Update Dockerfile

docker/Dockerfile

-# Ubuntu image as base
-FROM ubuntu:18.04
+FROM ubuntu:22.04
 
-# Set environment variables
+# Set noninteractive mode to prevent prompts during installation
 ENV DEBIAN_FRONTEND=noninteractive
 
-# Install system dependencies
+# Install required system dependencies
 RUN apt-get update && apt-get install -y \
     wget \
+    sudo \
+    curl \
     git \
-    libssl-dev \
+    build-essential \
     libcurl4-openssl-dev \
+    libssl-dev \
     libxml2-dev \
     libxt-dev \
+    pandoc \
+    libclang-dev \
+    libpq-dev \
+    libgit2-dev \
     gdebi-core \
+    psmisc \
     && rm -rf /var/lib/apt/lists/*
 
+# Create an RStudio user with sudo access
+RUN useradd -m -s /bin/bash rstudio && echo "rstudio:rstudio" | chpasswd && \
+    usermod -aG sudo rstudio
+
 # Set working directory
 WORKDIR /root
 
@@ -31,6 +42,7 @@ RUN echo "channels:\n  - conda-forge\n  - bioconda\n  - defaults\n  - r" > /root
 
 # Create Conda environment and install dependencies
 RUN conda create --name neuroestimator -y \
+    r-essentials \
     tensorflow=1.15.0 \
     tensorflow-estimator=1.15.1 \
     r-keras=2.3.0.0 \
@@ -42,9 +54,22 @@ RUN conda create --name neuroestimator -y \
     r-remotes \
     'r-reticulate<=1.24'
 
-# Activate environment and install NEUROeSTIMator
-RUN /bin/bash -c "source activate neuroestimator && \
-    R -e 'remotes::install_git(\"https://research-git.uiowa.edu/michaelson-lab-public/neuroestimator\")'"
+# Install RStudio Server
+RUN wget https://download2.rstudio.org/server/jammy/amd64/rstudio-server-2024.12.1-563-amd64.deb -O rstudio-server.deb && \
+    dpkg -i rstudio-server.deb || apt-get -f install -y && \
+    rm rstudio-server.deb
+
+# Ensure RStudio uses Conda's R
+RUN echo 'export RSTUDIO_WHICH_R="/opt/miniconda/envs/neuroestimator/bin/R"' >> /etc/profile.d/rstudio.sh
+
+# Install NEUROeSTIMator in the Conda environment
+RUN conda run -n neuroestimator R -e "remotes::install_git('https://research-git.uiowa.edu/michaelson-lab-public/neuroestimator')"
+
+# Ensure Conda environment is activated on container start
+SHELL ["/bin/bash", "-c"]
+
+# Expose RStudio Server port
+EXPOSE 8787
 
-# Set entrypoint to bash
-ENTRYPOINT ["/bin/bash"]
+# Set the entrypoint to start RStudio Server
+ENTRYPOINT ["/bin/bash", "-c", "source activate neuroestimator && /usr/lib/rstudio-server/bin/rserver --server-daemonize=0"]