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### Running command:
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###   /home/biocbuild/bbs-3.18-bioc/R/bin/R CMD check --install=check:AnnotationDbi.install-out.txt --library=/home/biocbuild/bbs-3.18-bioc/R/site-library --timings AnnotationDbi_1.64.1.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/AnnotationDbi.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘AnnotationDbi/DESCRIPTION’ ... OK
* this is package ‘AnnotationDbi’ version ‘1.64.1’
* 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 ‘AnnotationDbi’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  8.3Mb
  sub-directories of 1Mb or more:
    R         1.1Mb
    extdata   6.0Mb
* 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 dependencies in R code ... NOTE
Unexported object imported by a ':::' call: ‘BiocGenerics:::testPackage’
  See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
createORGANISMSeeds: no visible global function definition for
  ‘makeAnnDbMapSeeds’
Undefined global functions or variables:
  makeAnnDbMapSeeds
* checking Rd files ... WARNING
checkRd: (5) AnnDbObj-class.Rd:58-61: \item in \describe must have non-empty label
checkRd: (5) AnnDbObj-class.Rd:64-68: \item in \describe must have non-empty label
checkRd: (5) AnnDbObj-class.Rd:71-75: \item in \describe must have non-empty label
checkRd: (5) AnnDbObj-class.Rd:78-89: \item in \describe must have non-empty label
checkRd: (5) AnnDbObj-class.Rd:92-96: \item in \describe must have non-empty label
checkRd: (5) Bimap.Rd:79-82: \item in \describe must have non-empty label
checkRd: (5) Bimap.Rd:84-87: \item in \describe must have non-empty label
checkRd: (-1) inpIDMapper.Rd:91: Escaped LaTeX specials: \#
checkRd: (-1) inpIDMapper.Rd:95: Escaped LaTeX specials: \#
checkRd: (-1) inpIDMapper.Rd:99: Escaped LaTeX specials: \#
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                    user system elapsed
AnnDbPkg-checker  38.288   0.86  39.903
organismKEGGFrame  0.166   0.00   5.948
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘AnnotationDbi_unit_tests.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
  ‘AnnotationDbi.Rnw’ using ‘UTF-8’... OK
  ‘IntroToAnnotationPackages.Rnw’ using ‘UTF-8’... OK
 OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.18-bioc/meat/AnnotationDbi.Rcheck/00check.log’
for details.