############################################################################## ############################################################################## ### ### 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_1.28.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/sesame.Rcheck’ * using R version 4.5.0 (2025-04-11) * 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 ‘1.28.0’ * 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 imputeBetasByGenomicNeighbors 40.492 0.630 58.056 inferSex 26.374 0.218 33.011 imputeBetas 24.418 0.672 35.216 sesameQC_calcStats 23.802 0.110 26.989 sesameQC_plotHeatSNPs 23.190 0.183 31.601 inferSpecies 18.951 0.751 24.621 ELBAR 17.765 0.147 26.230 compareMouseStrainReference 17.001 0.249 19.596 diffRefSet 16.462 0.309 20.517 matchDesign 16.077 0.168 21.549 compareReference 14.266 0.220 17.837 sesameQC_plotBar 13.318 0.315 17.968 sesameQC_plotBetaByDesign 13.039 0.095 17.225 getRefSet 12.759 0.217 14.112 DMR 10.729 0.389 11.995 visualizeGene 9.695 0.322 13.791 inferStrain 8.889 0.336 10.559 DML 8.597 0.391 9.509 sdf_read_table 8.295 0.217 9.691 inferTissue 8.115 0.115 9.679 dyeBiasCorrMostBalanced 7.621 0.215 8.185 deIdentify 7.569 0.092 9.675 estimateLeukocyte 6.918 0.135 10.632 getMask 6.874 0.168 9.453 createUCSCtrack 6.605 0.183 9.399 dyeBiasNL 6.595 0.056 11.212 reIdentify 6.268 0.095 7.881 openSesame 5.692 0.167 6.589 probeSuccessRate 5.662 0.110 8.122 prepSesame 5.497 0.139 6.912 bisConversionControl 4.948 0.137 6.145 checkLevels 4.361 0.159 5.381 scrubSoft 4.237 0.036 5.631 * 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