##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:curatedPCaData.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings curatedPCaData_1.2.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.20-data-experiment/meat/curatedPCaData.Rcheck’
* using R version 4.4.3 (2025-02-28)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.2 LTS
* using session charset: UTF-8
* checking for file ‘curatedPCaData/DESCRIPTION’ ... OK
* this is package ‘curatedPCaData’ version ‘1.2.0’
* 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 ‘curatedPCaData’ 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 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking R/sysdata.rda ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                   user system elapsed
getPCaSummaryStudies            194.258  5.167 216.816
getPCaSummarySurv                25.863  0.745  28.875
getPCaSummaryTable               25.319  0.736  28.235
getPCaSummarySamples             25.290  0.704  28.280
curatedPCaDatasets_abida         17.819  0.793  19.751
curatedPCaDatasets_taylor        14.979  0.396  16.511
getPCa                           13.740  0.455  15.362
curatedPCaDatasets_tcga          13.744  0.431  15.245
curatedPCaDatasets_barbieri      12.821  1.050  14.932
curatedPCaDatasets_ren           12.909  0.369  14.325
curatedPCaDatasets_sun           11.243  0.339  12.768
curatedPCaDatasets_kunderfranco  11.107  0.332  12.350
curatedPCaDatasets_friedrich     10.899  0.333  12.138
curatedPCaDatasets_weiner        10.837  0.382  12.154
curatedPCaDatasets_kim           10.806  0.280  12.049
curatedPCaDatasets_igc           10.664  0.367  11.936
curatedPCaDatasets_icgcca        10.729  0.296  11.951
curatedPCaDatasets_wallace       10.480  0.324  12.272
curatedPCaDatasets_chandran       9.984  0.365  11.253
curatedPCaDatasets_wang           9.862  0.283  11.082
curatedPCaDatasets_true           8.869  0.280   9.966
curatedPCaDatasets_barwick        8.280  0.328   9.352
curatedPCaDatasets_baca           4.700  0.625   5.799
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘native_tests.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK