WIP: Build from an R base image

Dockerfile

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+FROM rocker/tidyverse:4.2.3 AS builder
+
+COPY . /opt/src/ANTsR
+
+WORKDIR /opt/src
+
+RUN git clone --depth 1 https://github.com/stnava/ITKR.git && \
+    git clone --depth 1 https://github.com/ANTsX/ANTsRCore.git
+
+# Get CMake
+RUN wget https://github.com/Kitware/CMake/releases/download/v3.25.3/cmake-3.25.3-linux-x86_64.sh && \
+    chmod u+x cmake-3.25.3-linux-x86_64.sh && \
+    ./cmake-3.25.3-linux-x86_64.sh --skip-license --prefix=/usr/local && \
+    rm ./cmake-3.25.3-linux-x86_64.sh
+
+# Minimal dependencies, will not enable all functionality
+# Some of these already exist in the rocker image, but install
+# anyway in case base image changes
+RUN R_REMOTES_NO_ERRORS_FROM_WARNINGS=true \
+      Rscript -e "install.packages( \
+                   c('Rcpp', \
+                     'RcppEigen', \
+                     'magrittr',  \
+                     'rsvd',      \
+                     'magic',     \
+                     'psych'), dependencies = TRUE )"
+
+RUN R CMD INSTALL ITKR && \
+    R CMD INSTALL ANTsRCore && \
+    R CMD INSTALL ANTsR
+
+# Some packages were removed from CRAN and need a github install
+RUN R_REMOTES_NO_ERRORS_FROM_WARNINGS=true \
+      Rscript -e "library(devtools)" \
+              -e "install_github('cran/ifultools')" \
+              -e "install_github('cran/DMwR')"
+
+RUN R_REMOTES_NO_ERRORS_FROM_WARNINGS=true \
+      Rscript -e "\
+      install.packages(c( \
+        'abind', \
+        'BGLR', \
+        'caret', \
+        'cluster', \
+        'corpcor', \
+        'dplyr', \
+        'e1071', \
+        'extremevalues', \
+        'fastICA', \
+        'FNN', \
+        'fpc', \
+        'ggplot2', \
+        'glasso', \
+        'glmnet', \
+        'grid', \
+        'hdf5r', \
+        'igraph', \
+        'irlba', \
+        'knitr', \
+        'mFilter', \
+        'misc3d', \
+        'moments', \
+        'networkD3', \
+        'pixmap', \
+        'png', \
+        'pracma', \
+        'R.matlab', \
+        'randomForest', \
+        'RcppHNSW', \
+        'rgl', \
+        'rmarkdown', \
+        'robust', \
+        'robustbase', \
+        'signal', \
+        'sna', \
+        'testthat', \
+        'viridis', \
+        'visreg', \
+        'wmtsa', \
+        'xgboost' \
+     ), repos = 'https://cloud.r-project.org')"
+
+# Additional dependencies
+# Derived from remotes::local_package_deps
+FROM rocker/tidyverse:4.2.3 AS runtime
+
+COPY --from=builder /usr/local/lib/R/site-library/ /usr/local/lib/R/site-library/
+
+ENV R_DEFAULT_PACKAGES="datasets,utils,grDevices,graphics,stats,methods,ANTsR"
+ENV ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS=1
+
+WORKDIR /
+
+CMD ["R"]