25 lines
734 B
Docker
25 lines
734 B
Docker
ARG BASEIMAGE=ontresearch/base-workflow-image:v0.2.0
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FROM $BASEIMAGE
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ARG ENVFILE=environment.yaml
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COPY $ENVFILE $HOME/environment.yaml
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RUN \
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. $CONDA_DIR/etc/profile.d/micromamba.sh \
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&& micromamba activate \
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&& micromamba install -n base --file $HOME/environment.yaml \
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&& micromamba clean --all --yes \
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&& fix-permissions $CONDA_DIR \
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&& fix-permissions $HOME \
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&& rm -rf $CONDA_DIR/conda-meta \
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&& rm -rf $CONDA_DIR/include \
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&& rm -rf $CONDA_DIR/lib/python3.*/site-packages/pip \
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&& find $CONDA_DIR -name '__pycache__' -type d -exec rm -rf '{}' '+'
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USER $WF_UID
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WORKDIR $HOME
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# Install JAFFA
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ADD subworkflows $HOME/subworkflows
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RUN /bin/sh -c $HOME/subworkflows/JAFFAL/install_jaffa.sh
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