############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.3.1/bin/R CMD check --install=check:FlowSOM.install-out.txt --library=/home/biocbuild/R/R-4.3.1/site-library --no-vignettes --timings FlowSOM_2.10.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/FlowSOM.Rcheck’ * using R version 4.3.1 (2023-06-16) * using platform: aarch64-unknown-linux-gnu (64-bit) * R was compiled by gcc (GCC) 10.3.1 GNU Fortran (GCC) 10.3.1 * running under: openEuler 22.03 (LTS-SP1) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘FlowSOM/DESCRIPTION’ ... OK * this is package ‘FlowSOM’ version ‘2.10.0’ * 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 ‘FlowSOM’ can be installed ... OK * used C compiler: ‘gcc (GCC) 10.3.1’ * 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 R 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 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 line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed PlotDimRed 82.201 1.603 86.084 FlowSOMmary 79.721 0.295 80.029 PlotOutliers 22.492 0.048 22.591 UpdateMetaclusters 22.286 0.068 22.405 PlotMarker 22.055 0.053 22.152 PlotStars 18.755 0.024 18.819 GroupStats 16.962 0.060 17.062 FlowSOM 16.697 0.024 16.756 PlotGroups 15.883 0.056 15.972 QueryMultiple 11.680 1.095 13.509 AddAnnotation 12.395 0.272 12.698 query_multiple 11.686 0.060 11.772 PlotManualBars 11.204 0.041 11.272 Plot2DScatters 10.862 0.056 11.041 GetFlowJoLabels 9.954 0.120 10.102 PlotNode 9.672 0.032 9.723 CountGroups 9.313 0.079 9.412 PlotPies 9.341 0.024 9.384 PlotNumbers 9.260 0.068 9.349 PlotVariable 9.046 0.019 9.113 QueryStarPlot 8.954 0.035 9.033 UpdateNodeSize 8.289 0.064 8.373 SaveClustersToFCS 8.157 0.035 8.212 PlotFlowSOM 8.023 0.048 8.097 GetMetaclusterMFIs 7.213 0.785 8.675 GetFeatures 7.591 0.004 7.611 NClusters 7.516 0.020 7.553 MetaclusterMFIs 7.186 0.088 7.294 PlotLabels 7.217 0.016 7.253 NMetaclusters 7.182 0.019 7.216 GetMetaclusterPercentagesPositive 6.816 0.171 7.026 GetMetaclusterCVs 6.878 0.008 6.910 TestOutliers 6.794 0.024 6.833 GetMFIs 6.413 0.040 6.468 PlotOverview2D 6.410 0.040 6.462 MetaclusterCVs 6.395 0.052 6.460 GetPercentages 6.397 0.008 6.425 GetMetaclusters 6.307 0.016 6.339 print.FlowSOM 6.230 0.024 6.269 GetCounts 6.155 0.016 6.181 GetClusterMFIs 5.913 0.080 6.020 GetClusterPercentagesPositive 5.862 0.024 5.899 FlowSOMSubset 5.800 0.032 5.845 GetClusters 5.824 0.008 5.844 NewData 5.265 0.112 5.387 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.18-bioc/meat/FlowSOM.Rcheck/00check.log’ for details.