BioC 3.3: CHECK report for Polyfit on linux2.bioconductor.org

Package: Polyfit

Version: 1.5.0

Command: /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings Polyfit_1.5.0.tar.gz

StartedAt: 2015-10-27 06:50:20 -0400 (Tue, 27 Oct 2015)

EndedAt: 2015-10-27 06:52:38 -0400 (Tue, 27 Oct 2015)

EllapsedTime: 137.2 seconds

RetCode: 0

Status:  OK

CheckDir: Polyfit.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings Polyfit_1.5.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.3-bioc/meat/Polyfit.Rcheck’
* using R Under development (unstable) (2015-09-09 r69333)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘Polyfit’ can be installed ... [6s/6s] 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
* 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 ... [76s/76s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
pfNbinomTest    35.588  0.000  35.636
Polyfit-package 18.979  0.016  19.018
levelPValues    17.728  0.024  17.774
* 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
  ‘/home/biocbuild/bbs-3.3-bioc/meat/Polyfit.Rcheck/00check.log’
for details.

* 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
* DONE (Polyfit)

name	user	system	elapsed
Polyfit-package	18.979	0.016	19.018
levelPValues	17.728	0.024	17.774
pfNbinomTest	35.588	0.000	35.636
twoSidedPValueFromDiscrete	0.491	0.000	0.492