mirror of
https://gitea.psi.ch/APOG/acsmnode.git
synced 2025-06-24 21:21:08 +02:00
50 lines
1.8 KiB
Docker
50 lines
1.8 KiB
Docker
# Get additional info about the Dockerfile at https://docs.docker.com/reference/dockerfile/
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FROM continuumio/miniconda3:latest
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# Define the name of the environment
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ARG ENV_NAME=apog_penv
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ENV ENV_NAME=apog_penv
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# Set the working directory
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WORKDIR /acsmdc
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#RUN apt-get update && apt-get install -y cifs-utils
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# Use mamba if available for faster installation
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RUN conda install -y -n base -c conda-forge mamba && \
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mamba create -y -n $ENV_NAME -c conda-forge python=3.11 \
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jupyter numpy h5py pandas matplotlib plotly=5.24 scipy pip && \
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conda clean --all -y && rm -rf /root/.cache/pip
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# Activate the environment and install additional pip packages
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RUN conda run -n $ENV_NAME pip install pybis==1.35 igor2 ipykernel sphinx dash dash-bootstrap-components
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# Set the default environment when the container starts
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ENV CONDA_DEFAULT_ENV=$ENV_NAME
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ENV PATH=/opt/conda/envs/$ENV_NAME/bin:$PATH
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# Create necessary directories for VOLUME
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RUN mkdir -p /acsmdc/data /acsmdc/figures /acsmdc/pipelines/params
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#RUN mkdir -p /mnt/lac_ord
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# Copy project files, excluding certain directories (handled via .dockerignore)
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COPY . /acsmdc
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# Copy and install dependencies from requirements.txt
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COPY requirements.txt /acsmdc/requirements.txt
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RUN conda run -n $ENV_NAME pip install -r /acsmdc/requirements.txt
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# Define volumes for excluded directories
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VOLUME ["/acsmdc/data", "/acsmdc/figures", "/acsmdc/pipelines/params"]
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# Add JupyterLab
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RUN pip install --no-cache-dir jupyterlab
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#RUN pip install pipx
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#RUN pipx install renku
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# Add any other packages needed for JupyterLab
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#RUN pip install --no-cache-dir matplotlib scikit-learn
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# If you want to set JupyterLab as the default command
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#CMD ["jupyter", "lab", "--ip=0.0.0.0", "--port=8888", "--no-browser", "--allow-root", "--NotebookApp.token='my-token'"]
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CMD ["/bin/bash"] |