[R-pkg-devel] Old version of rtracklayer on a single check server

Dalgleish, James (NIH/NCI) [F] j@me@@d@|g|e|@h @end|ng |rom n|h@gov
Tue May 18 13:33:27 CEST 2021

To any who might have an idea:

I've been reading several posts in the digest about dependency version issues on the check servers and I'm having my own issue, which I can't solve because I can't upgrade the check server's package version:
* installing *source* package 'CNVScope' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
Warning: multiple methods tables found for 'export'
Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) :
  namespace 'rtracklayer' 1.48.0 is already loaded, but >= 1.51.5 is required
Calls: <Anonymous> ... namespaceImportFrom -> asNamespace -> loadNamespace
Execution halted
ERROR: lazy loading failed for package 'CNVScope'
* removing 'd:/RCompile/CRANguest/R-devel/lib/CNVScope'

These errors tend to be check server dependent (only occurs on r-devel-windows-ix86+x86_64<https://cran.r-project.org/web/checks/check_flavors.html#r-devel-windows-ix86_x86_64>) and I'm just trying to make the small change to closeAllConnections() that was asked earlier of maintainers by Kurt Hornik and the CRAN team, but I can't because of this old package version on the devel check server, which has the same error:

Is there any way around this? I notice the maintainer of the 'gtsummary' package had a similar issue:

"> I am trying to make a release that depends on gt v0.3.0, but I get an error

> when I test the package on Windows Dev `devtools::check_win_devel()` that

> the gt package is available but it's an unsuitable version.  Does anyone

> know why the gt v0.3.0 is unavailable?"

I'm open to any suggestions, but can't see a way around this issue from my end without the ability to service the check server.

James Dalgleish
Cancer Genetics Branch,
Center for Cancer Research,
National Cancer Institute,
National Institutes of Health,
Bethesda, MD

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