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### Running command:
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###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:topdownrdata.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings topdownrdata_1.29.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.21-data-experiment/meat/topdownrdata.Rcheck’
* using R Under development (unstable) (2024-10-21 r87258)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
    GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘topdownrdata/DESCRIPTION’ ... OK
* this is package ‘topdownrdata’ version ‘1.29.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 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 ... NOTE
Found the following non-portable file paths:
  topdownrdata/inst/extdata/20170629_myo/experiments/myo_1211_ETDReagentTarget_1e6_1.experiments.csv.gz
  topdownrdata/inst/extdata/20170629_myo/experiments/myo_1211_ETDReagentTarget_1e6_2.experiments.csv.gz
  topdownrdata/inst/extdata/20170629_myo/experiments/myo_1211_ETDReagentTarget_1e7_1.experiments.csv.gz
  topdownrdata/inst/extdata/20170629_myo/experiments/myo_1211_ETDReagentTarget_1e7_2.experiments.csv.gz
  topdownrdata/inst/extdata/20170629_myo/experiments/myo_1211_ETDReagentTarget_5e6_1.experiments.csv.gz
  topdownrdata/inst/extdata/20170629_myo/experiments/myo_1211_ETDReagentTarget_5e6_2.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_563_ETDReagentTarget_1e6_1.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_563_ETDReagentTarget_1e6_2.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_563_ETDReagentTarget_1e7_1.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_563_ETDReagentTarget_1e7_2.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_563_ETDReagentTarget_5e6_1.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_563_ETDReagentTarget_5e6_2.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_691_ETDReagentTarget_1e6_1.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_691_ETDReagentTarget_1e6_2.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_691_ETDReagentTarget_1e7_1.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_691_ETDReagentTarget_1e7_2.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_691_ETDReagentTarget_5e6_1.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_691_ETDReagentTarget_5e6_2.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_894_ETDReagentTarget_1e6_1.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_894_ETDReagentTarget_1e6_2.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_894_ETDReagentTarget_1e7_1.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_894_ETDReagentTarget_1e7_2.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_894_ETDReagentTarget_5e6_1.experiments.csv.gz
  topdownrdata/inst/extdata/20170705_h3_3/experiments/h3_3_894_ETDReagentTarget_5e6_2.experiments.csv.gz

Tarballs are only required to store paths of up to 100 bytes and cannot
store those of more than 256 bytes, with restrictions including to 100
bytes for the final component.
See section ‘Package structure’ in the ‘Writing R Extensions’ manual.
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘topdownrdata’ can be installed ... OK
* checking installed package size ... INFO
  installed size is 103.0Mb
  sub-directories of 1Mb or more:
    extdata  102.9Mb
* 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 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:
  topdownrdata-package.Rd: topdownr-package
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 examples ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.21-data-experiment/meat/topdownrdata.Rcheck/00check.log’
for details.

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### Running command:
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###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL topdownrdata
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* installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’
* installing *source* package ‘topdownrdata’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (topdownrdata)