File size: 2,469 Bytes
9b9c66d | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 | FROM docker.io/ubuntu:22.04
ENV TZ=Asia/Shanghai
ENV R_REMOTE_ERR=1
ENV DEBIAN_FRONTEND=noninteractive
RUN apt-get update -y && \
apt-get install -y --no-install-recommends \
build-essential \
software-properties-common \
dirmngr \
wget \
unzip \
make \
lsb-release && \
rm -rf /var/lib/apt/lists/*
RUN apt-get update -y \
&& apt-get -y install iputils-ping \
&& apt-get -y install wget \
&& apt-get -y install net-tools \
&& apt-get -y install vim \
&& apt-get -y install openssh-server \
&& apt-get -y install python3.9 \
&& apt-get -y install python3-pip \
&& apt-get -y install git \
&& cd /usr/local/bin \
&& rm -f python \
&& rm -f python3 \
&& rm -f pip \
&& rm -f pip3 \
&& ln -s /usr/bin/python3.9 python \
&& ln -s /usr/bin/python3.9 python3 \
&& ln -s /usr/bin/pip3 pip \
&& ln -s /usr/bin/pip3 pip3 \
&& apt-get clean
RUN apt install -y libpcre2-dev libdeflate-dev liblzma-dev libbz2-dev libblas-dev gfortran libicu-dev liblapack-dev libxml2-dev
RUN apt install --no-install-recommends software-properties-common dirmngr
RUN wget -qO- https://cloud.r-project.org/bin/linux/ubuntu/marutter_pubkey.asc | tee -a /etc/apt/trusted.gpg.d/cran_ubuntu_key.asc
RUN add-apt-repository "deb https://cloud.r-project.org/bin/linux/ubuntu $(lsb_release -cs)-cran40/"
RUN apt install --no-install-recommends r-base -y
RUN R -e "install.packages('remotes', repos = 'https://cloud.r-project.org/'); \
remotes::install_version('ape', version = '5.8.1', dependencies = TRUE, repos = 'https://cloud.r-project.org/'); \
remotes::install_version('igraph', version = '2.1.4', dependencies = TRUE, repos = 'https://cloud.r-project.org/'); \
remotes::install_version('openxlsx', version = '4.2.8', dependencies = TRUE, repos = 'https://cloud.r-project.org/')" && \
rm -rf /tmp/Rtmp*
RUN useradd -m -u 1000 user
USER user
ENV PATH="/home/user/.local/bin:$PATH"
WORKDIR /app
RUN git clone https://github.com/pylelab/USalign.git
WORKDIR /app/USalign
RUN make
WORKDIR /app
RUN chmod -R 777 /app
COPY --chmod=777 ./requirements.txt requirements.txt
RUN pip install --no-cache-dir --upgrade -r requirements.txt
RUN pip install rpy2==3.2.0
RUN pip install pandas==1.5.3
RUN pip install numpy==1.25.0
RUN pip install gradio==5.44.1
COPY --chmod=777 . /app
ENV MPLCONFIGDIR="/home/user/.config/matplotlib"
CMD ["python3", "app.py"] |