Dockerfile now set up container group/user for permission issues. Docker build...

Dockerfile now set up container group/user for permission issues. Docker build and run instructions are now detailed in README

Dockerfile

@@ -3,23 +3,26 @@
 
 FROM rocker/r-ver:4.1.2
 
-## Set up working directory
-WORKDIR /usr/src/forecastMockUp
+## Setup user args
+ARG USERNAME=mockup
+ARG USER_UID=1100
+ARG USER_GID=$USER_UID
+RUN groupadd --non-unique -g $USER_GID $USERNAME \
+    && useradd -u $USER_UID -g $USER_GID -s /bin/sh -m $USERNAME
 
-COPY . .
+## Set up work directory in the Docker container
+WORKDIR /usr/src/mockup_R/
 
-#RUN apt-get update
+## Copy the files from the local machine (the repository) to the Docker container
+COPY --chown=$USER_UID:$USER_GID . /usr/src/mockup_R/
 
-## Install linux libraries - need these to be versioned!
-## RUN apt-get install -y libgdal-dev libproj-dev libgeos-dev libudunits2-dev libnode-dev libcairo2-dev libnetcdf-dev
+#$ Install linux libraries - need these to be versioned!
+#RUN apt-get install -y libgdal-dev libproj-dev libgeos-dev libudunits2-dev libnode-dev libcairo2-dev libnetcdf-dev
 
 ## Pending:  Setting Up Ncpus in .Rprofile to match the machine cores
 # Install any neccessary R packages like this:
 #RUN Rscript -e "install.packages('renv')"
 
-RUN groupadd docker && \
-    useradd -g docker modeler
-
-USER modeler
-
+## Docker now will be initialized as user
+USER $USERNAME
 

README.md

@@ -4,10 +4,20 @@ A repo demonstrating a mock-up forecast set-up using R.
 This will generate a mock forecast with the required formatting for pyCSEP testing, generated from sampled events in the catalogue.
 Takes in required forecast date from command line (example is "2020-01-01" below) and writes the output forecast to the forecasts folder
 
-## Build docker
 
-docker build -t {user}/mockup .
+## Docker build
+
+```
+docker build \
+--build-arg USERNAME=$USER \
+--build-arg USER_UID=$(id -u) \
+--build-arg USER_GID=$(id -g) \
+--no-cache \
+-t mockup_r .
+```
 
 ## Run docker and create forecast
 
-docker run --rm --volume {model_path}/mockup/:/usr/src/mockup:rw {user}/mockup Rscript run_forecast.R "2020-01-01"
+```
+docker run --rm --volume $PWD:/usr/src/mockup_R:rw mockup_r Rscript run_forecast.R "2020-01-01"
+```

man/hello.Rd

-\name{hello}
-\alias{hello}
-\title{Hello, World!}
-\usage{
-hello()
-}
-\description{
-Prints 'Hello, world!'.
-}
-\examples{
-hello()
-}