Update Dockerfile

Dockerfile

@@ -1,61 +1,34 @@
-# Use the R base image
-FROM rocker/r-base:latest
+# Use the Miniconda3 base image
+FROM continuumio/miniconda3
 
-# Switch to /code as our working directory
+# Set the working directory to /code
 WORKDIR /code
 
-# ------------------------------------------------------------------------------
-# 1) Install system dependencies + Miniconda
-# ------------------------------------------------------------------------------
+# Install system dependencies
 RUN apt-get update -y && \
     apt-get install -y --no-install-recommends \
         wget \
         bzip2 \
     && rm -rf /var/lib/apt/lists/*
 
-# Install Miniconda to /opt/conda
-RUN wget --quiet https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh -O /tmp/miniconda.sh \
-    && /bin/bash /tmp/miniconda.sh -b -p /opt/conda \
-    && rm /tmp/miniconda.sh \
-    && /opt/conda/bin/conda clean -afy
-
-# Make sure conda is on PATH
-ENV PATH=/opt/conda/bin:$PATH
-
-# ------------------------------------------------------------------------------
-# 2) Install required R packages
-#    (We add reticulate + a few extras such as DT and shinydashboard
-#     since your app uses them.)
-# ------------------------------------------------------------------------------
-RUN install2.r --error \
-    shiny \
-    dplyr \
-    ggplot2 \
-    readr \
-    ggExtra \
-    DT \
-    shinydashboard \
-    reticulate \
-    remotes
-
-# ------------------------------------------------------------------------------
-# 3) Copy your local code (including app.R and CODEBASE) into the container
-# ------------------------------------------------------------------------------
-COPY . .
+# Install R using conda
+RUN conda install -y r-base && \
+    conda clean -afy
+
+# Install required R packages from CRAN
+RUN Rscript -e "install.packages(c('shiny', 'dplyr', 'parallel', 'ggplot2', 'readr', 'ggExtra', 'DT', 'shinydashboard', 'reticulate', 'remotes'), repos='https://cloud.r-project.org/')"
 
-# If your `fastrerandomize` package is on GitHub and not installed yet,
-# uncomment and adjust the GitHub URL as appropriate:
+# Install the fastrerandomize package from GitHub
 RUN Rscript -e "remotes::install_github('cjerzak/fastrerandomize-software/fastrerandomize')"
 
-# ------------------------------------------------------------------------------
-# 4) (Optional) Pre-build the conda environment inside the Docker image
-#    by calling your 'build_backend()' function. 
-#    This ensures that JAX/numpy are already installed.
-# ------------------------------------------------------------------------------
+# Copy local code into the container
+COPY . .
+
+# Pre-build the conda environment for Python dependencies
 RUN Rscript -e "library(fastrerandomize); fastrerandomize::build_backend(conda='auto')"
 
-# ------------------------------------------------------------------------------
-# 5) Expose the Shiny port and set default command to run the Shiny app
-# ------------------------------------------------------------------------------
+# Expose the Shiny app port
 EXPOSE 7860
-CMD ["R", "--quiet", "-e", "shiny::runApp('/code', host='0.0.0.0', port=7860)"]
+
+# Set the command to run the Shiny app
+CMD ["R", "--quiet", "-e", "shiny::runApp('/code', host='0.0.0.0', port=7860)"]