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BioC 3.2: CHECK report for flowFit on zin1

This page was generated on 2016-04-23 10:13:04 -0700 (Sat, 23 Apr 2016).

Package 357/1103HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flowFit 1.8.0
Davide Rambaldi
Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/flowFit
Last Changed Rev: 109589 / Revision: 116712
Last Changed Date: 2015-10-13 12:36:05 -0700 (Tue, 13 Oct 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK [ OK ]UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Standard (64-bit) / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: flowFit
Version: 1.8.0
Command: /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings flowFit_1.8.0.tar.gz
StartedAt: 2016-04-23 00:39:12 -0700 (Sat, 23 Apr 2016)
EndedAt: 2016-04-23 00:40:21 -0700 (Sat, 23 Apr 2016)
EllapsedTime: 69.5 seconds
RetCode: 0
Status:  OK 
CheckDir: flowFit.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings flowFit_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.2-bioc/meat/flowFit.Rcheck’
* using R version 3.2.4 Revised (2016-03-16 r70336)
* 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 ‘1.8.0’
* 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 ... [4s/4s] 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 ... [24s/24s] OK
Examples with CPU or elapsed time > 5s
                       user system elapsed
flowFit-package      11.825  0.020  11.862
proliferationFitting  8.099  0.016   8.109
* 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-3.2-bioc/meat/flowFit.Rcheck/00check.log’
for details.


flowFit.Rcheck/00install.out:

* 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)

flowFit.Rcheck/flowFit-Ex.timings:

nameusersystemelapsed
flowFit-package11.825 0.02011.862
generationsDistance000
getGenerations0.5500.0040.554
logTicks0.0450.0000.044
parentFitting0.5430.0080.551
parentFittingData-class0.0560.0040.059
proliferationFitting8.0990.0168.109
proliferationFittingData-class0.4680.0000.468
proliferationGrid0.0030.0000.002
proliferationIndex0.3860.0000.387