Package: ExperimentHubData

Version: 1.4.0

Command: rm -rf ExperimentHubData.buildbin-libdir ExperimentHubData.Rcheck && mkdir ExperimentHubData.buildbin-libdir ExperimentHubData.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ExperimentHubData.buildbin-libdir ExperimentHubData_1.4.0.tar.gz >ExperimentHubData.Rcheck\00install.out 2>&1 && cp ExperimentHubData.Rcheck\00install.out ExperimentHubData-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=ExperimentHubData.buildbin-libdir --install="check:ExperimentHubData-install.out" --force-multiarch --no-vignettes --timings ExperimentHubData_1.4.0.tar.gz

StartedAt: 2018-04-11 23:53:30 -0400 (Wed, 11 Apr 2018)

EndedAt: 2018-04-11 23:58:51 -0400 (Wed, 11 Apr 2018)

EllapsedTime: 321.4 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: ExperimentHubData.Rcheck

Warnings: 1

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### Running command:
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###   rm -rf ExperimentHubData.buildbin-libdir ExperimentHubData.Rcheck && mkdir ExperimentHubData.buildbin-libdir ExperimentHubData.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ExperimentHubData.buildbin-libdir ExperimentHubData_1.4.0.tar.gz >ExperimentHubData.Rcheck\00install.out 2>&1 && cp ExperimentHubData.Rcheck\00install.out ExperimentHubData-install.out  &&  C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=ExperimentHubData.buildbin-libdir --install="check:ExperimentHubData-install.out" --force-multiarch --no-vignettes --timings ExperimentHubData_1.4.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/ExperimentHubData.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ExperimentHubData/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ExperimentHubData' version '1.4.0'
* 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 whether package 'ExperimentHubData' can be installed ... WARNING
Found the following significant warnings:
  Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/Rtmp8A5Boe/R.INSTALLbf4108a7e36/ExperimentHubData/man/addResources.Rd:62: missing file link 'AnnotationHubMetadata'
See 'C:/Users/biocbuild/bbs-3.6-bioc/meat/ExperimentHubData.Rcheck/00install.out' for details.
* 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 R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ... NOTE
makeExperimentHubMetadata: no visible global function definition for
  'readMetadataFromCsv'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'Title'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'Description'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'BiocVersion'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'Genome'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'SourceType'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'SourceUrl'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'SourceVersion'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'Species'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'TaxonomyId'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'Coordinate_1_based'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'DataProvider'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'Maintainer'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'RDataClass'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'RDataDateAdded'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'RDataPath'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'DispatchClass'
makeExperimentHubMetadata : <anonymous>: no visible binding for global
  variable 'PreparerClass'
Undefined global functions or variables:
  BiocVersion Coordinate_1_based DataProvider Description DispatchClass
  Genome Maintainer PreparerClass RDataClass RDataDateAdded RDataPath
  SourceType SourceUrl SourceVersion Species TaxonomyId Title
  readMetadataFromCsv
* checking Rd files ... OK
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... 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, 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.6-bioc/meat/ExperimentHubData.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'ExperimentHubData' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'ExperimentHubData'
    finding HTML links ... done
    ExperimentHubMetadata-class             html  
    addResources                            html  
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/Rtmp8A5Boe/R.INSTALLbf4108a7e36/ExperimentHubData/man/addResources.Rd:62: missing file link 'AnnotationHubMetadata'
    makeExperimentHubMetadata               html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'ExperimentHubData' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ExperimentHubData' as ExperimentHubData_1.4.0.zip
* DONE (ExperimentHubData)
In R CMD INSTALL
In R CMD INSTALL