BioC 2.13: CHECK report for imageHTS on zin1
This page was generated on 2014-04-05 09:47:56 -0700 (Sat, 05 Apr 2014).
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: /home/biocbuild/bbs-2.13-bioc/R/bin/R CMD check --no-vignettes --timings imageHTS_1.12.0.tar.gz |
StartedAt: 2014-04-05 01:57:16 -0700 (Sat, 05 Apr 2014) |
EndedAt: 2014-04-05 02:02:01 -0700 (Sat, 05 Apr 2014) |
EllapsedTime: 285.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: imageHTS.Rcheck |
Warnings: 0 |
Command output
* using log directory ‘/home/biocbuild/bbs-2.13-bioc/meat/imageHTS.Rcheck’
* using R version 3.0.3 (2014-03-06)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘imageHTS’ can be installed ... [21s/21s] 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 ... [96s/97s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
extractFeatures 26.866 0.160 27.139
countObjects 15.501 0.196 15.754
segmentWells 9.233 0.092 9.362
segmentYeastBF 5.584 0.124 5.770
getWellFeatures 5.633 0.000 5.641
fileHTS 3.916 0.008 5.325
* 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
‘/home/biocbuild/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:
name | user | system | elapsed
|
collectCellFeatures | 0.248 | 0.004 | 0.251 |
|
countObjects | 15.501 | 0.196 | 15.754 |
|
extractFeatures | 26.866 | 0.160 | 27.139 |
|
fileHTS | 3.916 | 0.008 | 5.325 |
|
getImageConf | 1.868 | 0.004 | 1.875 |
|
getUnames | 4.752 | 0.000 | 4.760 |
|
getWellFeatures | 5.633 | 0.000 | 5.641 |
|
highlightSegmentation | 0.004 | 0.000 | 0.000 |
|
installCellPicker | 2.924 | 0.008 | 2.938 |
|
makeCellHTS | 0.004 | 0.000 | 0.002 |
|
parseDCF | 0.004 | 0.000 | 0.005 |
|
parseImageConf | 2.004 | 0.008 | 2.052 |
|
popCellPicker | 1.816 | 0.000 | 1.818 |
|
prw2uname | 0.004 | 0.000 | 0.005 |
|
readLearnTS | 0 | 0 | 0 |
|
segmentATH | 0.004 | 0.000 | 0.001 |
|
segmentWells | 9.233 | 0.092 | 9.362 |
|
segmentYeastBF | 5.584 | 0.124 | 5.770 |
|
summarizeWells | 0.000 | 0.004 | 0.003 |
|
zprime | 4.588 | 0.004 | 4.600 |
|