From f734acdee20d592c6dc03496035753e6f560691c Mon Sep 17 00:00:00 2001
From: Attila Gabor <gabor.attila87@gmail.com>
Date: Mon, 18 Mar 2024 14:59:29 +0100
Subject: [PATCH] Update Dockerfile

---
 Dockerfile | 17 +++++++----------
 1 file changed, 7 insertions(+), 10 deletions(-)

diff --git a/Dockerfile b/Dockerfile
index 77c38a1..bd8e487 100644
--- a/Dockerfile
+++ b/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