activate base before running pip

AnushaPB · Sep 19, 2024 · cf6bb0b · cf6bb0b
1 parent fb6a872
commit cf6bb0b
Showing 1 changed file with 4 additions and 2 deletions.
diff --git a/Dockerfile b/Dockerfile
@@ -30,8 +30,10 @@ USER ${NB_UID}
 RUN micromamba install -y -n base -c conda-forge msprime geopandas rasterio bitarray pip && \
     micromamba clean --all --yes
 
-# Install additional Python packages using pip
-RUN pip install --upgrade NLMpy geonomics
+# Activate the base environment and install additional Python packages using pip
+RUN /opt/conda/bin/conda init bash && \
+    echo "source activate base" > ~/.bashrc && \
+    /bin/bash -c "source ~/.bashrc && pip install --upgrade NLMpy geonomics"
 
 # Expose port 8888 for Jupyter Notebook
 EXPOSE 8888