Package: mvGST

Version: 1.13.0

Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --no-vignettes --timings mvGST_1.13.0.tar.gz

StartedAt: 2017-12-05 01:54:32 -0500 (Tue, 05 Dec 2017)

EndedAt: 2017-12-05 01:57:12 -0500 (Tue, 05 Dec 2017)

EllapsedTime: 159.9 seconds

RetCode: 0

Status:  OK

CheckDir: mvGST.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --no-vignettes --timings mvGST_1.13.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.7-bioc/meat/mvGST.Rcheck’
* using R Under development (unstable) (2017-10-20 r73567)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘mvGST/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘mvGST’ version ‘1.13.0’
* 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 ‘mvGST’ 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
* 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
combinePvalues: no visible global function definition for ‘pnorm’
combinePvalues: no visible global function definition for ‘qnorm’
distributeWeight: no visible global function definition for
  ‘flush.console’
hartung: no visible global function definition for ‘qnorm’
hartung: no visible global function definition for ‘pnorm’
interactiveGraph: no visible global function definition for ‘locator’
oneSideBYAdjust: no visible binding for global variable ‘p.adjust’
p.adjust.SFL: no visible global function definition for ‘flush.console’
Undefined global functions or variables:
  flush.console locator p.adjust pnorm qnorm
Consider adding
  importFrom("graphics", "locator")
  importFrom("stats", "p.adjust", "pnorm", "qnorm")
  importFrom("utils", "flush.console")
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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
               user system elapsed
profileTable 35.716   0.02   35.75
* 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-3.7-bioc/meat/mvGST.Rcheck/00check.log’
for details.

* installing *source* package ‘mvGST’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (mvGST)

name	user	system	elapsed
go2Profile	0.556	0.012	0.566
graphCell	3.560	0.044	3.610
mvGST-package	0	0	0
mvGSTsamples	0.440	0.008	0.446
p.adjust.SFL	0.764	0.016	0.806
pickOut	0.900	0.008	0.910
profileTable	35.716	0.020	35.750