Package: macat

Version: 1.24.0

Command: /Library/Frameworks/R.framework/Versions/2.12/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch macat_1.24.0.tar.gz

StartedAt: 2011-03-31 06:34:46 -0700 (Thu, 31 Mar 2011)

EndedAt: 2011-03-31 06:37:55 -0700 (Thu, 31 Mar 2011)

EllapsedTime: 188.5 seconds

RetCode: 0

Status:  OK

CheckDir: macat.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.7-bioc/meat/macat.Rcheck’
* using R version 2.12.2 Patched (2011-02-25 r54591)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘macat/DESCRIPTION’ ... OK
* this is package ‘macat’ version ‘1.24.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘macat’ 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 for unstated dependencies in examples ... OK
* checking data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package ‘macat’ ...
** R
** data
** demo
** 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: AnnotationDbi
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
Loading MicroArray Chromosome Analysis Tool...
Loading required packages...
Type 'demo(macatdemo)' for a quick tour...

* DONE (macat)

name	user	system	elapsed
buildMACAT	2.839	0.109	2.975
compute_sliding	4.801	0.019	4.906
discreteKernelize	4.892	0.022	4.990
discretizeAll	0	0	0
discretize_tscores	66.514	0.507	68.298
evalScoring	7.708	0.390	8.643
evaluateParameters	1.335	0.060	1.465
get_results	30.514	0.154	31.326
kernelize	1.453	0.011	1.482
kernelizeAll	0.001	0.000	0.000
kernelizeToPython	0.001	0.000	0.000
kernels	0.055	0.003	0.058
loaddatapkg	0	0	0
plot_MACATevalScoring	0.001	0.001	0.001
preprocessedLoader	0.000	0.000	0.001
pythondata	0.000	0.000	0.001
scoring	0.061	0.007	0.070
stjd	0.047	0.003	0.050