I tried to alias python3 to python3.8 in the Dockerfile. But It doesn't work for me. I am using ubuntu:18.04.
Step 25/41 : RUN apt-get update && apt-get install -y python3.8
---> Using cache
---> 9fa81ca14a53
Step 26/41 : RUN alias python3="python3.8" && python3 --version
---> Running in d7232d3c8b8f
Python 3.6.9
As you can see the python3 is still 3.6.9. How can I fix this issue?
Thanks.
EDIT
Just attach my Dockerfile:
##################################################################################################################
# Build
#################################################################################################################
#FROM openjdk:8
FROM ubuntu:18.04
############## Linux and perl packages ###############
RUN apt-get update && \
apt-get install -y openjdk-8-jdk && \
apt-get install -y ant && \
apt-get clean && \
rm -rf /var/lib/apt/lists/* && \
rm -rf /var/cache/oracle-jdk8-installer && \
apt-get update -y && \
apt-get install curl groff python-gdbm -y;
# Fix certificate issues, found as of
# https://bugs.launchpad.net/ubuntu/+source/ca-certificates-java/+bug/983302
RUN apt-get update && \
apt-get install -y ca-certificates-java && \
apt-get clean && \
update-ca-certificates -f && \
rm -rf /var/lib/apt/lists/* && \
rm -rf /var/cache/oracle-jdk8-installer;
# Setup JAVA_HOME, this is useful for docker commandline
ENV JAVA_HOME /usr/lib/jvm/java-8-openjdk-amd64/
RUN export JAVA_HOME
# install git
RUN apt-get update && \
apt-get install -y mysql-server && \
apt-get install -y uuid-runtime git jq python python-dev python-pip python-virtualenv libdbd-mysql-perl && \
rm -rf /var/lib/apt/lists/* && \
apt-get install perl && \
perl -MCPAN -e 'CPAN::Shell->install("Inline")' && \
perl -MCPAN -e 'CPAN::Shell->install("DBI")' && \
perl -MCPAN -e 'CPAN::Shell->install("List::MoreUtils")' && \
perl -MCPAN -e 'CPAN::Shell->install("Inline::Python")' && \
perl -MCPAN -e 'CPAN::Shell->install("LWP::Simple")' && \
perl -MCPAN -e 'CPAN::Shell->install("JSON")' && \
perl -MCPAN -e 'CPAN::Shell->install("LWP::Protocol::https")';
RUN apt-get update && \
apt-get install --yes cpanminus
RUN cpanm \
CPAN::Meta \
YAML \
DBI \
Digest::SHA \
Module::Build \
Test::Most \
Test::Weaken \
Test::Memory::Cycle \
Clone
# Install perl modules for network and SSL (and their dependencies)
RUN apt-get install --yes \
openssl \
libssl-dev \
liblwp-protocol-https-perl
RUN cpanm \
LWP \
LWP::Protocol::https
# New module for v1.2 annotation
RUN perl -MCPAN -e 'CPAN::Shell->install("Text::NSP::Measures::2D::Fisher::twotailed")'
#############################################
############## python packages ###############
# python packages
RUN pip install pymysql==0.10.1 awscli boto3 pandas docopt fastnumbers tqdm pygr
############## python3 packages ###############
# python3 packages
RUN apt-get update && \
apt-get install -y python3-pip && \
python3 -m pip install numpy && \
python3 -m pip install pandas && \
python3 -m pip install sqlalchemy && \
python3 -m pip install boto3 && \
python3 -m pip install pymysql && \
python3 -m pip install pymongo;
RUN python3 -m pip install pyfaidx
#############################################
#############################################
############# expose tcp ports
EXPOSE 3306/tcp
EXPOSE 80/tcp
EXPOSE 8080
############# RUN entrypoint.sh
# commented out for testing
ENTRYPOINT ["./entrypoint.sh"]
© 2022 GitHub, Inc.
Terms
When I install the package pyfaidx with default python3.6, it raises an error. I found that python3.8 can install it. Thus, I want to switch to python3.8 to install all py3 packages.
Bash alias that you define in your RUN statement will be available only in the current shell session. When the current RUN statement finishes executing, you exit the session, effectively forgetting any aliases you set up there.
See also: How can I set Bash aliases for docker containers in Dockerfile?
Another option is to use update-alternatives, e.g.,
# update-alternatives --install `which python3` python3 `which python3.8` 20
update-alternatives: using /usr/bin/python3.8 to provide /usr/bin/python3 (python3) in auto mode
# python3 --version
Python 3.8.0
This may interfere with other container packages that do require 3.6 which was default on Ubuntu 18.04 back in the day. Furthermore, pip's authors do not recommend using pip to install system-wide packages like that. In fact, newer pip versions will emit a warning when attempting to use pip globally along the lines of your Dockerfile.
Therefore a better course of action is using a virtualenv:
# apt install -y python3-venv python3.8-venv
...
# python3.8 -m venv /usr/local/venv
# /usr/local/venv/bin/pip install -U pip setuptools wheel
# /usr/local/venv/bin/pip install -U pyfaidx
... (etc)
You can also "enter" your virtualenv by activating it:
root#a1d0210118a8:/# source /usr/local/venv/bin/activate
(venv) root#a1d0210118a8:/# python -V
Python 3.8.0
See also: Use different Python version with virtualenv.
Related
I am trying to install python and pip & Ansible using Dockerfile but I get this error
/bin/sh: 1: python: not found
The command '/bin/sh -c curl -O https://bootstrap.pypa.io/pip/2.7/get-pip.py && python get-pip.py && python -m pip install --upgrade "pip < 21.0" && pip install ansible --upgrade' returned a non-zero code: 127
ERROR: Service 'jenkins' failed to build : Build failed
Here is my Dockerfile:
FROM jenkins/jenkins
USER root
RUN curl -O https://bootstrap.pypa.io/pip/2.7/get-pip.py && \
python get-pip.py && \
python -m pip install --upgrade "pip < 21.0" && \
pip install ansible --upgrade
USER jenkins
Note: I used the same instructions on another Dockerfile and it went without errors. Here is the Dockerfile from CentOS image:
FROM centos:7
RUN yum update -y && \
yum -y install openssh-server && \
yum install -y passwd
RUN useradd remote_user && \
echo "password" | passwd remote_user --stdin && \
mkdir /home/remote_user/.ssh && \
chmod 700 /home/remote_user/.ssh
COPY remote-key.pub /home/remote_user/.ssh/authorized_keys
RUN chown remote_user:remote_user -R /home/remote_user && \
chmod 600 /home/remote_user/.ssh/authorized_keys
RUN /usr/sbin/sshd-keygen
RUN yum -y install mysql
RUN curl -O https://bootstrap.pypa.io/pip/2.7/get-pip.py && \
python get-pip.py && \
python -m pip install --upgrade "pip < 21.0" && \
pip install awscli --upgrade
CMD /usr/sbin/sshd -D
Since I'm not entirely sure my comments were fully understandable, here is how I would install ansible in your current base image jenkins/jenkins.
Notes:
I fixed the tag to lts since building from latest is a bit on the edge. You can change that to whatever tag suits your needs.
That base image is itself based on Ubuntu and not CentOS as reported in your title (hence using apt and not yum/dnf)
I used two RUN directives (one for installing python, the other for ansible) but you can merge them in a single instruction if you want to further limit the number of layers.
FROM jenkins/jenkins:lts
USER root
RUN apt-get update && \
apt-get install -y python3-pip && \
rm -rf /var/lib/apt/lists/*
RUN pip install --upgrade pip && \
pip install ansible && \
pip cache purge
USER jenkins
I deleted RUN instructions and replaced it with :
RUN apt-get update
RUN apt-get install -y ansible
Worked like a charm.
I have specific requirement to install Python 2.7.5 in Ubuntu, I could install 2.7.18 without any issues
Below is my dockerfile
ARG UBUNTU_VERSION=18.04
FROM ubuntu:$UBUNTU_VERSION
RUN apt-get update -y \
&& apt-get install -y python2.7.x \
&& rm -rf /var/lib/apt/lists/*
ENTRYPOINT ["python"]
however if I set it to python2.7.5
ARG UBUNTU_VERSION=18.04
FROM ubuntu:$UBUNTU_VERSION
RUN apt-get update -y \
&& apt-get install -y python2.7.5 \
&& rm -rf /var/lib/apt/lists/*
ENTRYPOINT ["python"]
it is throwing the following error
E: Couldn't find any package by regex 'python2.7.5'
I want to install Python 2.7.5 along with relevant PIP, what should I do?
This version is no longer available in canonical mirrors.
It has been released in 2013.
As a result, having both python and pip working together since then is challenging.
Python 2.7.5 + PIP on centos7
It may be the simplest way if ubuntu is not a requirement.
ARG CENTOS_VERSION=7
FROM centos:$CENTOS_VERSION
# Python 2.7.5 is installed with centos7 image
# Add repository for PIP
RUN yum install -y epel-release
# Install pip
RUN yum install -y python-pip
RUN python --version
ENTRYPOINT [ "python" ]
Python 2.7.5 on ubuntu
I've been able to install it from source
It has not been a success to install pip :
https://bootstrap.pypa.io/pip/2.7/get-pip.py
ARG UBUNTU_VERSION=18.04
FROM ubuntu:$UBUNTU_VERSION
ARG PYTHON_VERSION=2.7.5
# Install dependencies
# PIP - openssl version > 1.1 may be an issue (try older ubuntu images)
RUN apt-get update \
&& apt-get install -y wget gcc make openssl libffi-dev libgdbm-dev libsqlite3-dev libssl-dev zlib1g-dev \
&& apt-get clean
WORKDIR /tmp/
# Build Python from source
RUN wget https://www.python.org/ftp/python/$PYTHON_VERSION/Python-$PYTHON_VERSION.tgz \
&& tar --extract -f Python-$PYTHON_VERSION.tgz \
&& cd ./Python-$PYTHON_VERSION/ \
&& ./configure --enable-optimizations --prefix=/usr/local \
&& make && make install \
&& cd ../ \
&& rm -r ./Python-$PYTHON_VERSION*
RUN python --version
ENTRYPOINT [ "python" ]
Python 2.7.6 + pip on ubuntu
Ubuntu 14.04 still has mirrors working (how long ???).
Python packages are really close to your expectations.
You may try to run your scripts with that one.
ARG UBUNTU_VERSION=14.04
FROM ubuntu:$UBUNTU_VERSION
RUN apt-get update \
&& apt-get install -y python python-pip \
&& apt-get clean
RUN python --version
ENTRYPOINT [ "python" ]
Python 2.7.5 + pip, not working but could on ubuntu
Here is what I've tried with no success.
ARG UBUNTU_VERSION=16.04
FROM ubuntu:$UBUNTU_VERSION
# Install dependencies
RUN apt-get update \
&& apt-get install -y wget gcc make openssl libffi-dev libgdbm-dev libsqlite3-dev libssl-dev zlib1g-dev \
&& apt-get clean
WORKDIR /tmp/
# Build python from source
RUN wget https://www.python.org/ftp/python/$PYTHON_VERSION/Python-$PYTHON_VERSION.tgz \
&& tar --extract -f Python-$PYTHON_VERSION.tgz \
&& cd ./Python-$PYTHON_VERSION/ \
&& ./configure --enable-optimizations --prefix=/usr/local \
&& make && make install \
&& cd ../ \
&& rm -r ./Python-$PYTHON_VERSION*
# Build pip from source
RUN wget https://bootstrap.pypa.io/pip/2.7/get-pip.py \
&& python get-pip.py
RUN python --version
ENTRYPOINT [ "python" ]
Python 2.7.9 with pip - as requested in comment
You can use this dockerfile, building python includes pip.
ARG UBUNTU_VERSION=16.04
FROM ubuntu:$UBUNTU_VERSION
ARG PYTHON_VERSION=2.7.9
# Install dependencies
RUN apt-get update \
&& apt-get install -y wget gcc make openssl libffi-dev libgdbm-dev libsqlite3-dev libssl-dev zlib1g-dev \
&& apt-get clean
WORKDIR /tmp/
# Build Python from source
RUN wget https://www.python.org/ftp/python/$PYTHON_VERSION/Python-$PYTHON_VERSION.tgz \
&& tar --extract -f Python-$PYTHON_VERSION.tgz \
&& cd ./Python-$PYTHON_VERSION/ \
&& ./configure --with-ensurepip=install --enable-optimizations --prefix=/usr/local \
&& make && make install \
&& cd ../ \
&& rm -r ./Python-$PYTHON_VERSION*
RUN python --version \
&& pip --version
ENTRYPOINT [ "python" ]
The simplest possible solution:
sudo apt-get install libssl-dev openssl
wget https://www.python.org/ftp/python/2.7.5/Python-2.7.5.tgz
tar xzvf Python-2.7.5.tgz
cd Python-2.7.5
./configure
make
sudo make install
After installation completed set installed python as default one.
I need to change the Dockerfile below, coming from pytorch_geometric (a popular PyTorch package), from CUDA9.0 to CUDA10.0.
FROM ubuntu:16.04
RUN apt-get update && apt-get install -y --no-install-recommends apt-utils ca-certificates apt-transport-https gnupg-curl && \
rm -rf /var/lib/apt/lists/* && \
NVIDIA_GPGKEY_SUM=d1be581509378368edeec8c1eb2958702feedf3bc3d17011adbf24efacce4ab5 && \
NVIDIA_GPGKEY_FPR=ae09fe4bbd223a84b2ccfce3f60f4b3d7fa2af80 && \
apt-key adv --fetch-keys https://developer.download.nvidia.com/compute/cuda/repos/ubuntu1604/x86_64/7fa2af80.pub && \
apt-key adv --export --no-emit-version -a $NVIDIA_GPGKEY_FPR | tail -n +5 > cudasign.pub && \
echo "$NVIDIA_GPGKEY_SUM cudasign.pub" | sha256sum -c --strict - && rm cudasign.pub && \
echo "deb https://developer.download.nvidia.com/compute/cuda/repos/ubuntu1604/x86_64 /" > /etc/apt/sources.list.d/cuda.list && \
echo "deb https://developer.download.nvidia.com/compute/machine-learning/repos/ubuntu1604/x86_64 /" > /etc/apt/sources.list.d/nvidia-ml.list
ENV CUDA_VERSION 9.0.176
ENV NCCL_VERSION 2.4.2
ENV CUDA_PKG_VERSION 9-0=$CUDA_VERSION-1
ENV CUDNN_VERSION 7.4.2.24
RUN apt-get update && apt-get install -y --no-install-recommends \
cuda-cudart-$CUDA_PKG_VERSION && \
ln -s cuda-9.0 /usr/local/cuda && \
rm -rf /var/lib/apt/lists/*
RUN apt-get update && apt-get install -y --allow-unauthenticated --no-install-recommends \
cuda-libraries-$CUDA_PKG_VERSION \
libnccl2=$NCCL_VERSION-1+cuda9.0 && \
apt-mark hold libnccl2 && \
rm -rf /var/lib/apt/lists/*
RUN apt-get update && apt-get install -y --allow-unauthenticated --no-install-recommends \
cuda-libraries-dev-$CUDA_PKG_VERSION \
cuda-nvml-dev-$CUDA_PKG_VERSION \
cuda-minimal-build-$CUDA_PKG_VERSION \
cuda-command-line-tools-$CUDA_PKG_VERSION \
cuda-core-9-0=9.0.176.3-1 \
cuda-cublas-dev-9-0=9.0.176.4-1 \
libnccl-dev=$NCCL_VERSION-1+cuda9.0 && \
rm -rf /var/lib/apt/lists/*
ENV LIBRARY_PATH /usr/local/cuda/lib64/stubs
# NVIDIA docker 1.0.
LABEL com.nvidia.volumes.needed="nvidia_driver"
LABEL com.nvidia.cuda.version="${CUDA_VERSION}"
RUN echo "/usr/local/nvidia/lib" >> /etc/ld.so.conf.d/nvidia.conf && \
echo "/usr/local/nvidia/lib64" >> /etc/ld.so.conf.d/nvidia.conf
ENV PATH /usr/local/nvidia/bin:/usr/local/cuda/bin:${PATH}
ENV LD_LIBRARY_PATH /usr/local/nvidia/lib:/usr/local/nvidia/lib64
# NVIDIA container runtime.
ENV NVIDIA_VISIBLE_DEVICES all
ENV NVIDIA_DRIVER_CAPABILITIES compute,utility
ENV NVIDIA_REQUIRE_CUDA "cuda>=9.0"
# PyTorch (Geometric) installation
RUN rm /etc/apt/sources.list.d/cuda.list && \
rm /etc/apt/sources.list.d/nvidia-ml.list
RUN apt-get update && apt-get install -y \
curl \
ca-certificates \
vim \
sudo \
git \
bzip2 \
libx11-6 \
&& rm -rf /var/lib/apt/lists/*
# Create a working directory.
RUN mkdir /app
WORKDIR /app
# Create a non-root user and switch to it.
RUN adduser --disabled-password --gecos '' --shell /bin/bash user \
&& chown -R user:user /app
RUN echo "user ALL=(ALL) NOPASSWD:ALL" > /etc/sudoers.d/90-user
USER user
# All users can use /home/user as their home directory.
ENV HOME=/home/user
RUN chmod 777 /home/user
# Install Miniconda.
RUN curl -so ~/miniconda.sh https://repo.continuum.io/miniconda/Miniconda3-4.5.12-Linux-x86_64.sh \
&& chmod +x ~/miniconda.sh \
&& ~/miniconda.sh -b -p ~/miniconda \
&& rm ~/miniconda.sh
ENV PATH=/home/user/miniconda/bin:$PATH
ENV CONDA_AUTO_UPDATE_CONDA=false
# Create a Python 3.6 environment.
RUN /home/user/miniconda/bin/conda install conda-build \
&& /home/user/miniconda/bin/conda create -y --name py36 python=3.6.5 \
&& /home/user/miniconda/bin/conda clean -ya
ENV CONDA_DEFAULT_ENV=py36
ENV CONDA_PREFIX=/home/user/miniconda/envs/$CONDA_DEFAULT_ENV
ENV PATH=$CONDA_PREFIX/bin:$PATH
# CUDA 9.0-specific steps.
RUN conda install -y -c pytorch \
cuda90=1.0 \
magma-cuda90=2.4.0 \
"pytorch=1.1.0=py3.6_cuda9.0.176_cudnn7.5.1_0" \
torchvision=0.2.1 \
&& conda clean -ya
# Install HDF5 Python bindings.
RUN conda install -y h5py=2.8.0 \
&& conda clean -ya
RUN pip install h5py-cache==1.0
# Install TorchNet, a high-level framework for PyTorch.
RUN pip install torchnet==0.0.4
# Install Requests, a Python library for making HTTP requests.
RUN conda install -y requests=2.19.1 \
&& conda clean -ya
# Install Graphviz.
RUN conda install -y graphviz=2.38.0 \
&& conda clean -ya
RUN pip install graphviz==0.8.4
# Install OpenCV3 Python bindings.
RUN sudo apt-get update && sudo apt-get install -y --no-install-recommends \
libgtk2.0-0 \
libcanberra-gtk-module \
&& sudo rm -rf /var/lib/apt/lists/*
RUN conda install -y -c menpo opencv3=3.1.0 \
&& conda clean -ya
# Install PyTorch Geometric.
RUN CPATH=/usr/local/cuda/include:$CPATH \
&& LD_LIBRARY_PATH=/usr/local/cuda/lib64:$LD_LIBRARY_PATH \
&& DYLD_LIBRARY_PATH=/usr/local/cuda/lib:$DYLD_LIBRARY_PATH
RUN pip install --verbose --no-cache-dir torch-scatter \
&& pip install --verbose --no-cache-dir torch-sparse \
&& pip install --verbose --no-cache-dir torch-cluster \
&& pip install --verbose --no-cache-dir torch-spline-conv \
&& pip install torch-geometric
# Set the default command to python3.
CMD ["python3"]
I've tried starting it with FROM pytorch/pytorch:1.1.0-cuda10.0-cudnn7.5-runtime and commenting everything up to # PyTorch (Geometric) installation and the section on # CUDA 9.0-specific steps. for
RUN conda install -c pytorch pytorch
RUN conda install -c fragcolor cuda10.0 && conda clean -ya
and commenting out
# Install Graphviz.
RUN conda install -y graphviz=2.38.0 \
&& conda clean -ya
RUN pip install graphviz==0.8.4
which didn't seem to work even with CUDA9.0
This makes the docker work and load, pytorch to be able to be imported and cuda to work as well. However, when I try to import torch_geometric I get ModuleNotFoundError: No module named 'torch_scatter.scatter_cuda'
Since the package is well-maintained (4.5k stars, mentioned in the pytorch website), it seems to me it's likely my fault and something general about how to adapt from CUDA9.0 to CUDA10.0.
I'd appreciate any advice on what I could be doing wrong or a way of changing it without removing so many lines from the original Dockerfile, which is probably what's causing the issue.
Have you ever try with nvidia/cuda Docker base image?
try
FROM nvidia/cuda:10.0-cudnn7-devel-ubuntu16.04
RUN apt-get update && apt-get install -y --no-install-recommends \
apt-utils \
python3.6 \
python-dev \
python-pip \
python-setuptools \
&& \
rm -rf /var/lib/apt/lists/* && \
apt-get update
RUN pip install --upgrade pip==9.0.3 && \
pip --no-cache-dir install --upgrade torch==1.1.0 && \
pip --no-cache-dir install --upgrade torchvision==0.3.0
The versions of the packages I wrote are stable to use with Dockerfile.
I checked it and it worked well without any collision.
FROM webdevops/base:ubuntu-16.04
RUN apt-get update && apt-get -y upgrade && apt-get install -y --no-install- recommends \
apache2 \
openssh-client \
python3 \
python3-dev \
python3-venv \
python3-psycopg2 \
python3-pip \
pyflakes3 \
pylint3 \
pep8 \
pep257 \
postgresql-client \
libapache2-mod-wsgi-py3 \
&& apt-get clean \
&& rm -fr /var/lib/apt/lists/*
RUN mkdir /var/www/html/hotels-project
RUN cd /var/www/html/hotels-project/ \
&& python3 -m venv hotels-venv \
&& /bin/bash -c "source hotels-venv/bin/activate"
RUN pip install 'django<2.0'
RUN pip install requests
RUN pip install psycopg2
show message:
ERROR: Service 'apache-python' failed to build: The command '/bin/sh
-c pip install 'django<2.0'' returned a non-zero code: 127
You have two issues in your docker file.
Using pip instead of pip3
Activating virtualenv in one step and running commands in another step
In Dockerfile for every RUN step, you get a fresh terminal. So any source command you executed in previous RUN statement is no more active.
So your code should be something like this
RUN cd /var/www/html/hotels-project/ \
&& python3 -m venv hotels-venv \
&& /bin/bash -c "source hotels-venv/bin/activate" \
&& pip3 install -r requirements.txt
And requirements.txt should have below content
django<2.0
requests==X.XX
psycopg2==y.yy
That's how you should do it
How do I install R version 3.4.0 in my docker image. I've installed python using:
RUN yum -y install https://centos6.iuscommunity.org/ius-release.rpm \
&& yum -y install python36u \
&& yum -y install python36u-devel \
&& yum -y install python36u-pip \
&& yum -y install python36u-tkinter.x86_64
Similarly I need to install R:
I've specified following things in file so far for R:
ENV R_BASE_VERSION 3.4.0
RUN Rscript -e 'install.packages("devtools",dependencies=TRUE)' \
&&Rscript -e 'install.packages("methods",dependencies=TRUE)' \
&&Rscript -e 'install.packages("jsonlite",dependencies=TRUE)' \
Please suggest .I'm new to docker
I think I need to do something like below:
ENV R_BASE_VERSION 3.4.1
## Now install R and littler, and create a link for littler in /usr/local/bin
## Also set a default CRAN repo, and make sure littler knows about it too
RUN apt-get update \
&& apt-get install -t unstable -y --no-install-recommends \
littler \
r-cran-littler \
r-base=${R_BASE_VERSION}* \
r-base-dev=${R_BASE_VERSION}* \
r-recommended=${R_BASE_VERSION}* \
&& echo 'options(repos = c(CRAN = "https://cran.rstudio.com/"), download.file.method = "libcurl")' >> /etc/R/Rprofile.site \
&& echo 'source("/etc/R/Rprofile.site")' >> /etc/littler.r \
&& ln -s /usr/share/doc/littler/examples/install.r /usr/local/bin/install.r \
&& ln -s /usr/share/doc/littler/examples/install2.r /usr/local/bin/install2.r \
&& ln -s /usr/share/doc/littler/examples/installGithub.r /usr/local/bin/installGithub.r \
&& ln -s /usr/share/doc/littler/examples/testInstalled.r /usr/local/bin/testInstalled.r \
&& install.r docopt \
&& rm -rf /tmp/downloaded_packages/ /tmp/*.rds \
&& rm -rf /var/lib/apt/lists/*
But I do not know what is this litter and all. I just need R to be installed and then i will install required packages as I have specified above.
Edits : First line in my docker file installs node4.
Here are two DockerFile to install Python, R and NodeJS
The first one installs Python 3.4.2, R 3.1.1 and nodejs 4.8.4:
From node:4
RUN apt-get update && apt-get remove -y python && apt-get install -y python3 r-base
RUN cp /usr/bin/python3 /usr/bin/python
This second one installs Python 3.5.3, R 3.4.1 and nodejs 4.8.4:
From r-base:3.4.1
RUN apt-get update && apt-get install -y python3 nodejs
RUN cp /usr/bin/python3 /usr/bin/python
Choose the one that best fits your needs.
If your public base image (the base image of your own image) is really node:4, then it is not yum based but apt-get based to manage packages.
Thus you shoud install R the following way:
RUN apt-get update && apt-get install -y r-base
You should use some R images, like
https://hub.docker.com/_/r-base/
or some oher image in this list
https://hub.docker.com/search/?isAutomated=0&isOfficial=0&page=1&pullCount=0&q=R&starCount=0