stochasticribosome
commited on
Commit
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6a7f9b3
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Parent(s):
b03ab9b
Build from public docker image
Browse files- Dockerfile +1 -37
Dockerfile
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FROM
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USER root
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# Set up time zone.
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ENV TZ=UTC
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RUN sudo ln -snf /usr/share/zoneinfo/$TZ /etc/localtime
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# Install torch geometric
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RUN pip install pyg_lib torch_scatter torch_sparse torch_cluster torch_spline_conv -f https://data.pyg.org/whl/torch-2.0.0+cu118.html
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RUN pip install torch_geometric
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RUN pip install h5py ipykernel==5.5.5 ipywidgets==7.6.3 jupyter nglview==2.7.7 pandas
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RUN pip install pytorch-lightning==1.8.3
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RUN pip install gradio
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RUN pip install requests
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RUN pip install py3Dmol
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RUN pip install biopython
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RUN pip install pandas
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#RUN pip install --no-cache-dir --upgrade -r requirements.txt
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RUN apt-get update; \
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DEBIAN_FRONTEND=noninteractive; \
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apt-get install -y --no-install-recommends --allow-downgrades\
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bzip2=1.0.8-5build1 cmake=3.22.1-1ubuntu1.22.04.1 csh=20110502-7 \
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make=4.3-4.1build1 gcc=4:11.2.0-1ubuntu1 gfortran=4:11.2.0-1ubuntu1 \
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g++=4:11.2.0-1ubuntu1 flex=2.6.4-8build2 bison=2:3.8.2+dfsg-1build1 \
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patch=2.7.6-7build2 bc=1.07.1-3build1 libbz2-dev=1.0.8-5build1 \
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wget=1.21.2-2ubuntu1 openmpi-bin=4.1.2-2ubuntu1 \
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libopenmpi-dev=4.1.2-2ubuntu1 openssh-client=1:8.9p1-3 \
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ca-certificates=20211016ubuntu0.22.04.1
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WORKDIR /usr/bin
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COPY AmberTools22.tar.bz2 .
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RUN tar xjvf AmberTools22.tar.bz2 && rm AmberTools22.tar.bz2
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WORKDIR amber22_src
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WORKDIR build
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RUN chmod +x run_cmake
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RUN ./run_cmake
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RUN make -j 4 install
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RUN echo "source /usr/bin/amber22/amber.sh" >> /etc/bash.bashrc
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SHELL ["/bin/bash", "-c"]
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ENV AMBERHOME="/usr/bin/amber22/"
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ENV PATH="$AMBERHOME/bin:$PATH"
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ENV PYTHONPATH="$AMBERHOME/lib/python3.10/site-packages"
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#RUN useradd -m -u 1000 user
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#USER user
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FROM sab148/misato-dataset:latest
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USER root
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# Set up time zone.
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ENV TZ=UTC
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RUN sudo ln -snf /usr/share/zoneinfo/$TZ /etc/localtime
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RUN pip install gradio
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RUN pip install requests
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RUN pip install py3Dmol
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RUN pip install biopython
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RUN pip install pandas
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#RUN useradd -m -u 1000 user
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#USER user
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