Dockerfile

FROM pp535/metamutationalresults_1:latest

ENV DEBIAN_FRONTEND=noninteractive

ENV DOWNLOAD_STATIC_LIBV8 1

ADD ./ /app 
WORKDIR /app

# RUN apt-get update && apt-get install -y --no-install-recommends build-essential python3.6 python3-pip python3-setuptools python3-dev && \
#     apt update && apt-get -y install software-properties-common libcurl4-openssl-dev libssl-dev libxml2-dev libnode-dev libmysqlclient-dev libpq-dev libopenmpi-dev vim-tiny wget && \
#     apt-key adv --keyserver keyserver.ubuntu.com --recv-keys E298A3A825C0D65DFD57CBB651716619E084DAB9 && \
#     apt update && \
#     add-apt-repository 'deb https://cloud.r-project.org/bin/linux/ubuntu focal-cran40/' &&\
#     gpg --keyserver hkp://keyserver.ubuntu.com:80 --recv-keys E298A3A825C0D65DFD57CBB651716619E084DAB9 && \
#     apt install -y r-base r-base-core r-recommended r-base-dev && \
#     add-apt-repository -y ppa:c2d4u.team/c2d4u4.0+ && apt-get install -f -y r-cran-ggplot2 r-cran-devtools r-cran-roxygen2
    
RUN Rscript -e "install.packages('tidyverse');install.packages('plotly');install.packages('htmlwidgets')"

# RUN Rscript -e "install.packages('BiocManager');BiocManager::install(dependencies = TRUE , c('MutationalPatterns', 'deconstructSigs' , 'ShixiangWang/sigminer@v2.0.0' ,  'dplyr', 'tidyr', 'ggpubr'))"

# RUN pip3 install -r requirements.txt  && \ 
#     python3.8 install_sigprofilerMatrixGenerator.py


# update.packages(ask = FALSE, checkBuilt = TRUE)
# install.packages("V8")
# install.packages("devtools", dependencies= TRUE)

# RUN Rscript -e "update.packages(ask = FALSE, checkBuilt = TRUE);install.packages("V8");devtools::install_github("kgori/sigfit",build_opts = c("--no-resave-data", "--no-manual"));install.packages('BiocManager');BiocManager::install(dependencies = TRUE , c('MutationalPatterns', 'deconstructSigs' , 'ShixiangWang/sigminer@v2.0.0' ,  'dplyr', 'tidyr', 'ggpubr'))"

EXPOSE 5001
ENTRYPOINT ["python3.8" , "metaMutatationalSignatures.py"]