Package: EasyqpcR

Version: 1.25.0

Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:EasyqpcR.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings EasyqpcR_1.25.0.tar.gz

StartedAt: 2019-04-09 02:28:08 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 02:29:18 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 69.1 seconds

RetCode: 0

Status:  OK

CheckDir: EasyqpcR.Rcheck

Warnings: 0

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### Running command:
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###   C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:EasyqpcR.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings EasyqpcR_1.25.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/EasyqpcR.Rcheck'
* using R Under development (unstable) (2019-03-09 r76216)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'EasyqpcR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'EasyqpcR' version '1.25.0'
* checking package namespace information ... NOTE
  Namespace with empty importFrom: 'gWidgetsRGtk2'
* 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 'EasyqpcR' can be installed ... OK
* 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
* 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
badCt: no visible global function definition for 'aggregate'
nrmData: no visible global function definition for 'aggregate'
nrmData: no visible binding for global variable 'sd'
slope: no visible global function definition for 'aggregate'
slope: no visible global function definition for 'coef'
slope: no visible global function definition for 'lm'
slope: no visible global function definition for 'combn'
totData: no visible global function definition for 'aggregate'
totData: no visible binding for global variable 'sd'
Undefined global functions or variables:
  aggregate coef combn lm sd
Consider adding
  importFrom("stats", "aggregate", "coef", "lm", "sd")
  importFrom("utils", "combn")
to your NAMESPACE file.
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in Makefiles ... OK
* checking for GNU extensions in Makefiles ... OK
* checking include directives in Makefiles ... OK
* checking files in 'vignettes' ... NOTE
The following files look like leftovers/mistakes:
  'vignette_EasyqpcR.toc'
Please remove them from your package.
* 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: 3 NOTEs
See
  'C:/Users/biocbuild/bbs-3.9-bioc/meat/EasyqpcR.Rcheck/00check.log'
for details.

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/EasyqpcR_1.25.0.tar.gz && rm -rf EasyqpcR.buildbin-libdir && mkdir EasyqpcR.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=EasyqpcR.buildbin-libdir EasyqpcR_1.25.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL EasyqpcR_1.25.0.zip && rm EasyqpcR_1.25.0.tar.gz EasyqpcR_1.25.0.zip
###
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100 1727k  100 1727k    0     0  17.7M      0 --:--:-- --:--:-- --:--:-- 19.1M

install for i386

* installing *source* package 'EasyqpcR' ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'EasyqpcR'
    finding HTML links ... done
    EasyqpcR-package                        html  
    Efficiency_calculation                  html  
    Gene_maximisation                       html  
    Gene_maximisation_cor                   html  
    badCt                                   html  
    calData                                 html  
    nrmData                                 html  
    qPCR_run1                               html  
    qPCR_run2                               html  
    qPCR_run3                               html  
    slope                                   html  
    totData                                 html  
** building package indices
** installing vignettes
** 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

install for x64

* installing *source* package 'EasyqpcR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'EasyqpcR' as EasyqpcR_1.25.0.zip
* DONE (EasyqpcR)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'EasyqpcR' successfully unpacked and MD5 sums checked