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Dockerfile.almalinux9
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# FROM ubuntu:jammy AS build-pandoc
# RUN apt-get update && apt-get upgrade -y
# RUN apt-get install -y build-essential wget git curl
# # Stack/GHC dependencies # llvm-13
# RUN apt-get install -y libnuma-dev libgmp3-dev
# COPY install_ghcup.sh install_pandoc.sh install_pandoc-citeproc.sh /
# # Make sure the non-suffixed LLVM13 bins are on PATH
# # RUN export PATH="/usr/lib/llvm-13/bin/:${PATH:-}" && bash /install_ghcup.sh
# # RUN export PATH="/usr/lib/llvm-13/bin/:${PATH:-}" && bash /install_pandoc.sh
# # RUN export PATH="/usr/lib/llvm-13/bin/:${PATH:-}" && bash /install_pandoc-citeproc.sh
# RUN bash /install_ghcup.sh
# # RUN bash /install_pandoc.sh
# RUN bash /install_pandoc-citeproc.sh
# see https://www.stats.ox.ac.uk/pub/bdr/Rconfig/r-devel-linux-x86_64-fedora-gcc
FROM almalinux:9.4 AS base
RUN echo "max_parallel_downloads=10" >>/etc/dnf/dnf.conf
RUN dnf makecache --refresh && dnf update -y
# XXX `which` is not included in the base, make sure it's there!
# https://stackoverflow.com/questions/56449941/error-unable-to-load-r-code-in-package-graphics-when-compiling-r-3-6-0-on-lin
RUN dnf install -y yum-utils epel-release wget git patch time which file
RUN dnf config-manager --set-enabled crb
RUN dnf install -y --nogpgcheck https://mirrors.rpmfusion.org/free/el/rpmfusion-free-release-$(rpm -E %rhel).noarch.rpm
# FROM base AS build-texlive
# RUN dnf install -y rclone
# COPY install_texlive.sh /
# RUN bash /install_texlive.sh "latest"
FROM base AS build-required
# Compilers
RUN dnf install -y gcc gcc-c++ clang gcc-gfortran
# R check script requirements (psmisc for fuser, Xvfb for X11)
RUN dnf install -y Xvfb psmisc rsync bindfs
# R build requirements
RUN dnf install -y jq make automake cmake3 ninja-build file which python3 \
readline-devel libX11-devel libXt-devel zlib-devel bzip2-devel xz-devel \
pcre2-devel libcurl-devel libicu-devel tcl-devel tk-devel tre-devel
# Make sure we have X11 fonts as well
RUN dnf install -y xorg-x11-fonts-*
# R package check requirements (ffmpeg-devel is from rpmfusion)
RUN dnf install -y \
openssl-devel libpng-devel libjpeg-devel libxml2-devel geos-devel libtiff-devel \
fontconfig-devel fftw-devel librsvg2-devel java-11-openjdk-devel protobuf-devel \
libsodium-devel harfbuzz-devel fribidi-devel libxslt-devel libwebp-devel ffmpeg-devel \
ImageMagick-c++-devel mysql-devel libzstd-devel jq-devel gmp-devel glpk-devel gsl-devel \
netcdf-devel boost-devel gpgme-devel libarchive-devel unixODBC-devel postgresql-devel \
zeromq-devel redland-devel rrdtool-devel opencv-devel cyrus-sasl-devel lz4-devel \
libunwind-devel poppler-cpp-devel poppler-glib-devel hiredis-devel udunits2-devel \
mpfr-devel ocl-icd-devel libssh-devel tesseract-devel libgit2-devel mono-core \
openbabel-devel eigen3-devel grpc-devel fluidsynth-devel glibc-gconv-extra pocl \
latexmk texlive-l3packages texlive-collection-fontsrecommended texlive-epstopdf-pkg
# tbb-devel ?
# R ymd needs Rust
RUN dnf install -y cargo
# Hand-built libraries uses the /usr/local/ prefix so we set a few env vars for them to be visible.
# SYMPHONY, Clp, JAGS installs *.pc to /usr/local/lib/pkgconfig
# libSBML, Lapack, blas, GDAL, QuantLib (after CMake patch) installs *.pc to /usr/local/lib64/pkgconfig
RUN echo 'export PKG_CONFIG_PATH="/usr/local/lib64/pkgconfig/:/usr/local/lib/pkgconfig/:${PKG_CONFIG_PATH:-}"' | tee -a "/etc/profile" "/etc/bashrc"
# Most libraries also install to /usr/local/lib64 and /usr/local/lib
RUN echo 'export LD_LIBRARY_PATH="/usr/local/lib64/:/usr/local/lib/:${LD_LIBRARY_PATH:-}"' | tee -a "/etc/profile" "/etc/bashrc"
# We set the bin path as well
RUN echo 'export PATH="/usr/local/bin/:${PATH:-}"' | tee -a "/etc/profile" "/etc/bashrc"
# XXX The following software must be installed in the order listed for dependency reasons.
COPY install_lapack.sh /
RUN bash /install_lapack.sh
COPY install_jags.sh /
RUN bash /install_jags.sh
COPY install_symphony_clp.sh /
RUN bash /install_symphony_clp.sh
COPY install_sbml.sh /
RUN bash /install_sbml.sh
COPY install_quantlib.sh /
RUN bash /install_quantlib.sh
COPY install_openbugs.sh /
RUN bash /install_openbugs.sh
COPY install_proj.sh /
RUN bash /install_proj.sh
COPY install_gdal.sh /
RUN bash /install_gdal.sh
COPY install_mecab.sh /
RUN bash /install_mecab.sh
# COPY install_openmpi.sh /
# RUN bash /install_openmpi.sh
RUN dnf install -y openmpi-devel
COPY install_tiledb.sh /
RUN bash /install_tiledb.sh
COPY install_inconsolata.sh /
RUN bash /install_inconsolata.sh
# Non-Free: Oracle Free Use Terms and Conditions
COPY install_oracle_oci.sh /
RUN bash /install_oracle_oci.sh
# GMP and MPFR doesn't have *.pc on el8, we make one from scratch, see https://bugzilla.redhat.com/show_bug.cgi?id=1982816
# COPY patch_gmp.sh /
# RUN bash /patch_gmp.sh
# COPY patch_mpfr.sh /
# RUN bash /patch_mpfr.sh
FROM base AS build-pandoc
COPY install_pandoc.sh /
RUN bash /install_pandoc.sh
FROM build-required AS build-final
# Our textlive install is under the "latest" prefix
# COPY --from=build-texlive /usr/local/texlive/ /usr/local/texlive
# RUN echo "export PATH=\"/usr/local/texlive/latest/bin/$(uname -m)-linux:\${PATH:-}\"" | tee -a "/etc/profile" "/etc/bashrc"
# COPY --from=build-pandoc \
# /usr/local/bin/pandoc \
# /usr/local/bin/pandoc-server \
# /usr/local/bin/
# CMD tail -f /dev/null