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### Running command:
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###   /home/biocbuild/R/R/bin/R CMD check --install=check:kebabs.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings kebabs_1.41.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/kebabs.Rcheck’
* using R Under development (unstable) (2024-11-24 r87369)
* 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 ‘kebabs/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘kebabs’ version ‘1.41.0’
* 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 ‘kebabs’ can be installed ... WARNING
Found the following significant warnings:
  svm.cpp:42:38: warning: argument 1 range [18446744056529682432, 18446744073709551608] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=]
See ‘/home/biocbuild/bbs-3.21-bioc/meat/kebabs.Rcheck/00install.out’ for details.
* used C compiler: ‘aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0’
* used C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
* checking installed package size ... INFO
  installed size is 11.4Mb
  sub-directories of 1Mb or more:
    R      1.5Mb
    data   1.2Mb
    libs   8.2Mb
* 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 ... NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
  BioVector-class.Rd: XStringSet-class
  BioVector.Rd: XStringSet, metadata, mcols, elementMetadata,
    DNAStringSet, RNAStringSet, AAStringSet
  ExplicitRepresentation-class.Rd: dgRMatrix-class
  LinearKernel.Rd: dgCMatrix-class
  annotationSpecificKernel.Rd: DNAStringSet-class, RNAStringSet-class,
    AAStringSet-class, mcols, metadata
  explicitRepresentation.Rd: DNAStringSet-class, RNAStringSet-class,
    AAStringSet-class
  gappyPairKernel.Rd: DNAStringSet-class, RNAStringSet-class,
    AAStringSet-class
  getPredProfMixture-methods.Rd: DNAString-class, RNAString-class,
    AAString-class, DNAStringSet-class, RNAStringSet-class,
    AAStringSet-class
  getPredictionProfile-methods.Rd: DNAString-class, RNAString-class,
    AAString-class, DNAStringSet-class, RNAStringSet-class,
    AAStringSet-class
  kbsvm-methods.Rd: DNAStringSet-class, RNAStringSet-class,
    AAStringSet-class, DNAStringSet, RNAStringSet, AAStringSet,
    XStringSet-class
  mismatchKernel.Rd: DNAStringSet-class, RNAStringSet-class,
    AAStringSet-class
  motifKernel.Rd: DNAStringSet-class, RNAStringSet-class,
    AAStringSet-class
  plot-methods.Rd: mcols
  positionDependentKernel.Rd: DNAStringSet-class, RNAStringSet-class,
    AAStringSet-class, metadata, mcols
  predict-methods.Rd: DNAStringSet-class, RNAStringSet-class,
    AAStringSet-class
  sequenceKernel.Rd: DNAStringSet-class, RNAStringSet-class,
    AAStringSet-class
  spectrumKernel.Rd: DNAStringSet-class, RNAStringSet-class,
    AAStringSet-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 line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... 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
performModelSelection 8.721   0.00   8.737
LinearKernel          7.450   0.02   7.485
* 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: 1 WARNING, 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.21-bioc/meat/kebabs.Rcheck/00check.log’
for details.