add cmake

Author: rela-v

Dockerfile

@@ -1,39 +1,39 @@
 # 1. Use R 4.5.1
 FROM rocker/r-ver:4.5.1
 
-# 2. Install system dependencies
+# 2. Install system dependencies (restoring cmake and adding nlopt)
 RUN apt-get update && apt-get install -y --no-install-recommends \
     libxml2-dev libssl-dev libcurl4-openssl-dev libpng-dev \
     libjpeg-dev libtiff-dev libfreetype6-dev libharfbuzz-dev \
     libfribidi-dev libicu-dev libglpk-dev zlib1g-dev \
     gfortran pandoc pkg-config \
+    cmake libnlopt-dev \
     && rm -rf /var/lib/apt/lists/*
 
 # 3. Setup Environment
 ENV R_LIBS_USER=/opt/renv/library
 ENV RENV_PATHS_LIBRARY=/opt/renv/library
-# This prevents your local .Rprofile from causing loops during build
 ENV R_PROFILE_USER=/dev/null 
+# Force renv to use the Linux binaries for speed
+ENV RENV_CONFIG_REPOS_OVERRIDE="https://packagemanager.posit.co/cran/__linux__/noble/latest"
+
 WORKDIR /project
 
 # 4. Restore Packages (Cached Layer)
 COPY renv.lock .Rprofile ./
 COPY renv/activate.R renv/activate.R
 
-# Bootstrap: Install renv from binaries for speed
+# Bootstrap: Install renv from binaries
 RUN R -e "options(repos = c(CRAN = 'https://packagemanager.posit.co/cran/__linux__/noble/latest')); install.packages('renv')"
 
 RUN mkdir -p /opt/renv/library
-# Now renv::restore will work
+# Now renv::restore will work with the binary override
 RUN R -e "renv::restore(library='/opt/renv/library')"
 
 # 5. Copy ALL Application Files
-# This ensures 3PodR.R, chapters/, R/, style.css, etc. are included
 COPY . .
 
 # 6. Execution Logic
-# We force the symlink and run render_book. 
-# Using index.Rmd ensures bookdown merges your chapters correctly.
 ENTRYPOINT ["sh", "-c", "ln -sf /project/$1 /project/configuration.yml && R --vanilla -e 'bookdown::render_book(\"index.Rmd\")'", "--"]
 
 CMD ["configuration.yml"]