Commit
·
6a7f9b3
1
Parent(s):
b03ab9b
Build from public docker image
Browse files- Dockerfile +1 -37
Dockerfile
CHANGED
|
@@ -1,50 +1,14 @@
|
|
| 1 |
-
FROM
|
| 2 |
USER root
|
| 3 |
# Set up time zone.
|
| 4 |
ENV TZ=UTC
|
| 5 |
RUN sudo ln -snf /usr/share/zoneinfo/$TZ /etc/localtime
|
| 6 |
|
| 7 |
-
|
| 8 |
-
|
| 9 |
-
# Install torch geometric
|
| 10 |
-
RUN pip install pyg_lib torch_scatter torch_sparse torch_cluster torch_spline_conv -f https://data.pyg.org/whl/torch-2.0.0+cu118.html
|
| 11 |
-
RUN pip install torch_geometric
|
| 12 |
-
RUN pip install h5py ipykernel==5.5.5 ipywidgets==7.6.3 jupyter nglview==2.7.7 pandas
|
| 13 |
-
RUN pip install pytorch-lightning==1.8.3
|
| 14 |
RUN pip install gradio
|
| 15 |
RUN pip install requests
|
| 16 |
RUN pip install py3Dmol
|
| 17 |
RUN pip install biopython
|
| 18 |
RUN pip install pandas
|
| 19 |
-
#RUN pip install --no-cache-dir --upgrade -r requirements.txt
|
| 20 |
-
|
| 21 |
-
RUN apt-get update; \
|
| 22 |
-
DEBIAN_FRONTEND=noninteractive; \
|
| 23 |
-
apt-get install -y --no-install-recommends --allow-downgrades\
|
| 24 |
-
bzip2=1.0.8-5build1 cmake=3.22.1-1ubuntu1.22.04.1 csh=20110502-7 \
|
| 25 |
-
make=4.3-4.1build1 gcc=4:11.2.0-1ubuntu1 gfortran=4:11.2.0-1ubuntu1 \
|
| 26 |
-
g++=4:11.2.0-1ubuntu1 flex=2.6.4-8build2 bison=2:3.8.2+dfsg-1build1 \
|
| 27 |
-
patch=2.7.6-7build2 bc=1.07.1-3build1 libbz2-dev=1.0.8-5build1 \
|
| 28 |
-
wget=1.21.2-2ubuntu1 openmpi-bin=4.1.2-2ubuntu1 \
|
| 29 |
-
libopenmpi-dev=4.1.2-2ubuntu1 openssh-client=1:8.9p1-3 \
|
| 30 |
-
ca-certificates=20211016ubuntu0.22.04.1
|
| 31 |
-
|
| 32 |
-
WORKDIR /usr/bin
|
| 33 |
-
COPY AmberTools22.tar.bz2 .
|
| 34 |
-
RUN tar xjvf AmberTools22.tar.bz2 && rm AmberTools22.tar.bz2
|
| 35 |
-
|
| 36 |
-
WORKDIR amber22_src
|
| 37 |
-
WORKDIR build
|
| 38 |
-
RUN chmod +x run_cmake
|
| 39 |
-
RUN ./run_cmake
|
| 40 |
-
RUN make -j 4 install
|
| 41 |
-
RUN echo "source /usr/bin/amber22/amber.sh" >> /etc/bash.bashrc
|
| 42 |
-
SHELL ["/bin/bash", "-c"]
|
| 43 |
-
|
| 44 |
-
ENV AMBERHOME="/usr/bin/amber22/"
|
| 45 |
-
ENV PATH="$AMBERHOME/bin:$PATH"
|
| 46 |
-
ENV PYTHONPATH="$AMBERHOME/lib/python3.10/site-packages"
|
| 47 |
-
|
| 48 |
|
| 49 |
#RUN useradd -m -u 1000 user
|
| 50 |
#USER user
|
|
|
|
| 1 |
+
FROM sab148/misato-dataset:latest
|
| 2 |
USER root
|
| 3 |
# Set up time zone.
|
| 4 |
ENV TZ=UTC
|
| 5 |
RUN sudo ln -snf /usr/share/zoneinfo/$TZ /etc/localtime
|
| 6 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 7 |
RUN pip install gradio
|
| 8 |
RUN pip install requests
|
| 9 |
RUN pip install py3Dmol
|
| 10 |
RUN pip install biopython
|
| 11 |
RUN pip install pandas
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 12 |
|
| 13 |
#RUN useradd -m -u 1000 user
|
| 14 |
#USER user
|