Package: macat

Version: 1.22.0

Command: /Library/Frameworks/R.framework/Versions/2.11/Resources/bin/R CMD check --no-vignettes --timings macat_1.22.0.tar.gz

StartedAt: 2010-10-04 17:40:21 -0700 (Mon, 04 Oct 2010)

EndedAt: 2010-10-04 17:43:35 -0700 (Mon, 04 Oct 2010)

EllapsedTime: 194.0 seconds

RetCode: 0

Status:  OK

CheckDir: macat.Rcheck

Warnings: 0

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.6-bioc/meat/macat.Rcheck'
* using R version 2.11.1 Patched (2010-05-31 r52167)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'macat/DESCRIPTION' ... OK
* this is package 'macat' version '1.22.0'
* 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 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 ‘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	3.041	0.101	3.182
compute_sliding	5.114	0.020	5.184
discreteKernelize	5.345	0.019	5.396
discretizeAll	0	0	0
discretize_tscores	71.605	0.486	73.101
evalScoring	9.001	0.597	9.881
evaluateParameters	1.541	0.066	1.663
get_results	33.229	0.136	33.696
kernelize	1.593	0.011	1.615
kernelizeAll	0.000	0.001	0.000
kernelizeToPython	0.000	0.000	0.001
kernels	0.056	0.003	0.059
loaddatapkg	0	0	0
plot_MACATevalScoring	0.000	0.000	0.001
preprocessedLoader	0	0	0
pythondata	0.000	0.000	0.001
scoring	0.062	0.011	0.073
stjd	0.049	0.004	0.052