pbieber/bwa-pilon-samtools-python repository overview

# Use the Miniconda base image
FROM continuumio/miniconda3:24.5.0-0

# Set environment variables
ENV PATH /opt/conda/bin:$PATH

# Install dependencies from bioconda
RUN conda config --add channels defaults && \
    conda config --add channels bioconda && \
    conda config --add channels conda-forge && \
    conda install -y bwa samtools pilon && \
    conda clean --all -y

# Define default command
CMD ["bash"]

RUN apt-get update && \
	apt-get upgrade -y && \
	apt-get install -y git && \
	apt-get clean