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fuxialexander
commited on
Commit
•
09247c2
1
Parent(s):
3ca22c6
update dockerfile
Browse files- Dockerfile +7 -3
Dockerfile
CHANGED
@@ -6,12 +6,15 @@ WORKDIR /app
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# Create a new environment using mamba with specified packages
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RUN micromamba install -n base -c conda-forge -c bioconda -y python=3.10 pip biopython
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ARG MAMBA_DOCKERFILE_ACTIVATE=1
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# Activate the environment and install additional packages via pip
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RUN pip3 install gradio
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USER root
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RUN mkdir /data
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RUN apt-get update && apt-get install -y --no-install-recommends \
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@@ -32,6 +35,7 @@ COPY --chown=$MAMBA_USER:$MAMBA_USER app /app/app
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# COPY --chown=$MAMBA_USER:$MAMBA_USER data /app/data
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# Clone a specific git repository and install it as an editable package
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RUN cd modules/proscope && \
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pip3 install .
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# Create a new environment using mamba with specified packages
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RUN micromamba install -n base -c conda-forge -c bioconda -y python=3.10 pip biopython pygraphviz
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RUN micromamba install -n base -c conda-forge -c bioconda -y nglview tqdm matplotlib pandas
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RUN micromamba install -n base -c conda-forge -c bioconda -y openpyxl pyarrow python-box xmlschema seaborn numpy py3Dmol pyranges scipy pyyaml zarr numcodecs
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RUN micromamba install -n base -c conda-forge -c bioconda -y pybigwig networkx plotly pysam requests seqlogo MOODS urllib3 pyliftover gprofiler-official pyfaidx
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RUN micromamba install -n base -c conda-forge dash-bio
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ARG MAMBA_DOCKERFILE_ACTIVATE=1
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# Activate the environment and install additional packages via pip
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RUN pip3 install gradio
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USER root
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RUN mkdir /data
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RUN apt-get update && apt-get install -y --no-install-recommends \
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# COPY --chown=$MAMBA_USER:$MAMBA_USER data /app/data
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# Clone a specific git repository and install it as an editable package
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RUN cd modules/proscope && \
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pip3 install .
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