- using R Under development (unstable) (2026-02-11 r89406)
- using platform: x86_64-pc-linux-gnu
- R was compiled by
Debian clang version 21.1.8 (3)
Debian flang version 21.1.8 (3)
- running under: Debian GNU/Linux forky/sid
- using session charset: UTF-8
* current time: 2026-02-13 03:09:44 UTC
- checking for file ‘lme4/DESCRIPTION’ ... OK
- this is package ‘lme4’ version ‘1.1-38’
- package encoding: UTF-8
- checking CRAN incoming feasibility ... [3s/4s] OK
- 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 ‘lme4’ can be installed ... OK
See the install log for details.
- used C++ compiler: ‘Debian clang version 21.1.8 (3)’
- checking package directory ... OK
- checking for future file timestamps ... 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 ... [3s/3s] OK
- checking whether the package can be loaded with stated dependencies ... [2s/3s] OK
- checking whether the package can be unloaded cleanly ... [3s/3s] OK
- checking whether the namespace can be loaded with stated dependencies ... [2s/3s] OK
- checking whether the namespace can be unloaded cleanly ... [3s/4s] OK
- checking loading without being on the library search path ... [2s/3s] OK
- checking whether startup messages can be suppressed ... [3s/3s] 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 ... [45s/57s] OK
- checking Rd files ... [2s/3s] 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 ... [0s/1s] OK
- checking LazyData ... OK
- checking data for ASCII and uncompressed saves ... OK
- checking R/sysdata.rda ... 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 sizes of PDF files under ‘inst/doc’ ... OK
- checking installed files from ‘inst/doc’ ... OK
- checking files in ‘vignettes’ ... OK
- checking examples ... [26s/35s] OK
- checking for unstated dependencies in ‘tests’ ... OK
- checking tests ... [273s/347s] ERROR
Running ‘AAAtest-all.R’ [63s/75s]
Running ‘HSAURtrees.R’ [3s/3s]
Running ‘REMLdev.R’ [3s/3s]
Running ‘ST.R’ [3s/3s]
Running ‘agridat_gotway.R’ [4s/5s]
Running ‘bootMer.R’ [7s/19s]
Running ‘boundary.R’ [9s/11s]
Running ‘confint.R’ [5s/6s]
Running ‘devCritFun.R’ [3s/4s]
Running ‘drop.R’ [4s/4s]
Running ‘drop1contrasts.R’ [3s/4s]
Running ‘dynload.R’ [0s/1s]
Running ‘elston.R’ [3s/4s]
Running ‘evalCall.R’ [3s/4s]
Running ‘extras.R’ [3s/3s]
Running ‘falsezero_dorie.R’ [3s/3s]
Running ‘fewlevels.R’ [0s/0s]
Running ‘getME.R’ [3s/4s]
Running ‘glmer-1.R’ [5s/6s]
Running ‘glmerControlPass.R’ [6s/7s]
Running ‘glmerWarn.R’ [4s/5s]
Running ‘glmmExt.R’ [7s/9s]
Running ‘glmmWeights.R’ [7s/8s]
Running ‘hatvalues.R’ [3s/3s]
Running ‘is.R’ [3s/5s]
Running ‘lmList-tst.R’ [3s/5s]
Running ‘lme4_nlme.R’ [3s/3s]
Running ‘lmer-0.R’ [3s/3s]
Running ‘lmer-1.R’ [3s/3s]
Running ‘lmer-conv.R’ [3s/3s]
Running ‘lmer2_ex.R’ [3s/3s]
Running ‘methods.R’ [4s/5s]
Running ‘minval.R’ [3s/3s]
Running ‘modFormula.R’ [4s/5s]
Running ‘nbinom.R’ [3s/3s]
Running ‘nlmer-conv.R’ [3s/4s]
Running ‘nlmer.R’ [3s/4s]
Running ‘offset.R’ [4s/5s]
Running ‘optimizer.R’ [5s/6s]
Running ‘polytomous.R’ [3s/3s]
Running ‘prLogistic.R’ [3s/3s]
Running ‘predict_basis.R’ [4s/5s]
Running ‘predsim.R’ [4s/5s]
Running ‘priorWeights.R’ [6s/8s]
Running ‘priorWeightsModComp.R’ [5s/6s]
Running ‘profile-tst.R’ [3s/3s]
Running ‘refit.R’ [3s/3s]
Running ‘resids.R’ [3s/4s]
Running ‘respiratory.R’ [7s/9s]
Running ‘simulate.R’ [3s/3s]
Running ‘test-glmernbref.R’ [4s/6s]
Running ‘testOptControl.R’ [3s/4s]
Running ‘testcolonizer.R’ [3s/4s]
Running ‘testcrab.R’ [9s/10s]
Running ‘throw.R’ [4s/6s]
Running ‘varcorr.R’ [3s/4s]
Running ‘vcov-etc.R’ [3s/4s]
Running the tests in ‘tests/AAAtest-all.R’ failed.
Complete output:
> if (base::require("testthat", quietly = TRUE)) {
+ pkg <- "lme4"
+ require(pkg, character.only=TRUE, quietly=TRUE)
+ if(getRversion() < "3.5.0") { withAutoprint <- identity ; prt <- print } else { prt <- identity }
+ if(Sys.getenv("USER") %in% c("maechler", "bbolker")) withAutoprint({
+ ## for developers' sake:
+ lP <- .libPaths() # ---- .libPaths() : ----
+ prt(lP)
+ ## ---- Entries in .libPaths()[1] : ----
+ prt(list.files(lP[1], include.dirs=TRUE))
+ prt(sessionInfo())
+ prt(packageDescription("Matrix"))
+ ## 'lme4' from packageDescription "file" :
+ prt(attr(packageDescription("lme4"), "file"))
+ })
+ test_check(pkg)
+ ##======== ^^^
+ print(warnings()) # TODO? catch most of these by expect_warning(..)
+ } else {
+ cat( "package 'testthat' not available, cannot run unit tests\n" )
+ }
Saving _problems/test-methods-877.R
[ FAIL 1 | WARN 5 | SKIP 4 | PASS 674 ]
══ Skipped tests (4) ═══════════════════════════════════════════════════════════
• On CRAN (1): 'test-eval.R:2:1'
• empty test (3): , ,
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test-methods.R:875:3'): rstudent matches for zero-var cases ───────
Expected `suppressWarnings(rstudent(glmer_zero))` to equal `rstudent(glm_zero)`.
Differences:
82/120 mismatches (average diff: 0.122)
[1] 1.355 - 1.528 == -0.1726
[2] -0.772 - -0.723 == -0.0494
[3] 0.866 - 0.940 == -0.0741
[4] -0.791 - -0.739 == -0.0521
[5] 0.842 - 0.912 == -0.0699
[7] 0.323 - 0.335 == -0.0121
[8] -0.831 - -0.773 == -0.0577
[10] 0.784 - 0.844 == -0.0599
[12] -0.871 - -0.807 == -0.0635
...
[ FAIL 1 | WARN 5 | SKIP 4 | PASS 674 ]
Error:
! Test failures.
Execution halted
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes ... OK
- checking re-building of vignette outputs ... [69s/87s] OK
- checking PDF version of manual ... [11s/14s] OK
- checking HTML version of manual ... [16s/21s] OK
- checking for non-standard things in the check directory ... OK
- DONE
Status: 1 ERROR