BioC 3.2: CHECK report for flowFit on oaxaca

Package: flowFit

Version: 1.8.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings flowFit_1.8.0.tar.gz

StartedAt: 2016-04-23 00:08:18 -0700 (Sat, 23 Apr 2016)

EndedAt: 2016-04-23 00:09:38 -0700 (Sat, 23 Apr 2016)

EllapsedTime: 80.1 seconds

RetCode: 0

Status:  OK

CheckDir: flowFit.Rcheck

Warnings: 0

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings flowFit_1.8.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.2-bioc/meat/flowFit.Rcheck’
* using R version 3.2.4 (2016-03-10)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowFit/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘flowFit’ version ‘1.8.0’
* 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 ‘flowFit’ 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
plot,parentFittingData-ANY : .local: warning in axis(1, .ticks$all,
  label = FALSE): partial argument match of 'label' to 'labels'
plot,proliferationFittingData-ANY : .local: warning in axis(1,
  .ticks$all, label = FALSE): partial argument match of 'label' to
  'labels'
plot,parentFittingData-ANY : .local: no visible binding for global
  variable ‘black’
plot,proliferationFittingData-ANY : .local: no visible binding for
  global variable ‘black’
* 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [16s/16s] OK
Examples with CPU or elapsed time > 5s
                      user system elapsed
flowFit-package      5.857  0.092   6.049
proliferationFitting 5.234  0.128   5.459
* 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
  ‘/Users/biocbuild/bbs-3.2-bioc/meat/flowFit.Rcheck/00check.log’
for details.

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

name	user	system	elapsed
flowFit-package	5.857	0.092	6.049
generationsDistance	0.001	0.000	0.000
getGenerations	0.543	0.013	0.557
logTicks	0.054	0.006	0.060
parentFitting	0.604	0.019	0.624
parentFittingData-class	0.071	0.006	0.078
proliferationFitting	5.234	0.128	5.459
proliferationFittingData-class	0.344	0.019	0.366
proliferationGrid	0.004	0.001	0.011
proliferationIndex	0.293	0.017	0.310