pipeline_image_gdal39.def

BootStrap: docker
From: ghcr.io/osgeo/gdal:ubuntu-full-3.9.0

%post
   mkdir /pipeline
   mkdir /pipeline/input
   mkdir /opt/_targets

   apt-get -y update
   apt-get -y install gfortran libudunits2-dev libnode-dev libarchive-dev build-essential apt-file
   apt update -qq
   # install two helper packages we need
   apt-get -y install --no-install-recommends software-properties-common dirmngr
   # add the signing key (by Michael Rutter) for these repos
   # To verify key, run gpg --show-keys /etc/apt/trusted.gpg.d/cran_ubuntu_key.asc 
   # Fingerprint: E298A3A825C0D65DFD57CBB651716619E084DAB9
   wget -qO- https://cloud.r-project.org/bin/linux/ubuntu/marutter_pubkey.asc | tee -a /etc/apt/trusted.gpg.d/cran_ubuntu_key.asc
   # add the R 4.0 repo from CRAN -- adjust 'focal' to 'groovy' or 'bionic' as needed
   add-apt-repository -y "deb https://cloud.r-project.org/bin/linux/ubuntu $(lsb_release -cs)-cran40/"
   apt-get -y install r-base

   R -e "install.packages('rspm')"
   echo "rspm::enable()" > ~/.Rprofile

   Rscript -e "install.packages(c('pacman', 'future', 'future.apply', 'terra'))"
   Rscript -e "install.packages(c('exactextractr', 'targets', 'tarchetypes', 'crew', 'crew.cluster', 'nanonext'))"
   Rscript -e "install.packages(c('tidytable', 'furrr', 'purrr', 'tidyr', 'dtplyr', 'data.table', 'collapse', 'stringr', 'stringi'))"
   Rscript -e "install.packages(c('nngeo', 'remotes', 'pak', 'stars', 'furrr', 'broom', 'ggridges', 'rsample', 'skimr', 'fastDummies', 'scales', 'parsnip', 'skimr'))"
   Rscript -e "install.packages(c('tidyverse', 'spatialsample', 'tidymodels', 'tune'))"
   Rscript -e "pak::pak('qs')"
   Rscript -e "pak::pak('njtierney/geotargets')"
   Rscript -e "install.packages(c('map'), repos = 'https://cloud.r-project.org')"
   Rscript -e "pak::pak('NIEHS/PrestoGP')"
   Rscript -e "pak::pak('NIEHS/beethoven')"
   Rscript -e "pak::pak('NIEHS/amadeus')"
   Rscript -e "pak::pak('NIEHS/chopin')"

%environment
   export LC_ALL=C
   export DDN_SET=/ddn/gs1/group/SET/
   export DDN_IS=/ddn/gs1/home/songi2/

%files

%runscript

%labels
  Insang Song