############################################################################## ############################################################################## ### ### 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_1.27.1.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 ‘1.27.1’ * 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 41.006 0.561 43.624 inferSex 25.096 0.207 25.926 imputeBetas 23.259 0.783 25.688 sesameQC_calcStats 22.310 0.758 24.564 sesameQC_plotHeatSNPs 20.017 0.395 20.594 inferSpecies 17.877 0.750 18.750 ELBAR 17.243 0.136 17.716 compareMouseStrainReference 16.327 0.128 16.528 diffRefSet 16.038 0.187 16.301 matchDesign 16.076 0.099 16.899 compareReference 13.976 0.171 14.276 sesameQC_plotBetaByDesign 13.070 0.371 13.630 getRefSet 12.816 0.066 13.850 sesameQC_plotBar 12.061 0.402 12.561 DMR 10.417 0.166 10.917 visualizeGene 9.427 0.195 9.798 DML 8.648 0.251 8.966 inferStrain 8.444 0.354 9.495 sdf_read_table 8.253 0.140 8.448 inferTissue 7.690 0.075 8.270 dyeBiasNL 7.549 0.079 7.689 deIdentify 7.379 0.064 7.545 dyeBiasCorrMostBalanced 7.189 0.219 7.507 estimateLeukocyte 7.138 0.143 7.472 getMask 7.006 0.139 8.790 createUCSCtrack 6.026 0.108 6.172 openSesame 5.904 0.111 6.803 reIdentify 5.949 0.056 6.017 probeSuccessRate 5.640 0.130 5.796 bisConversionControl 5.032 0.064 5.418 * 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