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FROM rocker/verse:3.6.3-ubuntu18.04
MAINTAINER "Robert Ladwig" [email protected]
RUN apt-get update -qq && apt-get -y --no-install-recommends install \
gfortran-8 \
gfortran \
libgd-dev \
git \
build-essential \
libnetcdf-dev \
hdf4-tools \
libtirpc-dev \
ca-certificates \
&& update-ca-certificates
RUN Rscript -e 'install.packages("ncdf4")' \
&& Rscript -e 'install.packages("devtools")' \
&& Rscript -e 'devtools::install_github("aemon-j/GLM3r",ref="v3.1.1")' \
&& Rscript -e 'devtools::install_github("USGS-R/glmtools", ref = "ggplot_overhaul")' \
&& Rscript -e 'devtools::install_github("GLEON/rLakeAnalyzer")' \
&& Rscript -e 'devtools::install_github("aemon-j/gotmtools", ref = "main")' \
&& Rscript -e 'devtools::install_github("aemon-j/SimstratR", ref = "main")' \
&& Rscript -e 'devtools::install_github("aemon-j/MyLakeR", ref = "main")' \
&& Rscript -e 'devtools::install_github("aemon-j/GOTMr", ref = "main")' \
&& Rscript -e 'devtools::install_github("aemon-j/WETr", ref = "main")' \
&& Rscript -e 'devtools::install_github("aemon-j/SelmaprotbasR", ref = "main")' \
&& Rscript -e 'devtools::install_github("hdugan/NTLlakeloads", ref = "master")' \
&& Rscript -e 'install.packages("configr")' \
&& Rscript -e 'install.packages("import")' \
&& Rscript -e 'install.packages("FME")' \
&& Rscript -e 'install.packages("lubridate")' \
&& Rscript -e 'install.packages("plyr")' \
&& Rscript -e 'install.packages("reshape2")' \
&& Rscript -e 'install.packages("zoo")' \
&& Rscript -e 'install.packages("ggplot2")' \
&& Rscript -e 'install.packages("dplyr")' \
&& Rscript -e 'install.packages("RColorBrewer")' \
&& Rscript -e 'install.packages("tools")' \
&& Rscript -e 'install.packages("akima")' \
&& Rscript -e 'install.packages("lazyeval")' \
&& Rscript -e 'install.packages("hydroGOF")' \
&& Rscript -e 'install.packages("RSQLite")' \
&& Rscript -e 'install.packages("XML")' \
&& Rscript -e 'install.packages("MBA")' \
&& Rscript -e 'install.packages("colorRamps")' \
&& Rscript -e 'install.packages("gridExtra")' \
&& Rscript -e 'install.packages("readr")' \
&& Rscript -e 'install.packages("ggpubr")' \
&& Rscript -e 'install.packages("stringr")' \
&& Rscript -e 'install.packages("data.table")' \
&& Rscript -e 'install.packages("parallel")' \
&& Rscript -e 'devtools::install_github("aemon-j/LakeEnsemblR", ref = "main")' \
&& Rscript -e 'devtools::install_github("aemon-j/LakeEnsemblR.WQ", ref = "main")'
RUN echo "rstudio ALL=(ALL) NOPASSWD:ALL">>/etc/sudoers
RUN mkdir /home/rstudio/mendota
WORKDIR /home/rstudio/mendota
COPY LakeEnsemblR.yaml /home/rstudio/mendota/
COPY LakeEnsemblR_bathymetry_standard.csv /home/rstudio/mendota/
COPY LakeEnsemblR_inflow_standard.csv /home/rstudio/mendota/
COPY LakeEnsemblR_initial_standard.csv /home/rstudio/mendota/
COPY LakeEnsemblR_meteo_standard.csv /home/rstudio/mendota/
COPY LakeEnsemblR_WQ.yaml /home/rstudio/mendota/
COPY LakeEnsemblR_wtemp_profile_standard.csv /home/rstudio/mendota/
COPY run_LER-WQ.R /home/rstudio/mendota/
RUN chmod -R 777 .
COPY WQinput /home/rstudio/mendota/WQinput
WORKDIR /home/rstudio/mendota/WQinput
RUN chmod -R 777 .
COPY rserver.conf /etc/rstudio/rserver.conf
RUN apt-get update && apt-get install -y python3-pip
RUN pip3 install py-cdrive-api