############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:sesame.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings sesame_1.24.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/sesame.Rcheck’ * using R version 4.4.3 (2025-02-28) * using platform: aarch64-unknown-linux-gnu * R was compiled by aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0 GNU Fortran (GCC) 14.2.0 * running under: openEuler 24.03 (LTS) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘sesame/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘sesame’ version ‘1.24.0’ * 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 hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘sesame’ can be installed ... OK * checking installed package size ... 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 ... 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 whether startup messages can be suppressed ... 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 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed testEnrichmentGene 41.449 1.007 48.627 imputeBetasByGenomicNeighbors 40.497 0.704 44.518 inferSex 24.890 0.183 27.917 imputeBetas 22.873 0.531 29.103 sesameQC_calcStats 23.026 0.166 24.872 KYCG_plotMeta 22.655 0.184 23.934 sesameQC_plotHeatSNPs 20.576 0.116 23.088 KYCG_plotEnrichAll 19.943 0.486 22.333 inferSpecies 16.202 0.585 19.790 ELBAR 15.948 0.259 17.321 compareMouseStrainReference 16.080 0.088 17.696 matchDesign 15.918 0.099 18.151 compareReference 13.831 0.243 15.783 KYCG_annoProbes 13.397 0.231 15.468 diffRefSet 12.913 0.318 14.745 sesameQC_plotBetaByDesign 13.075 0.143 14.848 KYCG_plotMetaEnrichment 12.348 0.199 13.888 sesameQC_plotBar 11.948 0.274 12.772 getRefSet 11.536 0.143 12.540 testEnrichmentSEA 11.277 0.212 12.711 KYCG_buildGeneDBs 10.212 0.319 12.105 visualizeGene 9.483 0.195 11.175 DML 9.042 0.330 10.556 DMR 8.854 0.265 9.819 inferStrain 8.595 0.323 9.565 sdf_read_table 8.382 0.116 9.771 estimateLeukocyte 7.781 0.203 8.871 dbStats 7.383 0.227 8.468 inferTissue 7.294 0.219 8.256 getMask 7.008 0.154 8.591 KYCG_plotSetEnrichment 7.000 0.152 8.049 dyeBiasNL 6.800 0.080 8.312 deidentify 6.784 0.055 7.496 openSesame 6.118 0.215 7.878 dyeBiasCorrMostBalanced 6.052 0.239 7.450 createUCSCtrack 5.991 0.131 6.567 probeSuccessRate 5.836 0.064 6.035 reIdentify 5.695 0.055 6.421 testEnrichment 5.356 0.159 6.466 updateSigDF 5.198 0.140 5.671 bisConversionControl 5.028 0.155 5.937 sesameQC_rankStats 4.150 0.193 5.192 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: OK