分析脚本搭建docker环境：python, R

 

1. 搭建Anaconda Python3.6

FROM nvidia/cuda:8.0-cudnn6-devel-ubuntu16.04
MAINTAINER Tyan <tyan.liu.git@gmail.com>


# Install basic dependencies
RUN apt-get update && apt-get install -y --no-install-recommends \
        build-essential \
        cmake \
        git \
        wget \
        libopencv-dev \
        libsnappy-dev \
        python-dev \
        python-pip \
        tzdata \
        vim


# Install anaconda for python 3.6
RUN wget --quiet https://repo.continuum.io/archive/Anaconda3-5.0.1-Linux-x86_64.sh -O ~/anaconda.sh && \
    /bin/bash ~/anaconda.sh -b -p /opt/conda && \
    rm ~/anaconda.sh && \
    echo "export PATH=/opt/conda/bin:$PATH" >> ~/.bashrc


# Set timezone
RUN ln -sf /usr/share/zoneinfo/Asia/Shanghai /etc/localtime


# Set locale
ENV LANG C.UTF-8 LC_ALL=C.UTF-8


# Initialize workspace
RUN mkdir /workspace
WORKDIR /workspace

 

2. dockerfile 安装python包

COPY requirements.txt /tmp/
RUN pip install --requirement /tmp/requirements.txt
COPY . /tmp/

 

3. 搭建R环境

FROM r-base


# 安装包
RUN R -e "install.packages('remotes'); \
remotes::install_version('tidystringdist', '0.1.2')"

RUN mkdir /home/analysis
COPY myscript.R /home/analysis/myscript.R

# 运行
CMD cd /home/analysis \
&& R -e "source('myscript.R')" \
&& mv /home/analysis/p.csv /home/results/p.csv

 已有R的docker image:  https://github.com/rocker-org/rocker