* using log directory ‘/data/localhost/ripley/R/packages/tests-clang/amp.sim.Rcheck’
* using R Under development (unstable) (2026-09-15 r90540)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    clang version 23.1.1
    flang version 23.1.1
* running under: Fedora Linux 44 (Server Edition)
* using session charset: UTF-8
* current time: 2026-09-16 12:07:23 UTC
* using option ‘--no-stop-on-test-error’
* checking for file ‘amp.sim/DESCRIPTION’ ... OK
* this is package ‘amp.sim’ version ‘0.1.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... INFO
Packages suggested but not available for checking: 'nonmem2rx', 'rxode2'
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘amp.sim’ can be installed ... OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-clang/amp.sim-00install.html' for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking use of S3 registration ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... ERROR
Running examples in ‘amp.sim-Ex.R’ failed
The error most likely occurred in:

> ### Name: convert_nonmem
> ### Title: Convert NONMEM model to R syntax
> ### Aliases: convert_nonmem
> 
> ### ** Examples
> 
> 
> mod  <- system.file("example_models","PK.1CMT.ORAL.mod", package = "amp.sim")
> outf <- tempfile()
> 
> convert_nonmem(mod, outf, verbose = FALSE)
> readLines(paste0(outf,".cpp")) |> head(n=15) |> cat(sep="\n")
$PLUGIN autodec nm-vars Rcpp
$PROB 1 CMT PK model with oral absorption

$PARAM
THETA1 = 0.1, THETA2 = 2, THETA3 = 1

$CMT
A1 A2

$PK

 KA =  THETA(1) * exp(ETA(1)) ;
 CL =  THETA(2) * exp(ETA(2)) ;
 V =  THETA(3) ;
 S2 =  V ;
> 
> convert_nonmem(mod, outf, verbose = FALSE, type_return = "nonmem2rx") |> suppressMessages()
Error in convert_nonmem(mod, outf, verbose = FALSE, type_return = "nonmem2rx") : 
  the nonmem2rx package should be installed to use this option
Calls: suppressMessages -> withCallingHandlers -> convert_nonmem
Execution halted
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [23s/16s] ERROR
  Running ‘testthat.R’ [23s/16s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(amp.sim)
  > 
  > test_check("amp.sim")
  Saving _problems/test_readconvert-324.R
  [ FAIL 1 | WARN 1 | SKIP 1 | PASS 211 ]
  
  ══ Skipped tests (1) ═══════════════════════════════════════════════════════════
  • empty test (1): 'test_readconvert.R:217:1'
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test_readconvert.R:323:3'): convert_nonmem returns the correctly tranformed model ──
  Error in `convert_nonmem(paste0(tdir, "/testmodel.mod"), control = "string", out = paste0(tdir, "/testnm2rx"), overwrite = TRUE, type_return = "nonmem2rx")`: the nonmem2rx package should be installed to use this option
  Backtrace:
      ▆
   1. ├─base::suppressMessages(...) at test_readconvert.R:323:3
   2. │ └─base::withCallingHandlers(...)
   3. └─amp.sim::convert_nonmem(...)
  
  [ FAIL 1 | WARN 1 | SKIP 1 | PASS 211 ]
  Error:
  ! Test failures.
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [29s/32s] OK
* checking PDF version of manual ... OK
* checking HTML version of manual ... OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 2 ERRORs