sysreqs is not resolved correctly from a package published about 3 days ago

[zhuxr11]

A package hypergeo2 was published on CRAN about 3 days ago. Just now I started a github R CMD CHECK workflow using pak to set up dependencies including hypergeo2 for another package cbbinom, and the system requirements of hypergeo2 was not discovered correctly, failing to install hypergeo2 in the workflow.

Here was what I ran just now:

pak::meta_update()
#> v Updating metadata database ... done                             

pak::pkg_system_requirements("hypergeo2", "ubuntu", "20.04")
#> [1] "apt-get install -y libgmp3-dev" "apt-get install -y libmpfr-dev"

pak::pkg_deps("hypergeo2")[c("ref", "package", "repotype", "sysreqs")]
#> # A data frame: 3 x 4
#>   ref       package   repotype sysreqs
#>   <chr>     <chr>     <chr>    <chr>  
#> 1 BH        BH        cran     ""     
#> 2 hypergeo2 hypergeo2 cran     NA     
#> 3 Rcpp      Rcpp      cran     ""     

We see: pak::pky_system_requirements() found the system requirements correctly (gmp and mpfr), but pak::pkg_deps() (used to set up dependencies in the workflow) printed the sysreqs as NA. This happened after running pak::meta_update(), thus with the newest metadata database.

[gaborcsardi]

This should be fixed now:

❯ options(pkg.platforms = "source")
❯ pak::pkg_deps("hypergeo2")[c("ref", "package", "repotype", "sysreqs")]
# A data frame: 3 × 4
  ref       package   repotype sysreqs    
  <chr>     <chr>     <chr>    <chr>      
1 BH        BH        cran     ""         
2 hypergeo2 hypergeo2 cran     "gmp, mpfr"
3 Rcpp      Rcpp      cran     ""         

[zhuxr11]

This should be fixed now:

❯ options(pkg.platforms = "source")
❯ pak::pkg_deps("hypergeo2")[c("ref", "package", "repotype", "sysreqs")]
# A data frame: 3 × 4
  ref       package   repotype sysreqs    
  <chr>     <chr>     <chr>    <chr>      
1 BH        BH        cran     ""         
2 hypergeo2 hypergeo2 cran     "gmp, mpfr"
3 Rcpp      Rcpp      cran     ""         

Great, when will this update be applied to the "check-standard" github workflow? Or how can I set that in R-CMD-CHECK.yaml?

[gaborcsardi]

It should already work on GHA as well, no need to set anything.

[zhuxr11]

It should already work on GHA as well, no need to set anything.

Thanks, the workflow is running smoothly now.