Update Dockerfile

Author: gabora

Dockerfile

@@ -1,14 +1,11 @@
-# Use a standard Python image as the base
-FROM python:3.12.2-slim
+FROM continuumio/miniconda3
 
-# Install git
-RUN apt-get update && \
-    apt-get install -y git && \
-    rm -rf /var/lib/apt/lists/*
+COPY environment.yml .
+RUN apt-get update -qq && apt-get install -y \
+    build-essential 
 
-# Now, git is available, so we can install packages directly from Git repositories
-RUN pip install omnipath==1.0.7 pandas==2.0.3
-RUN pip install --upgrade git+https://github.com/saezlab/decoupler-py
+RUN conda env create -f environment.yml
+ENV PATH="/opt/conda/envs/backsub/bin:$PATH"
 
-# Assuming decoupler and other packages are now installed, continue with your setup...
+RUN pip install --upgrade git+https://github.com/saezlab/decoupler-py