerfile

问题描述

我正在尝试使用一些conda环境创建一个docker容器.当我在运行

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

因此似乎使用了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

在.bashrc中更新PATH将使在使用docker run运行时可以在容器内调用conda，但无法在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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