Package: clippda

Version: 1.7.0

Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch clippda_1.7.0.tar.gz

StartedAt: 2012-06-20 22:54:45 -0700 (Wed, 20 Jun 2012)

EndedAt: 2012-06-20 23:05:59 -0700 (Wed, 20 Jun 2012)

EllapsedTime: 674.2 seconds

RetCode: 0

Status:  OK

CheckDir: clippda.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.11-bioc/meat/clippda.Rcheck'
* using R version 2.15.0 Patched (2012-04-26 r59216)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'clippda/DESCRIPTION' ... OK
* this is package 'clippda' version '1.7.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking whether package 'clippda' can be installed ... OK
* checking installed package size ... 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 namespace can be loaded with stated dependencies ... OK
* checking whether the namespace 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package 'clippda' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'clippda.Rnw' 
** testing if installed package can be loaded

* DONE (clippda)

name	user	system	elapsed
ZvaluescasesVcontrolsPlots	0.018	0.003	0.031
ZvaluesfrommultinomPlots	1.657	0.223	2.329
aclinicalProteomicsData-class	0.184	0.016	0.280
aclinicalProteomicsData-methods	0.337	0.404	0.938
betweensampleVariance	5.933	1.086	9.133
checkNo.replicates	0.414	0.123	0.750
clippda-package	207.793	33.961	266.154
f	0.001	0.000	0.001
fisherInformation	0.125	0.013	0.140
liverRawData	0.009	0.002	0.010
liver_pheno	0.002	0.000	0.003
liverdata	7.047	1.486	9.002
mostSimilarTwo	0.003	0.001	0.004
negativeIntensitiesCorrection	2.260	0.295	2.586
phenoDataFrame	0.092	0.010	0.103
pheno_urine	0.002	0.000	0.003
preProcRepeatedPeakData	5.961	1.341	7.387
proteomicsExprsData	0.488	0.090	0.596
proteomicspData	0.111	0.021	0.133
replicateCorrelations	10.351	1.694	12.275
sampleClusteredData	2.265	0.288	2.656
sampleSize	125.224	20.486	149.166
sampleSize3DscatterPlots	0.033	0.003	0.036
sampleSizeContourPlots	0.139	0.009	0.165
sampleSizeParameters	62.934	10.333	75.025
sample_technicalVariance	16.436	2.449	19.059
spectrumFilter	5.886	1.367	7.311
ztwo	0.000	0.000	0.001