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Package 137/462HostnameOS / ArchBUILDCHECKBUILD BIN
eisa 1.5.0
Gabor Csardi
Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/eisa
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  ERROR  skipped  skipped 
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: eisa
Version: 1.5.0
Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings eisa_1.5.0.tar.gz
StartedAt: 2011-05-09 12:17:36 -0700 (Mon, 09 May 2011)
EndedAt: 2011-05-09 12:21:54 -0700 (Mon, 09 May 2011)
EllapsedTime: 257.8 seconds
RetCode: 0
Status:  OK 
CheckDir: eisa.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/eisa.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 ‘eisa/DESCRIPTION’ ... OK
* this is package ‘eisa’ version ‘1.5.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘eisa’ 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 ... NOTE
annotate: no visible binding for global variable ‘ALL’
* 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:
  ‘org.Hs.eg.db’ ‘targetscan.Hs.eg.db’
* 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 ... NOTE
‘library’ or ‘require’ calls not declared from:
  ‘affy’ ‘targetscan.Hs.eg.db’
* 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

eisa.Rcheck/00install.out:

* installing *source* package ‘eisa’ ...
** R
** data
** inst
** preparing package for lazy loading

Welcome to Bioconductor

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

in method for ‘coerce’ with signature ‘"Biclust","ISAModules"’: no definition for class "Biclust"
in method for ‘coerce’ with signature ‘"ISAModules","Biclust"’: no definition for class "Biclust"
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘EISA_biclust.Rnw’ 
   ‘EISA_tutorial.Rnw’ 
** testing if installed package can be loaded

* DONE (eisa)

eisa.Rcheck/eisa-Ex.timings:

nameusersystemelapsed
ALLModules0.0480.0000.047
ISA.CHR2.2200.0442.308
ISA.GO6.8600.1126.985
ISA.KEGG2.5960.0562.686
ISA34.055 0.18034.307
ISA.html18.49 0.3518.87
ISA.iterate9.430.129.59
ISA.miRNA0.0120.0000.012
ISA.normalize6.8610.0766.984
ISA.sweep14.533 0.04414.745
ISA.unique8.1000.0928.194
ISA2heatmap1.4640.0321.558
ISAExpressionSet6.5690.0926.692
ISAModules-class0.0280.0040.033
ListHyperGParams-class4.2080.0644.336
ListHyperGResult-class4.9480.0965.273
cond.plot2.5960.0962.855
eisa.biclust5.1490.0685.238
enrichment0.5720.0040.596
exp.plot2.3680.0682.455
gograph5.60.15.7
mnplot2.4600.0242.484
overlap0.640.511.25
profilePlot1.80.11.9
robustness3.5960.0483.653