* using log directory ‘/data/localhost/ripley/R/packages/tests-MKL/BET.Rcheck’
* using R Under development (unstable) (2026-10-28 r90786)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (GCC) 16.2.1 20260819 (Red Hat 16.2.1-2)
    GNU Fortran (GCC) 16.2.1 20260819 (Red Hat 16.2.1-2)
* running under: Fedora Linux 44 (Server Edition)
* using session charset: UTF-8
* current time: 2026-10-29 09:24:48 UTC
* using option ‘--no-stop-on-test-error’
* checking for file ‘BET/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘BET’ version ‘0.6.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* 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 ‘BET’ can be installed ... [16s/13s] OK
* used C++ compiler: ‘g++ (GCC) 16.2.1 20260819 (Red Hat 16.2.1-2)’
* checking package 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
* checking pragmas in C/C++ headers and code ... OK
* checking compilation flags used ... OK
* checking compiled code ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘regression.R’
 ERROR
Running the tests in ‘tests/regression.R’ failed.
Complete output:
  > # Small, deterministic/frozen-fixture tests; no full study or benchmark.
  > library(BET)
  > stopifnot(as.character(packageVersion("BET")) == "0.6.0")
  > fixtures <- readRDS("fixtures/inputs.rds")
  > expected <- readRDS("fixtures/expected_054.rds")
  > api <- readRDS("fixtures/api_054.rds")
  > checks <- 0L
  > ok <- function(x) {stopifnot(isTRUE(x));checks <<- checks+1L;invisible(TRUE)}
  > error <- function(expr, pattern=NULL) {
  +     ans <- tryCatch({force(expr);NULL},error=function(e)e)
  +     ok(inherits(ans,"error"))
  +     if (!is.null(pattern)) ok(grepl(pattern,conditionMessage(ans),fixed=TRUE))
  + }
  > inside <- function(name) getFromNamespace(paste0(".beast_asym_",name),"BET")
  > RNGkind("Mersenne-Twister","Inversion","Rejection")
  > for (id in names(fixtures)) {
  +     f <- fixtures[[id]]; X <- f$X
  +     for (name in names(api)) {
  +         fun <- getExportedValue("BET",name)
  +         ok(identical(formals(fun),api[[name]]$formals))
  +         ok(identical(deparse(body(fun),width.cutoff=500L),api[[name]]$body))
  +     }
  +     set.seed(f$statistic_seed)
  +     fit <- BEAST(X,3,subsample.percent=f$fraction,B=f$B,lambda=f$lambda,
  +                  index=list(1L,2L),method="stat")
  +     after <- .Random.seed
  +     ok(identical(fit,expected[[id]]$BEAST))
  +     set.seed(f$statistic_seed)
  +     repeat_fit <- BEAST(X,3,subsample.percent=f$fraction,B=f$B,lambda=f$lambda,
  +                         index=list(1L,2L),method="stat")
  +     ok(identical(fit,repeat_fit) && identical(.Random.seed,after))
  +     ok(identical(MaxBET(X,3,index=list(1L,2L)),expected[[id]]$MaxBET))
  +     ok(identical(MaxBETs(X,3,index=list(1L,2L)),expected[[id]]$MaxBETs))
  +     ok(identical(cell.counts(X,3),expected[[id]]$cell.counts))
  +     ok(identical(symm(X,3,print.sample.size=FALSE),expected[[id]]$symm))
  +     ok(identical(get.signs(X,3),expected[[id]]$get.signs))
  + }
  > # Plotting API source/formals frozen above; output goes only to tempdir().
  > p <- tempfile(fileext=".pdf");grDevices::pdf(p)
  > bet.plot(fixtures[[1]]$X,3,index=list(1L,2L));grDevices::dev.off()
  null device 
            1 
  > ok(file.info(p)$size>1000);unlink(p)
  > set.seed(819L);saved_rng <- .Random.seed; saved_kind <- RNGkind()
  > cal <- BEAST.asymptotic.calibrate(64,dep=2,subsample.percent=.25,B=4,
  +                                   lambda=0,H=12,G=64,seed=73002L)
  > ok(identical(.Random.seed,saved_rng) && identical(RNGkind(),saved_kind))
  > cal2 <- BEAST.asymptotic.calibrate(64,dep=2,subsample.percent=.25,B=4,
  +                                    lambda=0,H=12,G=64,seed=73002L)
  > ok(identical(cal,cal2))
  Error in ok(identical(cal, cal2)) : isTRUE(x) is not TRUE
  Calls: ok -> stopifnot
  Execution halted
* 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: 1 ERROR
See
  ‘/data/localhost/ripley/R/packages/tests-MKL/BET.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 0:40.85, 35.14 + 5.88