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Adjusting sourmash build for Apptainer #146

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Dec 11, 2024
Merged

Adjusting sourmash build for Apptainer #146

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16 changes: 9 additions & 7 deletions sourmash/Dockerfile_4.8.2
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Original file line number Diff line number Diff line change
Expand Up @@ -16,14 +16,16 @@ ENV CONDA_ALWAYS_YES=true

# Create the conda environment and install sourmash with specific version
SHELL ["/bin/bash", "-c"]
RUN /opt/conda/bin/conda create -n sourmash_env -c conda-forge sourmash-minimal=4.8.2 && \
echo "source /opt/conda/bin/activate sourmash_env" >> ~/.bashrc

# Set default command to activate conda environment
SHELL ["/bin/bash", "-c"]
# Install Python 3.10 and sourmash with specific versions
RUN /opt/conda/bin/conda install -c conda-forge python=3.10 sourmash-minimal=4.8.2 && \
/opt/conda/bin/conda clean -afy

# Add conda binary directory to PATH
ENV PATH=/opt/conda/bin:$PATH

# Verify installation and version
RUN /opt/conda/bin/conda run -n sourmash_env sourmash --version
RUN sourmash --version

# Set the default command to run bash with the conda environment activated
ENTRYPOINT ["/bin/bash", "-c", "source /opt/conda/bin/activate sourmash_env && exec /bin/bash"]
# Set the default command
ENTRYPOINT ["/bin/bash"]
16 changes: 9 additions & 7 deletions sourmash/Dockerfile_latest
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Original file line number Diff line number Diff line change
Expand Up @@ -16,14 +16,16 @@ ENV CONDA_ALWAYS_YES=true

# Create the conda environment and install sourmash with specific version
SHELL ["/bin/bash", "-c"]
RUN /opt/conda/bin/conda create -n sourmash_env -c conda-forge sourmash-minimal=4.8.2 && \
echo "source /opt/conda/bin/activate sourmash_env" >> ~/.bashrc

# Set default command to activate conda environment
SHELL ["/bin/bash", "-c"]
# Install Python 3.10 and sourmash with specific versions
RUN /opt/conda/bin/conda install -c conda-forge python=3.10 sourmash-minimal=4.8.2 && \
/opt/conda/bin/conda clean -afy

# Add conda binary directory to PATH
ENV PATH=/opt/conda/bin:$PATH

# Verify installation and version
RUN /opt/conda/bin/conda run -n sourmash_env sourmash --version
RUN sourmash --version

# Set the default command to run bash with the conda environment activated
ENTRYPOINT ["/bin/bash", "-c", "source /opt/conda/bin/activate sourmash_env && exec /bin/bash"]
# Set the default command
ENTRYPOINT ["/bin/bash"]
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