* using log directory ‘/data/gannet/ripley/R/packages/tests-clang/aroma.core.Rcheck’
* using R Under development (unstable) (2024-05-01 r86507)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    clang version 18.1.4
    flang-new version 18.1.4
* running under: Fedora Linux 36 (Workstation Edition)
* using session charset: UTF-8
* using option ‘--no-stop-on-test-error’
* checking for file ‘aroma.core/DESCRIPTION’ ... OK
* this is package ‘aroma.core’ version ‘3.3.1’
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Packages suggested but not available for checking:
  'sfit', 'expectile', 'HaarSeg', 'mpcbs'
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘aroma.core’ can be installed ... [51s/165s] OK
See 'https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-clang/aroma.core-00install.html' for details.
* checking installed package size ... OK
* checking package 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 use of S3 registration ... 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 ... [120s/352s] OK
* checking Rd files ... [3s/19s] OK
* checking Rd metadata ... OK
* checking Rd line widths ... 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 examples ... [10s/41s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... [38s/103s] OK
  Running ‘PairedPSCNData,SEG.R’
  Running ‘PairedPSCNData.R’
  Running ‘RawCopyNumbers,states.R’
  Running ‘RawCopyNumbers.R’
  Running ‘RawGenomicSignals.R’
  Running ‘RawGenomicSignals.SEG,MP.R’
  Running ‘RawGenomicSignals.SEG.R’
  Running ‘RichDataFrame.R’
  Running ‘SegmentedCopyNumbers.R’ [4s/14s]
  Running ‘aromaSettings.R’
  Running ‘binScatter.R’
  Running ‘colBinnedSmoothing.R’
  Running ‘colKernelSmoothing.R’
  Running ‘fitGenotypeCone.R’
  Running ‘fitMultiDimensionalCone.R’
  Running ‘matrixBlockPolish.R’
  Running ‘mergeBoxplotStats.R’
* checking PDF version of manual ... [27s/93s] OK
* checking HTML version of manual ... [14s/31s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 1 NOTE