BioC 3.1: CHECK report for imageHTS on zin2
This page was generated on 2015-10-09 09:24:04 -0700 (Fri, 09 Oct 2015).
imageHTS 1.18.2 Joseph Barry
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015) | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/imageHTS | Last Changed Rev: 107850 / Revision: 109384 | Last Changed Date: 2015-08-27 14:23:24 -0700 (Thu, 27 Aug 2015) |
| zin2 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | OK | OK | [ OK ] | |  |
moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK | OK |  |
petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | OK | OK |  |
morelia | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | OK | OK |  |
Summary
Package: imageHTS |
Version: 1.18.2 |
Command: /home/biocbuild/bbs-3.1-bioc/R/bin/R CMD check --no-vignettes --timings imageHTS_1.18.2.tar.gz |
StartedAt: 2015-10-09 02:41:38 -0700 (Fri, 09 Oct 2015) |
EndedAt: 2015-10-09 02:45:09 -0700 (Fri, 09 Oct 2015) |
EllapsedTime: 210.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: imageHTS.Rcheck |
Warnings: 0 |
Command output
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### Running command:
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### /home/biocbuild/bbs-3.1-bioc/R/bin/R CMD check --no-vignettes --timings imageHTS_1.18.2.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.1-bioc/meat/imageHTS.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 ‘imageHTS/DESCRIPTION’ ... OK
* this is package ‘imageHTS’ version ‘1.18.2’
* 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 ... [13s/14s] 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [63s/71s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
extractFeatures 18.783 0.076 20.966
countObjects 10.540 0.080 12.087
segmentWells 6.268 0.004 7.193
* 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/imageHTS.Rcheck/00check.log’
for details.
imageHTS.Rcheck/00install.out:
* installing *source* package ‘imageHTS’ ...
** R
** inst
** preparing package for lazy loading
Creating a generic function for ‘nchar’ from package ‘base’ in package ‘S4Vectors’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Creating a generic function for ‘nchar’ from package ‘base’ in package ‘S4Vectors’
* DONE (imageHTS)
imageHTS.Rcheck/imageHTS-Ex.timings:
name | user | system | elapsed
|
collectCellFeatures | 0.000 | 0.000 | 0.001 |
|
countObjects | 10.540 | 0.080 | 12.087 |
|
extractFeatures | 18.783 | 0.076 | 20.966 |
|
fileHTS | 2.579 | 0.001 | 3.502 |
|
getImageConf | 1.327 | 0.074 | 1.534 |
|
getUnames | 3.186 | 0.016 | 3.372 |
|
getWellFeatures | 4.007 | 0.005 | 4.014 |
|
highlightSegmentation | 0 | 0 | 0 |
|
installCellPicker | 1.885 | 0.000 | 1.982 |
|
makeCellHTS | 0.001 | 0.000 | 0.001 |
|
parseDCF | 0.002 | 0.000 | 0.003 |
|
parseImageConf | 1.244 | 0.000 | 1.305 |
|
popCellPicker | 1.260 | 0.000 | 1.399 |
|
prw2uname | 0.003 | 0.000 | 0.003 |
|
readLearnTS | 0.000 | 0.000 | 0.001 |
|
segmentATH | 0.001 | 0.000 | 0.000 |
|
segmentWells | 6.268 | 0.004 | 7.193 |
|
segmentYeastBF | 2.786 | 0.012 | 3.304 |
|
summarizeWells | 0.001 | 0.000 | 0.001 |
|
zprime | 3.139 | 0.000 | 3.763 |
|