Package: clippda

Version: 1.5.0

Command: /Library/Frameworks/R.framework/Versions/2.13/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch clippda_1.5.0.tar.gz

StartedAt: 2011-02-24 18:47:49 -0800 (Thu, 24 Feb 2011)

EndedAt: 2011-02-24 18:58:22 -0800 (Thu, 24 Feb 2011)

EllapsedTime: 633.2 seconds

RetCode: 0

Status:  OK

CheckDir: clippda.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.8-bioc/meat/clippda.Rcheck’
* using R version 2.13.0 Under development (unstable) (2011-01-10 r53950)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘clippda/DESCRIPTION’ ... OK
* this is package ‘clippda’ version ‘1.5.0’
* 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 ... NOTE
Found the following CITATION file(s) in a non-standard place:
  CITATION
Most likely inst/CITATION should be used instead.
* 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 ‘clippda’ ...
** R
** data
** inst
** preparing package for lazy loading

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. 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	0.130	0.016	0.145
aclinicalProteomicsData-methods	1.391	0.411	1.813
betweensampleVariance	6.858	1.069	7.956
checkNo.replicates	0.405	0.118	0.533
clippda-package	228.674	35.203	265.997
fisherInformation	0.209	0.015	0.231
liverRawData	0.031	0.002	0.033
liver_pheno	0.003	0.001	0.003
liverdata	7.037	1.333	8.431
mostSimilarTwo	0.005	0.000	0.004
negativeIntensitiesCorrection	2.336	0.275	2.636
phenoDataFrame	0.125	0.013	0.138
pheno_urine	0.003	0.001	0.004
preProcRepeatedPeakData	6.173	1.217	7.470
proteomicsExprsData	0.560	0.087	0.649
proteomicspData	0.166	0.013	0.180
replicateCorrelations	13.149	1.828	15.066
sampleClusteredData	2.426	0.262	2.713
sampleSize	141.587	21.215	164.215
sampleSize3DscatterPlots	0.106	0.003	0.109
sampleSizeContourPlots	0.067	0.002	0.099
sampleSizeParameters	69.306	10.516	81.365
sample_technicalVariance	16.968	2.405	19.796
spectrumFilter	5.906	1.199	7.189