Package: TCGAbiolinksGUI

Version: 1.6.1

Command: C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:TCGAbiolinksGUI.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings TCGAbiolinksGUI_1.6.1.tar.gz

StartedAt: 2018-10-17 05:09:55 -0400 (Wed, 17 Oct 2018)

EndedAt: 2018-10-17 05:19:50 -0400 (Wed, 17 Oct 2018)

EllapsedTime: 594.9 seconds

RetCode: 0

Status:  OK

CheckDir: TCGAbiolinksGUI.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:TCGAbiolinksGUI.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings TCGAbiolinksGUI_1.6.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.7-bioc/meat/TCGAbiolinksGUI.Rcheck'
* using R version 3.5.1 Patched (2018-07-24 r75005)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'TCGAbiolinksGUI/DESCRIPTION' ... OK
* this is package 'TCGAbiolinksGUI' version '1.6.1'
* 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 'TCGAbiolinksGUI' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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
* 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 dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
  'DT' 'IlluminaHumanMethylation27kanno.ilmn12.hg19'
  'IlluminaHumanMethylation27kmanifest'
  'IlluminaHumanMethylation450kanno.ilmn12.hg19'
  'IlluminaHumanMethylation450kmanifest'
  'IlluminaHumanMethylationEPICanno.ilm10b2.hg19'
  'IlluminaHumanMethylationEPICmanifest' 'minfi'
  All declared Imports should be used.
Package in Depends field not imported from: 'TCGAbiolinksGUI.data'
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* 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 ... 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 ...
** 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: 2 NOTEs
See
  'C:/Users/biocbuild/bbs-3.7-bioc/meat/TCGAbiolinksGUI.Rcheck/00check.log'
for details.

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/TCGAbiolinksGUI_1.6.1.tar.gz && rm -rf TCGAbiolinksGUI.buildbin-libdir && mkdir TCGAbiolinksGUI.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=TCGAbiolinksGUI.buildbin-libdir TCGAbiolinksGUI_1.6.1.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL TCGAbiolinksGUI_1.6.1.zip && rm TCGAbiolinksGUI_1.6.1.tar.gz TCGAbiolinksGUI_1.6.1.zip
###
##############################################################################
##############################################################################


  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 7162k  100 7162k    0     0  43.1M      0 --:--:-- --:--:-- --:--:-- 45.1M

install for i386

* installing *source* package 'TCGAbiolinksGUI' ...
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'TCGAbiolinksGUI'
    finding HTML links ... done
    TCGAbiolinksGUI                         html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'TCGAbiolinksGUI' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'TCGAbiolinksGUI' as TCGAbiolinksGUI_1.6.1.zip
* DONE (TCGAbiolinksGUI)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'TCGAbiolinksGUI' successfully unpacked and MD5 sums checked
In R CMD INSTALL