Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Issue installing OS (Ubuntu) dependencies for Rhtslib in R 4.4.2 #730

Closed
SuhasSrinivasan opened this issue Jan 4, 2025 · 1 comment · Fixed by rstudio/r-system-requirements#200
Closed

Issue installing OS (Ubuntu) dependencies for Rhtslib in R 4.4.2 #730

SuhasSrinivasan opened this issue Jan 4, 2025 · 1 comment · Fixed by rstudio/r-system-requirements#200

Comments

@SuhasSrinivasan
Copy link

SuhasSrinivasan commented Jan 4, 2025 •
edited
Loading

Dear Developers,

Thanks a ton for developing pak, it is amazing to say the least!

There is currently an issue when installing Rhtslib, because pak does not recognize and install the OS dependencies and the R package installation fails.
This issue is occurring in R 4.4.2 and did not exist in R 4.4.1 and R 4.3.3.

The dependencies are lzma.h and bzlib.h

OS: Ubuntu 22.04.5 LTS
R: 4.4.2
pak: 0.8.0
Bioconductor: 3.20
Rhtslib: 3.20

Workaround for the issue

$ sudo apt install liblzma-dev
$ sudo apt install libbz2-dev
gaborcsardi added a commit to rstudio/r-system-requirements that referenced this issue Jan 4, 2025
@gaborcsardi
Add libbz2 and liblzma
fbae4c6 
For https://github.com/Bioconductor/Rhtslib/blob/9373c6f253fd4c2b15789e40bec7bebbc77dcc60/DESCRIPTION#L29

r-lib/pak#730
@gaborcsardi gaborcsardi mentioned this issue Jan 4, 2025
Merged
@gaborcsardi
Copy link
Member

This should be fixed now.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

Successfully merging a pull request may close this issue.

Add libbz2 and liblzma rstudio/r-system-requirements
2 participants
@gaborcsardi @SuhasSrinivasan