Develop Docker Environment for build/test/deploy of binaries for BRAINSTools

[hjmjohnson]

BRAINSTools developers need an easier way to build, test, and deploy binaries for the BRAINSTools package.

[ ] - Download Docker for Windows
[ ] - docker pull ubuntu-18.04 LTS release
[ ] - create docker file that installs basic development envirionment
[ ] - MANUALLY clone (git) BRAISTools from github
[ ] - Manually build BRAINSTools

A Dockerfile representation:

FROM neurodebian:stretch-non-free as BRAINSTools-base
MAINTAINER Hans J. Johnson <[email protected]>

## the popularity-contest is causing docker build to hang
ARG DEBIAN_FRONTEND=noninteractive
#RUN apt-get update && echo "no" | apt-get install -y popularity-contest

RUN apt-get update && apt-get install -y \
  apt-utils \
  build-essential \
  ccache \
  curl \
  git \
  subversion \
  ninja-build \
  python \
  vim \
  && apt-get clean

# Using --no-install-recommends greatly reduces the installed packages
#-- DONT NEED LATEX RUN apt-get update && apt-get install -y --no-install-recommends \
#-- DONT NEED LATEX   texlive-latex-base \
#-- DONT NEED LATEX   texlive-latex-extra
#-- DONT NEED LATEX   ghostscript \
#-- DONT NEED LATEX   imagemagick \
#-- DONT NEED LATEX   python \
#-- DONT NEED LATEX   python-pygments \
#-- DONT NEED LATEX   latex-xcolor \
#-- DONT NEED LATEX   tex4ht \
#-- DONT NEED LATEX   texlive-fonts-recommended \
RUN apt-get update && apt-get install -y \
   locales \
   && apt-get clean
RUN echo "en_US.UTF-8 UTF-8" > /etc/locale.gen && \
    locale-gen
ENV LC_ALL=en_US.UTF-8 \
    LANG=en_US.UTF-8 \
    LANGUAGE=en_US.UTF-8

# Install the latest CMake release
WORKDIR /tmp/
#RUN curl  -L https://bootstrap.pypa.io/get-pip.py -o get-pip.py && \
    #python get-pip.py && \
    #pip install cmake
#WORKDIR /
# Build and install CMake from source for Ninja build job patch to be released with CMake 3.11
WORKDIR /usr/src
RUN apt-get install -y libncurses-dev libssl-dev && \
  git clone https://github.com/Kitware/CMake.git CMake && \
  cd CMake && \
  git checkout v3.11.1 && \
  mkdir /usr/src/CMake-build && \
  cd /usr/src/CMake-build && \
  /usr/src/CMake/bootstrap \
    --parallel=5 \
    --prefix=/usr && \
  make -j5 && \
  ./bin/cmake \
    -DCMAKE_BUILD_TYPE:STRING=Release \
    -DCMAKE_USE_OPENSSL:BOOL=ON . && \
  make install && \
  cd .. && \
  rm -rf CMake* && \
  apt-get clean
WORKDIR /

## https://github.com/poldracklab/fmriprep/blob/master/Dockerfile

WORKDIR /usr/src
RUN apt-get install -y libncurses-dev libssl-dev && \
  git clone https://github.com/Kitware/CMake.git CMake && \
  cd CMake && \
  git checkout v3.11.1 && \
  mkdir /usr/src/CMake-build && \
  cd /usr/src/CMake-build && \
  /usr/src/CMake/bootstrap \
    --parallel=5 \
    --prefix=/usr && \
  make -j5 && \
  ./bin/cmake \
    -DCMAKE_BUILD_TYPE:STRING=Release \
    -DCMAKE_USE_OPENSSL:BOOL=ON . && \
  make install && \
  cd .. && \
  rm -rf CMake* && \
  apt-get clean
WORKDIR /

# Build NEP
WORKDIR /usr/src
RUN \
  git clone https://github.com/BRAINSia/NAMICExternalProjects.git NAMICExternalProjects && \
  cd NAMICExternalProjects && \
  git checkout 71c06bf77fa1f050ae7ae44aa467cb9b6122e86b -b NEPDockerBuild && \
  mkdir /usr/src/NEP-11 && \
  cd /usr/src/NEP-11 && \
  cmake \
    -DCMAKE_BUILD_TYPE:STRING=Release \
    -DBUILD_OPTIMIZED:BOOL=ON \
    /usr/src/NAMICExternalProjects

RUN cd /usr/src/NEP-11 && make -j 8 -k \
   && make -k \
   && make -C BRAINSTools  \
   find . -name "*.o" -exec rm {} \; && \
   find . -name "*.a" -exec rm {} \;
WORKDIR /

[JIongbaiLiu]

Staring working on dock