Dockerfile

# Copyright (c) UBC-DSCI Development Team.
FROM rocker/verse:4.1.1

# install system dependencies
RUN apt-get update --fix-missing \
	&& apt-get install -y \
		ca-certificates \
    	libglib2.0-0 \
	 	libxext6 \
	   	libsm6  \
	   	libxrender1 \
		libxml2-dev

# install libGLPK, gdal-config, libunits
RUN apt-get install -y libglpk-dev gdal-bin libgdal-dev libudunits2-0 libudunits2-dev

# install R packages
RUN apt-get update -qq && install2.r --error \
    --deps TRUE \
    tidyverse \
    e1071 \
    caret \
    plotly \
    gridExtra \
    GGally \
    cowplot \
    svglite \
    tidymodels \
    reticulate \ 
    kknn \
    fontawesome \
    rsvg \
    reticulate \
    kableExtra \
    egg \
    ggpubr

RUN Rscript -e "reticulate::install_miniconda()"
RUN Rscript -e "reticulate::conda_install('r-reticulate', 'python-kaleido')"
RUN Rscript -e "reticulate::conda_install('r-reticulate', 'plotly', channel = 'plotly')"

RUN Rscript -e "devtools::install_github('mountainMath/cancensus@5a5d61759d477986d40dd87fa9a6532ff6037efe')"
RUN Rscript -e "devtools::install_github('ttimbers/canlang@0.0.1')"

# install LaTeX packages
RUN tlmgr install amsmath \
    latex-amsmath-dev \
    fontspec \
    tipa \
    unicode-math \
    xunicode \
    kvoptions \
    ltxcmds \
    kvsetkeys \
    etoolbox \
    xcolor \
    auxhook \
    bigintcalc \
    bitset \
    etexcmds \
    gettitlestring \
    hycolor \
    hyperref \
    intcalc \
    kvdefinekeys \
    letltxmacro \
    pdfescape \
    refcount \
    rerunfilecheck \
    stringenc \
    uniquecounter \
    zapfding \
    pdftexcmds \
    infwarerr \
    fancyvrb \
    framed \
    booktabs \
    mdwtools \
    grffile \
    caption \
    sourcecodepro \
    amscls \
    natbib \
    float \
    multirow \
    wrapfig \
    colortbl \
    pdflscape \
    varwidth \
    threeparttable \
    threeparttablex \
    environ \
    trimspaces \
    ulem \
    makecell \
    tabu

# increase the ImageMagick resource limits
# this relies on the fact that there is only one place where each of these sizes are used in policy.xml
# (256MiB is for memory, 512MiB is for map, 1GiB is for disk)
RUN sed -i 's/256MiB/4GiB/' /etc/ImageMagick-6/policy.xml
RUN sed -i 's/512MiB/4GiB/' /etc/ImageMagick-6/policy.xml
RUN sed -i 's/1GiB/4GiB/' /etc/ImageMagick-6/policy.xml

# install version of tinytex with fixed index double-compile (no release for this yet, so install from commit hash)
RUN Rscript -e "remove.packages('xfun')"
RUN Rscript -e "devtools::install_github('yihui/xfun@v0.29')"
RUN Rscript -e "remove.packages('tinytex')"
RUN Rscript -e "devtools::install_github('yihui/tinytex@5d211d43944d322fca49e5f0d97f34b9c46ff9ab')"