Error installing R package "SingleCellExperiment"

Software and Programming R
4

With Conda (using mamba), I can install SingleCellExperiment using the bioconda channel:

mamba install -c bioconda bioconductor-singlecellexperiment

With the modules, there are different steps for each package. For RCurl, I can install with the curl and libxml2 modules loaded. Then SingleCellExperiment installs like normal. For RcppGSL, I can install with the gsl module loaded. For RcppZiggurat, create or modify ~/.R/Makevars to include the following lines:

CPPFLAGS = -I${GSL_ROOT}/include
LDFLAGS = -L${GSL_ROOT}/lib

Then I can install RcppZiggurat and Rfast with the gsl module loaded.