Package: clippda

Version: 1.2.0

Command: /Library/Frameworks/R.framework/Versions/2.11/Resources/bin/R CMD check --no-vignettes --timings clippda_1.2.0.tar.gz

StartedAt: 2010-10-04 16:32:33 -0700 (Mon, 04 Oct 2010)

EndedAt: 2010-10-04 16:44:29 -0700 (Mon, 04 Oct 2010)

EllapsedTime: 716.1 seconds

RetCode: 0

Status:  OK

CheckDir: clippda.Rcheck

Warnings: 0

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.6-bioc/meat/clippda.Rcheck'
* using R version 2.11.1 Patched (2010-05-31 r52167)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'clippda/DESCRIPTION' ... OK
* this is package 'clippda' version '1.2.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'clippda' 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 ‘clippda’ ...
** 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)'.

** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (clippda)

name	user	system	elapsed
aclinicalProteomicsData-class	0.167	0.013	0.185
aclinicalProteomicsData-methods	1.413	0.421	1.902
betweensampleVariance	6.931	1.036	8.593
checkNo.replicates	0.417	0.115	0.579
clippda-package	238.713	66.858	303.626
fisherInformation	0.168	0.011	0.181
liverRawData	0.031	0.003	0.035
liver_pheno	0.002	0.001	0.004
liverdata	7.395	1.374	9.462
mostSimilarTwo	0.005	0.000	0.005
negativeIntensitiesCorrection	2.388	0.266	2.753
phenoDataFrame	0.126	0.012	0.140
pheno_urine	0.002	0.001	0.003
preProcRepeatedPeakData	6.647	1.222	9.160
proteomicsExprsData	0.652	0.085	0.807
proteomicspData	0.174	0.014	0.217
replicateCorrelations	13.134	3.285	18.568
sampleClusteredData	2.455	0.275	2.979
sampleSize	146.761	39.994	191.121
sampleSize3DscatterPlots	0.110	0.004	0.115
sampleSizeContourPlots	0.072	0.002	0.074
sampleSizeParameters	70.647	19.806	89.245
sample_technicalVariance	17.456	5.369	22.151
spectrumFilter	6.137	1.191	7.425