Merge pull request #85 from Integrative-Transcriptomics/dev

Dev

Author: mwittep

webapp/dockerfile

@@ -17,25 +17,41 @@ RUN yarn set version berry
 RUN yarn install
 RUN yarn build
 
-FROM --platform=linux/x86_64 alpine:latest
-
-# Set the working directory in the container to /app
-
+FROM ubuntu:22.04
+# Set non-interactive mode for apt-get
+ENV DEBIAN_FRONTEND=noninteractive
 
 # Set the working directory in the container to /app
 WORKDIR /app
 
+
+# Update package lists and install required packages
+RUN apt-get update && apt-get install -y \
+    gcompat \
+    libstdc++6 \
+    gcc \
+    g++ \
+    wget \
+    python3.11 \
+    python3.11-dev \
+    python3.11-venv \
+    python3-pip \
+    openjdk-17-jre-headless \
+    libbz2-dev \
+    libcurl4 \
+    libkrb5-dev \
+    zlib1g-dev \
+    curl \
+    && rm -rf /var/lib/apt/lists/*
 # copy the server directory and dist from previous buildstage into the container at /app
 COPY --from=build /build/dist /app/dist
 COPY server_tsspredator /app/server_tsspredator
 COPY requirements.txt /app
 COPY setup.py /app
-RUN apk add gcompat libbz2 libcurl libstdc++ krb5-dev zlib gcc zlib g++  curl-dev
+
 RUN wget https://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/bedGraphToBigWig -P /app
 RUN chmod +x /app/bedGraphToBigWig
 
-# Install python3.11
-RUN apk add --update --no-cache python3-dev py3-pip
 RUN python3 -m venv /app/env_tss_predator_web
 ENV PATH="/app/env_tss_predator_web/bin:$PATH"
 RUN python3 -m pip install --upgrade pip
@@ -49,7 +65,6 @@ RUN rm -rf /app/setup.py
 
 # Install java 17
 COPY server_tsspredator/TSSpredator.jar /app
-RUN apk add --update --no-cache openjdk17-jre-headless
 
 # Make port 5001 available to the world outside this container
 EXPOSE 5001