Dockerfile

# ======= USAGE =======
# Run interactively:
#   docker run -it --entrypoint bash <IMAGE TAG>
# To build image locally (instead of pulling from dockerhub)
#   docker build /PATH/TO/GPTP-2021-Exploration-Of-Exploration/

# Pull a base image
FROM ubuntu:20.04

COPY . /opt/GPTP-2021-Exploration-Of-Exploration

# To make installs not ask questions about timezones
ARG DEBIAN_FRONTEND=noninteractive
ENV TZ=America/New_York

########################################################
# install base dependencies, add repo -lgfortran GL/gl.h
# - all of the extra dev libraries + fortran(??!!) + cargo are for the R environment... :(
########################################################
RUN \
  apt-get update \
    && \
  apt-get install -y -qq --no-install-recommends \
    software-properties-common \
    curl \
    g++-10 \
    make=4.2.1-1.2 \
    cmake=3.16.3-1ubuntu1  \
    python3=3.8.2-0ubuntu2 \
    python3-pip \
    python3-virtualenv \
    git=1:2.25.1-1ubuntu3 \
    dirmngr \
    gpg-agent \
    pandoc \
    pandoc-citeproc \
    texlive-base \
    texlive-latex-extra \
    lmodern \
    && \
  echo "installed base dependencies"

# alias wire g++-10 up to g++ ln -s gcc-10 gcc &&
RUN cd /usr/bin/ && ln -s g++-10 g++ &&  cd /

########################################################
# install project python dependencies (listed in requirements.txt)
########################################################
RUN \
  pip3 install -r /opt/GPTP-2021-Exploration-Of-Exploration/experiments/requirements.txt \
    && \
  pip3 install osfclient \
    && \
  echo "installed python dependencies"

########################################################
# download data, put into expected directories
########################################################
RUN \
  export OSF_PROJECT=xpjft \
    && \
  export PROJECT_PATH=/opt/GPTP-2021-Exploration-Of-Exploration \
    && \
  cd ${PROJECT_PATH} \
    && \
  export EXP_TAG=2021-05-27-cardinality \
    && \
  ./download_data.sh \
    && \
  export EXP_TAG=2021-05-27-tournament \
    && \
  ./download_data.sh \
    && \
  export EXP_TAG=2021-05-28-downsampled \
    && \
  ./download_data.sh \
    && \
  export EXP_TAG=2021-05-28-epsilon \
    && \
  ./download_data.sh \
    && \
  export EXP_TAG=2021-06-01-cohort \
    && \
  ./download_data.sh \
    && \
  export EXP_TAG=2021-06-01-novelty \
    && \
  ./download_data.sh \
    && \
  export EXP_TAG=2021-06-03-cardinality-pop-size \
    && \
  ./download_data.sh \
    && \
  export EXP_TAG=2021-06-05-downsample-vs-cohort \
    && \
  ./download_data.sh \
    && \
  export EXP_TAG=2021-06-14-downsampled-pop-size \
    && \
  ./download_data.sh \
    && \
  export EXP_TAG=2021-06-14-cohort-pop-size \
    && \
  ./download_data.sh \
    && \
  echo "downloaded experiment data"

# ########################################################
# # install r + r dependencies
# # - https://rtask.thinkr.fr/installation-of-r-4-0-on-ubuntu-20-04-lts-and-tips-for-spatial-packages/
# ########################################################
RUN \
  gpg --keyserver hkp://keyserver.ubuntu.com:80 --recv-keys E298A3A825C0D65DFD57CBB651716619E084DAB9 \
    && \
  gpg -a --export E298A3A825C0D65DFD57CBB651716619E084DAB9 | apt-key add - \
    && \
  apt update \
    && \
  add-apt-repository 'deb https://cloud.r-project.org/bin/linux/ubuntu focal-cran40/' \
    && \
  apt-get install -y -q --no-install-recommends \
    r-base \
    r-base-dev \
    libssl-dev \
    libcurl4-openssl-dev \
    libfreetype6-dev \
    libmagick++-dev \
    libxml2-dev \
    libfontconfig1-dev \
    cargo \
    && \
  R -e "install.packages('rmarkdown', dependencies=NA, repos='http://cran.rstudio.com/')" \
    && \
  R -e "install.packages('knitr', dependencies=NA, repos='http://cran.rstudio.com/')" \
    && \
  R -e "install.packages('bookdown', dependencies=NA, repos='http://cran.rstudio.com/')" \
    && \
  R -e "install.packages('tidyverse', dependencies=NA, repos='http://cran.rstudio.com/')" \
    && \
  R -e "install.packages('cowplot', dependencies=NA, repos='http://cran.rstudio.com/')" \
    && \
  R -e "install.packages('plyr', dependencies=NA, repos='http://cran.rstudio.com/')" \
    && \
  R -e "install.packages('Hmisc', dependencies=NA, repos='http://cran.rstudio.com/')" \
    && \
  R -e "install.packages('boot', dependencies=NA, repos='http://cran.rstudio.com/')" \
    && \
  R -e "install.packages('fmsb', dependencies=NA, repos='http://cran.rstudio.com/')" \
    && \
  R -e "install.packages('rstatix', dependencies=NA, repos='http://cran.rstudio.com/')" \
    && \
  R -e "install.packages('ggsignif', dependencies=NA, repos='http://cran.rstudio.com/')" \
    && \
  R -e "install.packages('kableExtra', dependencies=NA, repos='http://cran.rstudio.com/')" \
    && \
  echo "installed r and configured r environment"

########################################################
# download Empirical @ appropriate commit
########################################################
RUN \
  git clone https://github.com/amlalejini/Empirical.git /opt/Empirical && \
  cd /opt/Empirical && \
  git checkout b5c0d06d6fb765ac7fedd18e91ecbc2c054f51ff && \
  git submodule init && \
  git submodule update && \
  echo "download Empirical"

########################################################
# compile experiment code
########################################################
RUN \
  cd /opt/GPTP-2021-Exploration-Of-Exploration && \
  make native && \
  echo "finished compiling experiments"

# ########################################################
# # build supplemental material (will run analyses)
# ########################################################
RUN \
  cd /opt/GPTP-2021-Exploration-Of-Exploration && \
  ./build_book.sh && \
  echo "finished running data analyses and building the supplemental material"


WORKDIR /opt/GPTP-2021-Exploration-Of-Exploration