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### Running command:
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###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:curatedPCaData.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings curatedPCaData_1.5.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.22-data-experiment/meat/curatedPCaData.Rcheck’
* using R version 4.5.1 Patched (2025-08-23 r88802)
* 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 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘curatedPCaData/DESCRIPTION’ ... OK
* this is package ‘curatedPCaData’ version ‘1.5.0’
* 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 ... NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
  getPCa.Rd: MultiAssayExperiment-class
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
* 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            199.762  6.258 224.192
getPCaSummarySamples             26.594  0.971  30.494
getPCaSummarySurv                26.604  0.825  30.553
getPCaSummaryTable               26.413  0.839  30.300
curatedPCaDatasets_abida         16.966  0.921  18.970
curatedPCaDatasets_taylor        15.965  0.498  17.719
curatedPCaDatasets_tcga          14.160  0.786  15.927
getPCa                           14.064  0.690  16.092
curatedPCaDatasets_ren           13.583  0.627  15.553
curatedPCaDatasets_barbieri      13.312  0.811  15.215
curatedPCaDatasets_friedrich     11.285  1.594  13.916
curatedPCaDatasets_sun           12.407  0.415  13.671
curatedPCaDatasets_icgcca        11.549  1.137  13.764
curatedPCaDatasets_kunderfranco  11.536  0.492  13.067
curatedPCaDatasets_igc           11.116  0.760  13.200
curatedPCaDatasets_chandran      10.734  1.123  12.759
curatedPCaDatasets_kim           11.265  0.456  13.025
curatedPCaDatasets_weiner        11.016  0.646  12.984
curatedPCaDatasets_wallace       11.031  0.347  12.343
curatedPCaDatasets_wang          10.185  0.455  12.539
curatedPCaDatasets_true           9.382  0.252  10.427
curatedPCaDatasets_barwick        8.269  0.480   9.843
curatedPCaDatasets_baca           4.725  0.372   5.615
* 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: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.22-data-experiment/meat/curatedPCaData.Rcheck/00check.log’
for details.