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* Update RStudio build script to use latest version of RStudio Server #22

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* Update RStudio build script to use latest version of RStudio Server #22

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12 changes: 10 additions & 2 deletions accre-internal/Singularity.RStudio_2024.12.0-467__R_4.2.2
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Expand Up @@ -4,7 +4,7 @@ From: rockylinux:9
%arguments

# Define the software versions we wish to build
RSTUDIO_VERSION=2024.12.0-467
RSTUDIO_VERSION=2024.12.1-563
R_VERSION=4.4.2
LMOD_VERSION=8.7.56

Expand Down Expand Up @@ -45,7 +45,7 @@ From: rockylinux:9
export LMOD_RC=/accre/common/lmod/etc/lmodrc.lua
source /usr/local/lmod/lmod/init/bash
export PATH=/usr/lib/rstudio-server/bin:${PATH}
# Enable the lmod line below if you're using the lmod version of R instead of the Singularity R
# Enable the lmod line below to include lmod packages in the path
# ml GCC/10.2.0 OpenMPI/4.0.5 R/4.0.5

%setup
Expand Down Expand Up @@ -130,6 +130,14 @@ From: rockylinux:9
# Overwrite /etc/pam.d/rstudio with something more appropriate
cp /etc/pam.d/login /etc/pam.d/rstudio

# Add CRAN packages to the image
# /usr/local/bin/Rscript -e 'install.packages(c("tidyverse", "lubridate", "purrr", "broom"), repos = "https://cloud.r-project.org")'

# Add BioConductor packages to the image
# /usr/local/bin/Rscript -e 'install.packages("BiocManager", repos = "https://cloud.r-project.org")'
# /usr/local/bin/Rscript -e 'BiocManager::install(version = "3.20")'
# /usr/local/bin/Rscript -e 'BiocManager::install(c("BiocVersion", "GenomicAlignments", "preprocessCore"))'

# Remove files that are no longer necessary after building
dnf clean all -y
dnf autoremove -y
Expand Down