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Package 333/462HostnameOS / ArchBUILDCHECKBUILD BIN
PGSEA 1.27.0
Karl Dykema
Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/PGSEA
Last Changed Rev: 54802 / Revision: 55359
Last Changed Date: 2011-04-13 15:36:43 -0700 (Wed, 13 Apr 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK [ OK ]
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: PGSEA
Version: 1.27.0
Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings PGSEA_1.27.0.tar.gz
StartedAt: 2011-05-09 13:40:34 -0700 (Mon, 09 May 2011)
EndedAt: 2011-05-09 13:41:40 -0700 (Mon, 09 May 2011)
EllapsedTime: 66.5 seconds
RetCode: 0
Status:  OK 
CheckDir: PGSEA.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/PGSEA.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-04-18 r55504)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PGSEA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘PGSEA’ version ‘1.27.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘PGSEA’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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 ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... NOTE
‘library’ or ‘require’ calls not declared from:
  ‘GO’ ‘KEGG’
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

PGSEA.Rcheck/00install.out:

* installing *source* package ‘PGSEA’ ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: AnnotationDbi
Loading required package: Biobase

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation("pkgname")'.

Loading required package: DBI


** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘PGSEA.Rnw’ 
   ‘PGSEA2.Rnw’ 
** testing if installed package can be loaded

* DONE (PGSEA)

PGSEA.Rcheck/PGSEA-Ex.timings:

nameusersystemelapsed
GOLUBmcs0.0640.0040.079
PGSEA1.1520.0201.219
VAIgsc1.6000.0201.653
VAImcs0.2160.0000.217
aggregateExprs0.5920.0120.608
convertSmc000
editSmc0.0320.0000.033
go2smc0.0080.0000.003
kegg2smc0.0040.0000.003
nbEset0.0480.0040.054
readGmt0.0480.0040.054
readSmc0.0440.0040.046
scanSmc0.0280.0040.031
smcPlot1.3640.0281.389
writeGmt0.0440.0000.044
writeSmc0.0440.0000.048