rhub error on some platforms

[NicChr]

Hi, I'm getting the following error on some platforms, e.g. ubuntu-clang:

Error in dyn.load(file, DLLpath = DLLpath, ...): unable to load shared object '/github/home/R/x86_64-pc-linux-gnu-library/4.5/collapse/libs/collapse.so':
libc++.so.1: cannot open shared object file: No such file or directory

The rhub run can be found here: https://github.com/NicChr/cheapr/actions/runs/8779659032/job/24088092947

I'm not sure why I'm getting the error but it seems to happen when calling some collapse functions, which is the main dependency of my package.

[gaborcsardi]

Yes, I believe that this is a bug and it happens because the clang-asan cache is used for the other builds.

You can clear the cache manually and re-run the failed builds as a workaround for now.

[NicChr]

Thanks for the quick response, I cleared all the caches and re-ran ubuntu-clang which did indeed pass.
In fact all of them passed with the exception of gcc13 which gave the warning:

❯ checking compilation flags used ... WARNING
Compilation used the following non-portable flag(s):
‘-Werror=format-security’ ‘-Wno-parentheses’
‘-Wp,-D_FORTIFY_SOURCE=3’
including flag(s) suppressing warnings

[gaborcsardi]

Thanks for the quick response, I cleared all the caches and re-ran ubuntu-clang which did indeed pass.
In fact all of them passed with the exception of gcc13 which gave the warning:

I am not sure what your question is here. AFAICT CRAN does not use gcc13 to do checks any more, and probably in the meanwhile R got some new checks for compiler flags, so you get this warning. You can safely ignore these if that's your question.

[NicChr]

Many thanks, I'm a bit of a noob so not sure what a compiler flag is really. In any case it's good to know I can ignore them, thanks!

[gaborcsardi]

Compiler flags are command line options to the compiler, to change its behavior. E.g. using -Wno-parentheses will make the compiler emit warnings that suggest some code changes wrt. parentheses.

R CMD check warns for non-portable compiler flags. When they created the gcc13 check flavour, they used -Wno-parentheses and at that time R CMD check did not warn for this flag. The current R(-devel) version does, but since they are not using gcc13 any more, they never see this.

We should probably remove gcc13, or mark it as archived or unused: #604.

[gaborcsardi]

Actually, I'll keep this open until the cache mismatch is fixed.

[CorradoLanera]

Just to report my current experience:

rhub fail to:

• install {renv} (r-hub/actions/platform-info@v1) on:
  • atlas (here)
• install {pak} (r-hub/actions/setup-deps@v1) on:
  • gcc13 (here)
  • mkl (here)
  • nosuggests (here)
  • valgrind (here)
• strange error in downloading {renv} while using {renv} to install {pak} (r-hub/actions/setup-deps@v1) on:
  • intel (here)
• install {stringi} (r-hub/actions/setup-deps@v1) on:
  • windows devel (here)

[gaborcsardi]

@CorradoLanera Those look like completely different errors to me.

You can't use a repo with renv currently: #596

stringi is broken on R-devel: https://cran.r-project.org/web/checks/check_results_stringi.html

[CorradoLanera]

ok, thanks!

[gaborcsardi]

The cache key issue is now fixed in r-hub/actions v1.1.7 (https://github.com/r-hub/actions/blob/main/NEWS.md), so I am closing this now.