[Bioc-devel] issue with .local() hack used in S4 methods

[Hervé Pagès]

Hi,

Just ran across this:

     foo <- function(x, ..., z=22) z

     setMethod("foo", "character", function(x, y=-5, z=22) y)
     # Creating a generic function from function ‘foo’ in the global 
environment

Then:

     foo("a")
     # [1] 22

Should return -5, not 22.

That's because the call to .local() used internally by the foo() method 
does not name the arguments placed after the ellipsis:

 > selectMethod("foo", "character")
Method Definition:

function (x, ..., z = 22)
{
     .local <- function (x, y = 5, z = 22)
     y
     .local(x, ..., z)  <--- should be .local(x, ..., z=z)
}

Thanks,

H.

 > sessionInfo()
R version 4.3.0 (2023-04-21)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 23.04

Matrix products: default
BLAS:   /home/hpages/R/R-4.3.0/lib/libRblas.so
LAPACK: /home/hpages/R/R-4.3.0/lib/libRlapack.so;  LAPACK version 3.11.0

locale:
  [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
  [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
  [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
  [7] LC_PAPER=en_US.UTF-8       LC_NAME=C
  [9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

time zone: America/Los_Angeles
tzcode source: system (glibc)

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods base

loaded via a namespace (and not attached):
[1] compiler_4.3.0   codetools_0.2-19

-- 
Hervé Pagès

Bioconductor Core Team
hpages.on.github using gmail.com