* using log directory ‘/data/gannet/ripley/R/packages/tests-OpenBLAS/ALDEx3.Rcheck’
* using R Under development (unstable) (2026-01-31 r89365)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)
    GNU Fortran (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)
* running under: Fedora Linux 42 (Workstation Edition)
* using session charset: UTF-8
* using option ‘--no-stop-on-test-error’
* checking for file ‘ALDEx3/DESCRIPTION’ ... OK
* this is package ‘ALDEx3’ version ‘1.0.0’
* 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 ‘ALDEx3’ can be installed ... [20s/51s] 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 ... [6s/24s] OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... [5s/18s] OK
* checking whether the namespace can be loaded with stated dependencies ... [5s/28s] OK
* checking whether the namespace can be unloaded cleanly ... [6s/35s] OK
* checking loading without being on the library search path ... [6s/31s] 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 ... [30s/114s] 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [6s/13s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’ [158s/475s]
 [159s/477s] ERROR
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > # This file is part of the standard setup for testthat.
  > # It is recommended that you do not modify it.
  > #
  > # Where should you do additional test configuration?
  > # Learn more about the roles of various files in:
  > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
  > # * https://testthat.r-lib.org/articles/special-files.html
  > 
  > library(testthat)
  > library(ALDEx3)
  > 
  > test_check("ALDEx3")
  Saving _problems/test-aldex-mem-56.R
  Loading required package: rBeta2009
  
  Attaching package: 'rBeta2009'
  
  The following object is masked from 'package:stats':
  
      rbeta
  
  Loading required package: lmtest
  Loading required package: zoo
  
  Attaching package: 'zoo'
  
  The following objects are masked from 'package:base':
  
      as.Date, as.Date.numeric
  
  Loading required package: sandwich
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 68 ]
  
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Error ('test-aldex-mem.R:51:3'): aldex mem lme4/nlme correct naming ─────────
  Error in `lme.formula(update(formula, y ~ .), data = data_temp, random = random, correlation = correlation)`: nlminb problem, convergence error code = 1
    message = singular convergence (7)
  Backtrace:
      ▆
   1. └─ALDEx3::aldex(...) at test-aldex-mem.R:51:3
   2.   └─ALDEx3:::sr.mem(...)
   3.     └─base (local) lapply_func(...)
   4.       └─ALDEx3 (local) FUN(X[[i]], ...)
   5.         ├─base::suppressMessages(...)
   6.         │ └─base::withCallingHandlers(...)
   7.         ├─nlme::lme(...)
   8.         └─nlme::lme.formula(...)
  
  [ FAIL 1 | WARN 1 | SKIP 0 | PASS 68 ]
  Error:
  ! Test failures.
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [17s/38s] OK
* checking PDF version of manual ... [7s/17s] OK
* checking HTML version of manual ... [3s/10s] 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/gannet/ripley/R/packages/tests-OpenBLAS/ALDEx3.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 18:59.17, 325.79 + 27.10