Revert Rscript for 'install.packages' line and add system level depen…

…dencies to install: 'librdf0-dev' for redland and 'libjq-dev' for jqr

Docker/metadig-worker/Dockerfile

@@ -26,15 +26,15 @@ COPY target/metadig-engine-$ENGINE_TAG.jar metadig-engine-$ENGINE_TAG.jar
 COPY Docker/metadig-worker/solr solr/
 
 RUN apt-get update
-RUN apt-get install -y g++ git r-base r-base-dev r-base-core r-doc-html libc6-dev libssl-dev libxml2 libxml2-dev libcurl4-openssl-dev python3 python3-pip python3-dev openjdk-17-jdk
+RUN apt-get install -y g++ git r-base r-base-dev r-base-core r-doc-html libc6-dev libssl-dev libxml2 libxml2-dev libcurl4-openssl-dev librdf0-dev libjq-dev python3 python3-pip python3-dev openjdk-17-jdk
 
 # Set Java environment variables
 ENV JAVA_HOME=/usr/lib/jvm/java-17-openjdk-amd64
 ENV PATH="$PATH:$JAVA_HOME/bin"
 
 # Install required R packages
 RUN echo 'options(repos = c(CRAN = "http://cran.rstudio.com"))' >> /usr/lib/R/etc/Rprofile.site
-RUN Rscript -e "install.packages(c('remotes', 'stringr', 'jsonlite', 'dataone', 'datapack', 'EML'))"
+RUN Rscript -e "install.packages(c('remotes', 'stringr', 'jsonlite'))"
 RUN Rscript -e "remotes::install_github('NCEAS/metadig-r', ref = 'v.0.2.0')"
 RUN Rscript -e "remotes::install_github('NCEAS/metadig-rake', ref = 'develop')"