BioC 2.12: CHECK report for clusterProfiler on george2
This page was generated on 2013-10-09 09:37:42 -0700 (Wed, 09 Oct 2013).
clusterProfiler 1.8.0 Guangchuang Yu
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013) | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/clusterProfiler | Last Changed Rev: 75263 / Revision: 81334 | Last Changed Date: 2013-04-03 14:32:27 -0700 (Wed, 03 Apr 2013) |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | OK | [ WARNINGS ] | |
moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | WARNINGS | OK |
petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | WARNINGS | OK |
Summary
Package: clusterProfiler |
Version: 1.8.0 |
Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings clusterProfiler_1.8.0.tar.gz |
StartedAt: 2013-10-09 01:01:17 -0700 (Wed, 09 Oct 2013) |
EndedAt: 2013-10-09 01:04:54 -0700 (Wed, 09 Oct 2013) |
EllapsedTime: 217.4 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: clusterProfiler.Rcheck |
Warnings: 1 |
Command output
* using log directory ‘/home/biocbuild/bbs-2.12-bioc/meat/clusterProfiler.Rcheck’
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘clusterProfiler/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘clusterProfiler’ version ‘1.8.0’
* 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 ‘clusterProfiler’ can be installed ... [18s/18s] OK
* checking installed package size ... OK
* checking package 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 for unstated 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 ... WARNING
Codoc mismatches from documentation object 'Gff2GeneTable':
Gff2GeneTable
Code: function(gffFile, compress = TRUE)
Docs: function(gffFile)
Argument names in code not in docs:
compress
* 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 examples ... [24s/28s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
groupGO 11.217 0.412 13.278
* 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK
WARNING: There was 1 warning.
See
‘/home/biocbuild/bbs-2.12-bioc/meat/clusterProfiler.Rcheck/00check.log’
for details.
clusterProfiler.Rcheck/00install.out:
* installing *source* package ‘clusterProfiler’ ...
** 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 (clusterProfiler)
clusterProfiler.Rcheck/clusterProfiler-Ex.timings:
name | user | system | elapsed
|
compareCluster | 2.688 | 0.068 | 2.877 |
|
enrichGO | 0.020 | 0.004 | 0.022 |
|
enrichKEGG | 0.400 | 0.016 | 0.430 |
|
groupGO | 11.217 | 0.412 | 13.278 |
|