Package: eisa

Version: 1.0.0

Command: /Library/Frameworks/R.framework/Versions/2.11/Resources/bin/R CMD check --no-vignettes --timings eisa_1.0.0.tar.gz

StartedAt: 2010-10-04 16:48:10 -0700 (Mon, 04 Oct 2010)

EndedAt: 2010-10-04 16:54:44 -0700 (Mon, 04 Oct 2010)

EllapsedTime: 394.0 seconds

RetCode: 0

Status:  OK

CheckDir: eisa.Rcheck

Warnings: 0

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.6-bioc/meat/eisa.Rcheck'
* using R version 2.11.1 Patched (2010-05-31 r52167)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'eisa/DESCRIPTION' ... OK
* this is package 'eisa' version '1.0.0'
* 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 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

* install options are ' --no-html'

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

Welcome to Bioconductor

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

Loading required package: MASS

Attaching package: 'MASS'

The following object(s) are masked from 'package:genefilter':

    area

Loading required package: grid
Loading required package: vcd
Loading required package: colorspace
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (eisa)

name	user	system	elapsed
ALLModules	0.089	0.005	0.098
ISA.CHR	2.157	0.110	2.287
ISA.GO	8.580	0.719	9.678
ISA.KEGG	3.988	0.157	4.348
ISA	32.643	9.291	48.935
ISA.html	27.9	2.4	36.8
ISA.iterate	10.9	2.6	16.4
ISA.miRNA	0.020	0.003	0.021
ISA.normalize	9.3	1.2	10.7
ISA.sweep	21.2	7.6	27.7
ISA.unique	10.7	2.7	13.5
ISA2heatmap	2.97	0.17	3.19
ISAExpressionSet	8.7	1.1	10.5
ISAModules-class	0.026	0.003	0.028
ListHyperGParams-class	7.07	0.51	7.95
ListHyperGResult-class	7.66	0.64	8.45
cond.plot	4.21	0.32	4.58
eisa.biclust	8.7	2.2	11.0
enrichment	1.407	0.044	1.466
exp.plot	4.63	0.34	5.01
gograph	8.5	0.8	9.6
mnplot	5.03	0.34	5.47
overlap	1.04	0.67	1.73
profilePlot	3.17	0.18	3.38
robustness	5.68	0.55	6.24