[R-pkg-devel] puzzling CRAN rejection

[Duncan Murdoch]

There's this one in 
https://win-builder.r-project.org/incoming_pretest/lme4_1.1-24_20201012_210730/Windows/00check.log:

   Comparing 'lmer-1.Rout' to 'lmer-1.Rout.save' ...428d427
< boundary (singular) fit: see ?isSingular
430d428
< boundary (singular) fit: see ?isSingular

Those messages about the singular fit show up in

https://win-builder.r-project.org/incoming_pretest/lme4_1.1-24_20201012_210730/Windows/examples_and_tests/tests_i386/lmer-1.Rout 


but not in

https://win-builder.r-project.org/incoming_pretest/lme4_1.1-24_20201012_210730/Windows/examples_and_tests/tests_i386/lmer-1.Rout.save

The difference also doesn't show up in the x64 versions of the files.

Duncan Murdoch

On 12/10/2020 4:03 p.m., Ben Bolker wrote:
>     Before I risk wasting the CRAN maintainers' time with a query, can
> anyone see what I'm missing here?  Everything I can see looks OK, with
> the possible exception of the 'NA' result for "CRAN incoming
> feasibility" on r-devel-windows-ix86+x86_64 (which surely isn't my fault???)
> 
>     Any help appreciated, as always.
> 
>     Ben Bolker
> 
> 
> 
> 
> =====
> Dear maintainer,
> 
> package lme4_1.1-24.tar.gz does not pass the incoming checks
> automatically, please see the following pre-tests:
> Windows:
> <https://win-builder.r-project.org/incoming_pretest/lme4_1.1-24_20201012_210730/Windows/00check.log>
> Status: OK
> Debian:
> <https://win-builder.r-project.org/incoming_pretest/lme4_1.1-24_20201012_210730/Debian/00check.log>
> Status: OK
> 
> Last released version's CRAN status: ERROR: 2, NOTE: 5, OK: 5
> See: <https://CRAN.R-project.org/web/checks/check_results_lme4.html>
> 
> Last released version's additional issues:
>     gcc-UBSAN <https://www.stats.ox.ac.uk/pub/bdr/memtests/gcc-UBSAN/lme4>
> 
> CRAN Web: <https://cran.r-project.org/package=lme4>
> 
> Please fix all problems and resubmit a fixed version via the webform.
> If you are not sure how to fix the problems shown, please ask for help
> on the R-package-devel mailing list:
> <https://stat.ethz.ch/mailman/listinfo/r-package-devel>
> If you are fairly certain the rejection is a false positive, please
> reply-all to this message and explain.
> 
> More details are given in the directory:
> <https://win-builder.r-project.org/incoming_pretest/lme4_1.1-24_20201012_210730/>
> The files will be removed after roughly 7 days.
> 
> *** Strong rev. depends ***: afex agRee altmeta aods3 arm ARTool bapred
> bayesammi BayesLN BayesSenMC baystability BBRecapture BClustLonG BFpack
> blme blmeco blocksdesign BradleyTerry2 buildmer cAIC4 car carcass cgam
> chngpt ciTools clickR climwin CLME clusteredinterference clusterPower
> CMatching cpr cvms DClusterm dfmeta DHARMa diagmeta difR doremi
> eda4treeR EdSurvey effects embed epr ESTER ez faraway faux fence
> finalfit fishmethods fullfact gamm4 geex GHap glmertree glmmEP GLMMRR
> glmmsr glmmTMB GLMpack gorica groupedstats gtheory gvcR HelpersMG
> HeritSeq hmi iccbeta IDmeasurer IMTest inferference influence.ME
> intRvals isni jlctree joineRmeta joineRML JointModel jomo jstable
> JWileymisc KenSyn lefko3 lmem.qtler LMERConvenienceFunctions lmerTest
> lmSupport longpower LSAmitR macc MAGNAMWAR manymodelr MargCond marked
> mbest MDMR mediation MEMSS merDeriv merTools meta metamisc metan
> metaplus Metatron micemd MiRKAT misty mixAK MixedPsy MixMAP MixRF MLID
> mlma mlmRev mlVAR MMeM multiDimBio multil
>    evelTools MultiRR MultisiteMediation mumm mvMISE MXM nanny omics
> OptimClassifier pamm panelr paramhetero PBImisc pbkrtest pcgen
> pedigreemm Phenotype phyr piecewiseSEM Plasmode PLmixed powerbydesign
> powerlmm predictmeans PrevMap prLogistic psfmi ptmixed qape r2mlm
> raincin Rcmdr refund reghelper regplot REndo reproducer rewie RLRsim
> robustBLME robustlmm rockchalk rosetta rpql rptR rr2 RRreg rsq rstanarm
> rstap rties RVAideMemoire RVFam sae semEff siland simr sjstats skpr
> SlaPMEG smicd SoyNAM SPCDAnalyze specr SPreFuGED squid stability
> standardize statgenGxE statgenSTA StroupGLMM structree Surrogate
> surrosurv swissMrP TcGSA themetagenomics tidygate tidyMicro tramME
> tukeytrend userfriendlyscience varTestnlme VCA VetResearchLMM warpMix
> WebPower welchADF WeMix
> 
> Best regards,
> CRAN teams' auto-check service
> 
> 
> Flavor: r-devel-windows-ix86+x86_64
> Check: CRAN incoming feasibility, Result: NA
>     Maintainer: 'Ben Bolker <bbolker+lme4 using gmail.com>'
> 
> Flavor: r-devel-windows-ix86+x86_64
> Check: Overall checktime, Result: NOTE
>     Overall checktime 23 min > 10 min
> 
> Flavor: r-devel-linux-x86_64-debian-gcc
> Check: CRAN incoming feasibility, Result: Note_to_CRAN_maintainers
>     Maintainer: 'Ben Bolker <bbolker+lme4 using gmail.com>'
> 
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