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Package 136/467HostnameOS / ArchBUILDCHECKBUILD BIN
eisa 1.4.1
Gabor Csardi
Snapshot Date: 2011-10-20 07:20:33 -0700 (Thu, 20 Oct 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_8/madman/Rpacks/eisa
Last Changed Rev: 54845 / Revision: 59457
Last Changed Date: 2011-04-14 12:29:41 -0700 (Thu, 14 Apr 2011)
lamb1 Linux (openSUSE 11.3) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  ERROR  skipped  skipped 
gewurz Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  WARNINGS  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: eisa
Version: 1.4.1
Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch eisa_1.4.1.tar.gz
StartedAt: 2011-10-20 14:38:48 -0700 (Thu, 20 Oct 2011)
EndedAt: 2011-10-20 14:45:20 -0700 (Thu, 20 Oct 2011)
EllapsedTime: 392.1 seconds
RetCode: 0
Status:  OK 
CheckDir: eisa.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.8-bioc/meat/eisa.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'eisa/DESCRIPTION' ... OK
* this is package 'eisa' version '1.4.1'
* checking package namespace 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 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 ... 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 sizes of PDF files under inst/doc ... NOTE
  'qpdf' made some significant size reductions:
     compacted 'EISA_biclust.pdf' from 1078Kb to 359Kb
  consider running tools::compactPDF() on these files
* 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
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 ...
** testing if installed package can be loaded

* DONE (eisa)

eisa.Rcheck/eisa-Ex.timings:

nameusersystemelapsed
ALLModules0.0900.0050.098
ISA.CHR1.8460.1021.997
ISA.GO 8.738 0.69110.648
ISA.KEGG3.5650.1844.125
ISA37.452 6.05544.346
ISA.html28.9 2.633.0
ISA.iterate11.4 1.913.6
ISA.miRNA0.0190.0020.021
ISA.normalize 8.9 1.211.4
ISA.sweep19.5 3.624.4
ISA.unique10.8 1.914.3
ISA2heatmap3.050.184.12
ISAExpressionSet 8.4 1.113.1
ISAModules-class0.0240.0030.056
ListHyperGParams-class6.70.58.7
ListHyperGResult-class7.590.568.78
cond.plot4.120.344.50
eisa.biclust 8.2 2.410.7
enrichment0.840.040.91
exp.plot4.000.334.39
gograph8.650.759.49
mnplot4.290.344.78
overlap0.940.681.72
profilePlot3.150.183.35
robustness5.680.486.47