docker

Dockerfile

@@ -14,14 +14,14 @@ COPY LICENSE .
 # Make conda environment and activate
 # RUN conda install mamba -n base -c conda-forge
 RUN micromamba env create -f envs/pynteny-dev.yml
-SHELL ["conda", "run", "-n", "pynteny-dev", "/bin/bash", "-c"]
+SHELL ["micromamba", "run", "-n", "pynteny-dev", "/bin/bash", "-c"]
 # Build and install Pynteny
 RUN poetry build && pip install dist/pynteny*.whl && pynteny --help
 # Give read/write permissions to install directory (needed to make config.json)
 RUN chmod ugo+rw /opt/conda/envs/pynteny-dev/lib/python3.10/site-packages
 
 # Initialize conda for default user
-RUN conda init
+RUN micromamba sheel init
 # # Activate pynteny environment by default
 RUN echo "conda activate pynteny-dev" >> ../root/.bashrc
 RUN source ../root/.bashrc