BioC 2.13: CHECK report for occugene on perceval
This page was generated on 2014-04-05 09:51:54 -0700 (Sat, 05 Apr 2014).
occugene 1.22.0 Oliver Will
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/occugene | 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: occugene |
Version: 1.22.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch occugene_1.22.0.tar.gz |
StartedAt: 2014-04-05 03:04:29 -0700 (Sat, 05 Apr 2014) |
EndedAt: 2014-04-05 03:04:53 -0700 (Sat, 05 Apr 2014) |
EllapsedTime: 24.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: occugene.Rcheck |
Warnings: 0 |
Command output
* using log directory ‘/Users/biocbuild/bbs-2.13-bioc/meat/occugene.Rcheck’
* using R version 3.0.3 (2014-03-06)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘occugene/DESCRIPTION’ ... OK
* this is package ‘occugene’ version ‘1.22.0’
* 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 ‘occugene’ can be installed ... [1s/1s] 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 ... NOTE
loadAnnotation: warning in read.table(fileName, head = T): partial
argument match of 'head' to 'header'
loadInsertions: warning in read.table(fileName, head = T): partial
argument match of 'head' to 'header'
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking for old-style vignette sources ... NOTE
Vignette sources only in ‘inst/doc’:
‘occugene.Rnw’
A ‘vignettes’ directory will be required as from R 3.1.0
* checking examples ... [4s/4s] OK
* 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
‘/Users/biocbuild/bbs-2.13-bioc/meat/occugene.Rcheck/00check.log’
for details.
occugene.Rcheck/00install.out:
* installing *source* package ‘occugene’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (occugene)
occugene.Rcheck/occugene-Ex.timings:
name | user | system | elapsed
|
binHist | 0.002 | 0.000 | 0.003 |
|
binInsert | 0.005 | 0.000 | 0.004 |
|
binInsertHist | 0.003 | 0.000 | 0.003 |
|
checkFormat | 0.040 | 0.004 | 0.044 |
|
delta0 | 0.078 | 0.004 | 0.081 |
|
eMult | 0.728 | 0.006 | 0.741 |
|
etDelta | 0.017 | 0.001 | 0.019 |
|
fCumul | 0.008 | 0.001 | 0.008 |
|
fFit | 0.062 | 0.002 | 0.064 |
|
loadAnnotation | 0.003 | 0.000 | 0.002 |
|
loadInsertions | 0.002 | 0.000 | 0.002 |
|
occup2Negenes | 0.012 | 0.001 | 0.013 |
|
unbiasB0 | 0.626 | 0.013 | 0.660 |
|
unbiasDelta0 | 0.647 | 0.009 | 0.656 |
|
varMult | 0.718 | 0.007 | 0.742 |
|