* using log directory ‘/srv/hornik/tmp/CRAN/lme4.Rcheck’
* using R Under development (unstable) (2024-06-17 r86769)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 18.1.5 (2)
    Debian flang-new version 18.1.5 (2)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘lme4/DESCRIPTION’ ... OK
* this is package ‘lme4’ version ‘1.1-35.4’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [5s/7s] Note_to_CRAN_maintainers
Maintainer: ‘Ben Bolker <bbolker+lme4@gmail.com>’
* 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 ... [41s/41s] OK
* used C++ compiler: ‘Debian clang version 18.1.6 (1)’
* 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 ... [1s/1s] OK
* checking whether the package can be loaded with stated dependencies ... [1s/1s] OK
* checking whether the package can be unloaded cleanly ... [1s/1s] OK
* checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK
* checking whether the namespace can be unloaded cleanly ... [1s/1s] OK
* checking loading without being on the library search path ... [1s/1s] OK
* checking whether startup messages can be suppressed ... [1s/1s] 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 ... [18s/18s] OK
* checking Rd files ... [1s/1s] OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
  lmerControl.Rd: bobyqa
  modular.Rd: bobyqa
  plots.thpr.Rd: xyplot, densityplot, splom
  residuals.merMod.Rd: residuals.lme
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
* 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/0s] 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 ... [16s/16s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [104s/109s] OK
  Running ‘AAAtest-all.R’ [19s/20s]
  Running ‘HSAURtrees.R’ [1s/1s]
  Running ‘REMLdev.R’ [1s/1s]
  Running ‘ST.R’ [1s/1s]
  Running ‘agridat_gotway.R’ [2s/2s]
  Running ‘bootMer.R’ [3s/8s]
  Running ‘boundary.R’ [4s/4s]
  Running ‘confint.R’ [2s/2s]
  Running ‘devCritFun.R’ [1s/1s]
  Running ‘drop.R’ [1s/1s]
  Running ‘drop1contrasts.R’ [1s/1s]
  Running ‘dynload.R’ [0s/0s]
  Running ‘elston.R’ [1s/1s]
  Running ‘evalCall.R’ [1s/1s]
  Running ‘extras.R’ [1s/1s]
  Running ‘falsezero_dorie.R’ [1s/1s]
  Running ‘fewlevels.R’ [0s/0s]
  Running ‘getME.R’ [1s/1s]
  Running ‘glmer-1.R’ [2s/2s]
  Running ‘glmerControlPass.R’ [2s/2s]
  Running ‘glmerWarn.R’ [2s/2s]
  Running ‘glmmExt.R’ [3s/3s]
  Running ‘glmmWeights.R’ [3s/3s]
  Running ‘hatvalues.R’ [1s/1s]
  Running ‘is.R’ [1s/1s]
  Running ‘lmList-tst.R’ [1s/1s]
  Running ‘lme4_nlme.R’ [1s/1s]
  Running ‘lmer-0.R’ [1s/1s]
  Running ‘lmer-1.R’ [1s/1s]
  Running ‘lmer-conv.R’ [1s/1s]
  Running ‘lmer2_ex.R’ [1s/1s]
  Running ‘methods.R’ [2s/2s]
  Running ‘minval.R’ [1s/1s]
  Running ‘modFormula.R’ [2s/2s]
  Running ‘nbinom.R’ [1s/1s]
  Running ‘nlmer-conv.R’ [1s/1s]
  Running ‘nlmer.R’ [1s/1s]
  Running ‘offset.R’ [1s/1s]
  Running ‘optimizer.R’ [2s/2s]
  Running ‘polytomous.R’ [1s/1s]
  Running ‘prLogistic.R’ [1s/1s]
  Running ‘predict_basis.R’ [1s/1s]
  Running ‘predsim.R’ [1s/1s]
  Running ‘priorWeights.R’ [2s/2s]
  Running ‘priorWeightsModComp.R’ [2s/2s]
  Running ‘profile-tst.R’ [1s/1s]
  Running ‘refit.R’ [1s/1s]
  Running ‘resids.R’ [1s/1s]
  Running ‘respiratory.R’ [3s/3s]
  Running ‘simulate.R’ [1s/1s]
  Running ‘test-glmernbref.R’ [2s/2s]
  Running ‘testOptControl.R’ [1s/1s]
  Running ‘testcolonizer.R’ [1s/1s]
  Running ‘testcrab.R’ [3s/3s]
  Running ‘throw.R’ [2s/2s]
  Running ‘varcorr.R’ [1s/1s]
  Running ‘vcov-etc.R’ [1s/1s]
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [30s/30s] OK
* checking PDF version of manual ... [5s/5s] OK
* checking HTML version of manual ... [3s/3s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 1 NOTE