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BioC 2.13: CHECK report for imageHTS on moscato1

This page was generated on 2014-04-05 09:50:08 -0700 (Sat, 05 Apr 2014).

Package 368/750HostnameOS / ArchBUILDCHECKBUILD BIN
imageHTS 1.12.0
Gregoire Pau
Snapshot Date: 2014-04-04 16:20:29 -0700 (Fri, 04 Apr 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_13/madman/Rpacks/imageHTS
Last Changed Rev: 81642 / Revision: 88450
Last Changed Date: 2013-10-14 14:29:21 -0700 (Mon, 14 Oct 2013)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ OK ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 

Summary

Package: imageHTS
Version: 1.12.0
Command: D:\biocbld\bbs-2.13-bioc\R\bin\R.exe --arch i386 CMD check --no-multiarch --no-vignettes --timings imageHTS_1.12.0.tar.gz
StartedAt: 2014-04-05 04:40:40 -0700 (Sat, 05 Apr 2014)
EndedAt: 2014-04-05 04:46:25 -0700 (Sat, 05 Apr 2014)
EllapsedTime: 345.9 seconds
RetCode: 0
Status:  OK  
CheckDir: imageHTS.Rcheck
Warnings: 0

Command output

* using log directory 'D:/biocbld/bbs-2.13-bioc/meat/imageHTS.Rcheck'
* using R version 3.0.3 (2014-03-06)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'imageHTS/DESCRIPTION' ... OK
* this is package 'imageHTS' version '1.12.0'
* 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 ... NOTE
Found the following hidden files and directories:
  .BBSoptions
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking whether package 'imageHTS' can be installed ... [27s] 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 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 ... OK
* 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 for old-style vignette sources ... NOTE
Vignette sources only in 'inst/doc':
  'imageHTS-introduction.Rnw'
A 'vignettes' directory will be required as from R 3.1.0
* checking examples ... [113s] OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
extractFeatures 34.87   0.96   36.29
countObjects    17.85   0.78   19.06
segmentWells     9.62   0.47   10.09
getWellFeatures  5.80   0.03    5.86
segmentYeastBF   5.12   0.17    5.29
getUnames        5.01   0.05    5.06
fileHTS          3.82   0.00    5.27
* 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

NOTE: There were 2 notes.
See
  'D:/biocbld/bbs-2.13-bioc/meat/imageHTS.Rcheck/00check.log'
for details.

imageHTS.Rcheck/00install.out:

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

imageHTS.Rcheck/imageHTS-Ex.timings:

nameusersystemelapsed
collectCellFeatures0.190.000.18
countObjects17.85 0.7819.06
extractFeatures34.87 0.9636.29
fileHTS3.820.005.27
getImageConf1.90.01.9
getUnames5.010.055.06
getWellFeatures5.800.035.86
highlightSegmentation000
installCellPicker2.830.012.85
makeCellHTS0.010.000.02
parseDCF000
parseImageConf1.870.021.89
popCellPicker1.830.001.82
prw2uname000
readLearnTS000
segmentATH000
segmentWells 9.62 0.4710.09
segmentYeastBF5.120.175.29
summarizeWells000
zprime4.590.004.59