BioC 2.13: CHECK report for goseq on zin1
This page was generated on 2014-04-05 09:47:53 -0700 (Sat, 05 Apr 2014).
goseq 1.14.0 Matthew Young , Nadia Davidson
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/goseq | 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: goseq |
Version: 1.14.0 |
Command: /home/biocbuild/bbs-2.13-bioc/R/bin/R CMD check --no-vignettes --timings goseq_1.14.0.tar.gz |
StartedAt: 2014-04-05 01:38:31 -0700 (Sat, 05 Apr 2014) |
EndedAt: 2014-04-05 01:42:52 -0700 (Sat, 05 Apr 2014) |
EllapsedTime: 261.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: goseq.Rcheck |
Warnings: 0 |
Command output
* using log directory ‘/home/biocbuild/bbs-2.13-bioc/meat/goseq.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 ‘goseq/DESCRIPTION’ ... OK
* this is package ‘goseq’ version ‘1.14.0’
* 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 ‘goseq’ can be installed ... [20s/20s] 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 ... NOTE
Packages in Depends field not imported from:
‘BiasedUrn’ ‘geneLenDataBase’
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
See the information on DESCRIPTION files in the chapter ‘Creating R
packages’ of the ‘Writing R Extensions’ manual.
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking for old-style vignette sources ... NOTE
Vignette sources only in ‘inst/doc’:
‘goseq.Rnw’
A ‘vignettes’ directory will be required as from R 3.1.0
* checking examples ... [82s/83s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
goseq 29.761 1.124 31.017
getgo 17.325 0.580 18.093
nullp 7.657 0.892 8.561
plotPWF 7.008 1.000 8.041
getlength 5.825 0.920 7.095
* 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/goseq.Rcheck/00check.log’
for details.
goseq.Rcheck/00install.out:
* installing *source* package ‘goseq’ ...
** 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 (goseq)
goseq.Rcheck/goseq-Ex.timings:
name | user | system | elapsed
|
genes | 0.024 | 0.000 | 0.023 |
|
getgo | 17.325 | 0.580 | 18.093 |
|
getlength | 5.825 | 0.920 | 7.095 |
|
goseq | 29.761 | 1.124 | 31.017 |
|
makespline | 0.048 | 0.004 | 0.051 |
|
nullp | 7.657 | 0.892 | 8.561 |
|
plotPWF | 7.008 | 1.000 | 8.041 |
|