Installation of rtracklayer fails

[steveped]

I can't seem to install rtracklayer on a clean posit.cloud instance using Rv4.4.0 or v4.4.1. The code is

install.packages("BiocManager")
BiocManager::install("rtracklayer", version = "3.19", update = FALSE)

There's all the installation output with the following lines at the end

installing to /cloud/lib/x86_64-pc-linux-gnu-library/4.4/00LOCK-rtracklayer/00new/rtracklayer/libs
** R
** data
** demo
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function for 'offset' from package 'stats' in package 'rtracklayer'
Killed
ERROR: lazy loading failed for package 'rtracklayer'
* removing '/cloud/lib/x86_64-pc-linux-gnu-library/4.4/rtracklayer'

The downloaded source packages are in
	'/tmp/RtmpgpsxXb/downloaded_packages'
Installation paths not writeable, unable to update packages
  path: /opt/R/4.4.1/lib/R/library
  packages:
    foreign, MASS, nlme, survival

Any suggestions to get around this?

[Gabor]

Killed

usually means the OOM process killer on Linux. Do you have enough memory? Can you try adding more or creating a swap file?

[steveped]

Thanks, and that makes a lot of sense. This was a free instance I was hoping to use as a backup plan for an R Training workshop, in the case that local installations are problematic. Looks like posit cloud resources aren't suitable for that without paid accounts so I'll find another option. Much appreciated though.

[Gabor]

Compilation of C++ programs might need a lot of memory. Typically much more than what is enough for a typical small web app.

If you want to use the small instances , you can look into building binary packages elsewhere, e.g. GitHub Actions, and then installing binaries on Posit Cloud.