BioC 3.1: CHECK report for flowFit on zin2

Package: flowFit

Version: 1.6.0

Command: /home/biocbuild/bbs-3.1-bioc/R/bin/R CMD check --no-vignettes --timings flowFit_1.6.0.tar.gz

StartedAt: 2015-10-09 01:11:12 -0700 (Fri, 09 Oct 2015)

EndedAt: 2015-10-09 01:12:29 -0700 (Fri, 09 Oct 2015)

EllapsedTime: 76.8 seconds

RetCode: 0

Status:  OK

CheckDir: flowFit.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.1-bioc/R/bin/R CMD check --no-vignettes --timings flowFit_1.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.1-bioc/meat/flowFit.Rcheck’
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-pc-linux-gnu (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 ‘1.6.0’
* 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 ... [4s/5s] 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 ... [23s/25s] OK
Examples with CPU or elapsed time > 5s
                       user system elapsed
flowFit-package      11.641  0.001  12.497
proliferationFitting  7.742  0.016   8.282
* 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-3.1-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	11.641	0.001	12.497
generationsDistance	0.001	0.000	0.000
getGenerations	0.584	0.000	0.614
logTicks	0.042	0.000	0.044
parentFitting	0.531	0.004	0.629
parentFittingData-class	0.054	0.008	0.062
proliferationFitting	7.742	0.016	8.282
proliferationFittingData-class	0.491	0.000	0.612
proliferationGrid	0.003	0.000	0.003
proliferationIndex	0.378	0.004	0.395