From 3c2344d51becaeca17a3221ff4ea444a995354c2 Mon Sep 17 00:00:00 2001
From: rxu17 <26471741+rxu17@users.noreply.github.com>
Date: Wed, 16 Oct 2024 20:15:27 -0700
Subject: [PATCH] add fix for bad pub keys

---
 scripts/references/Dockerfile | 18 ++++++++----------
 1 file changed, 8 insertions(+), 10 deletions(-)

diff --git a/scripts/references/Dockerfile b/scripts/references/Dockerfile
index 390fe230..cdcfc275 100644
--- a/scripts/references/Dockerfile
+++ b/scripts/references/Dockerfile
@@ -1,21 +1,19 @@
-FROM r-base:4.0.0
+FROM rstudio/r-base:4.0-bullseye
 
 WORKDIR /usr/local/src/myscripts
 
 ENV RENV_VERSION 0.14.0
+# RUN rm /etc/apt/apt.conf.d/default
+RUN apt-get update -y && apt-get install -y dpkg-dev zlib1g-dev libssl-dev libffi-dev curl libcurl4-openssl-dev procps
 
-RUN rm /etc/apt/apt.conf.d/default
-RUN apt-get update -y
-RUN apt-get install -y dpkg-dev zlib1g-dev libssl-dev libffi-dev
-# procps is required for nextflow tower
-RUN apt-get install -y curl libcurl4-openssl-dev procps
-RUN R -e "install.packages('synapser', repos=c('http://ran.synapse.org', 'http://cran.fhcrc.org'))"
-
-ENV PYTHON /usr/local/lib/R/site-library/PythonEmbedInR/bin/python3.6
 
 RUN R -e "install.packages('remotes', repos = c(CRAN = 'https://cloud.r-project.org'))"
 RUN R -e "remotes::install_github('rstudio/renv@${RENV_VERSION}')"
+RUN R -e "remotes::install_version('synapser', version = '0.11.7', repos = c('http://ran.synapse.org', 'http://cran.fhcrc.org'))"
+
+ENV PYTHON /usr/local/lib/R/site-library/PythonEmbedInR/bin/python3.6
+
 
 COPY . .
 
-RUN R -e "renv::restore()"
+RUN R -e "renv::restore()"
\ No newline at end of file