first attempt at fixing broken backfill build

Author: dsweber2

backfill_corrections/Dockerfile

@@ -15,22 +15,20 @@ ENV LD_LIBRARY_PATH $GUROBI_HOME/lib
 RUN ln -s -f /usr/share/zoneinfo/America/New_York /etc/localtime
 
 RUN apt-get update && apt-get install -qq -y \
-    libglpk-dev\
+    libudunits2-dev \
+    libgdal-dev \
+    libgeos-dev \
+    libproj-dev \
+    libglpk-dev \
     python3-venv \
     python3-dev \
     python3-pip
 
-RUN install2.r --error \
-    roxygen2 \
-    Rglpk \
-    argparser
-
+RUN R -e 'install.packages(c("pak", "rspm"))'
 RUN --mount=type=secret,id=GITHUB_TOKEN \
     export GITHUB_PAT="$(cat /run/secrets/GITHUB_TOKEN)" && \
-    R -e 'devtools::install_version("bettermc", version = "1.1.2")' && \
-    R -e 'devtools::install_github("cmu-delphi/covidcast", ref = "evalcast", subdir = "R-packages/evalcast")' && \
-    R -e 'devtools::install_github(repo="ryantibs/quantgen", subdir="quantgen")' && \
-    R -e 'install.packages(list.files(path="/opt/gurobi/linux64/R/", pattern="^gurobi_.*[.]tar[.]gz$", full.names = TRUE), repos=NULL)'
+    R -e 'rspm::enable(); pak::pkg_install(c("roxygen2", "Rglpk", "argparser", "gfkse/[email protected]", "cmu-delphi/covidcast/R-packages/evalcast@evalcast", "ryantibs/quantgen/quantgen"))'
+RUN R -e 'install.packages(list.files(path="/opt/gurobi/linux64/R/", pattern="^gurobi_.*[.]tar[.]gz$", full.names = TRUE), repos=NULL)'
 
 WORKDIR /backfill_corrections/
 ADD ./delphiBackfillCorrection ./delphiBackfillCorrection/