BioC 3.3: CHECK report for Polyfit on windows2.bioconductor.org

Package: Polyfit

Version: 1.5.0

Command: rm -rf Polyfit.buildbin-libdir Polyfit.Rcheck && mkdir Polyfit.buildbin-libdir Polyfit.Rcheck && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=Polyfit.buildbin-libdir Polyfit_1.5.0.tar.gz >Polyfit.Rcheck\00install.out 2>&1 && cp Polyfit.Rcheck\00install.out Polyfit-install.out && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=Polyfit.buildbin-libdir --install="check:Polyfit-install.out" --force-multiarch --no-vignettes --timings Polyfit_1.5.0.tar.gz

StartedAt: 2015-10-27 05:04:20 -0400 (Tue, 27 Oct 2015)

EndedAt: 2015-10-27 05:07:59 -0400 (Tue, 27 Oct 2015)

EllapsedTime: 219.0 seconds

RetCode: 0

Status:  OK

CheckDir: Polyfit.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf Polyfit.buildbin-libdir Polyfit.Rcheck && mkdir Polyfit.buildbin-libdir Polyfit.Rcheck && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=Polyfit.buildbin-libdir Polyfit_1.5.0.tar.gz >Polyfit.Rcheck\00install.out 2>&1 && cp Polyfit.Rcheck\00install.out Polyfit-install.out  && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=Polyfit.buildbin-libdir --install="check:Polyfit-install.out" --force-multiarch --no-vignettes --timings Polyfit_1.5.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'c:/biocbld/bbs-3.3-bioc/meat/Polyfit.Rcheck'
* using R Under development (unstable) (2015-09-22 r69418)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Polyfit/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'Polyfit' version '1.5.0'
* 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 'Polyfit' 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
** 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
pfNbinomTest: no visible global function definition for 'fData'
Undefined global functions or variables:
  fData
* 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' ... [70s] OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
pfNbinomTest    31.86   0.00   31.85
Polyfit-package 18.01   0.00   18.02
levelPValues    16.69   0.02   16.72
** running examples for arch 'x64' ... [67s] OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
pfNbinomTest    30.23   0.00   30.24
Polyfit-package 16.68   0.01   16.70
levelPValues    15.99   0.00   15.98
* 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 NOTE
See
  'c:/biocbld/bbs-3.3-bioc/meat/Polyfit.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'Polyfit' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'Polyfit' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Polyfit' as Polyfit_1.5.0.zip
* DONE (Polyfit)

name	user	system	elapsed
Polyfit-package	18.01	0.00	18.02
levelPValues	16.69	0.02	16.72
pfNbinomTest	31.86	0.00	31.85
twoSidedPValueFromDiscrete	0.55	0.00	0.55

name	user	system	elapsed
Polyfit-package	16.68	0.01	16.70
levelPValues	15.99	0.00	15.98
pfNbinomTest	30.23	0.00	30.24
twoSidedPValueFromDiscrete	0.64	0.00	0.64