Package: clippda

Version: 1.2.0

Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings clippda_1.2.0.tar.gz

StartedAt: 2011-10-20 12:15:33 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 12:22:45 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 431.3 seconds

RetCode: 0

Status:  OK

CheckDir: clippda.Rcheck

Warnings: 0

* using log directory ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/clippda.Rcheck’
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* 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 namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... 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 ... 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 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 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 ...
** testing if installed package can be loaded

* DONE (clippda)

name	user	system	elapsed
aclinicalProteomicsData-class	0.084	0.004	0.088
aclinicalProteomicsData-methods	0.460	0.164	0.628
betweensampleVariance	6.824	0.052	6.960
checkNo.replicates	0.312	0.000	0.323
clippda-package	169.503	0.200	172.215
fisherInformation	0.180	0.004	0.196
liverRawData	0.016	0.000	0.015
liver_pheno	0.004	0.000	0.003
liverdata	4.948	0.004	5.122
mostSimilarTwo	0.004	0.000	0.003
negativeIntensitiesCorrection	1.468	0.000	1.482
phenoDataFrame	0.084	0.004	0.088
pheno_urine	0.004	0.000	0.013
preProcRepeatedPeakData	4.292	0.000	4.320
proteomicsExprsData	0.572	0.000	0.570
proteomicspData	0.084	0.004	0.089
replicateCorrelations	9.929	0.004	9.958
sampleClusteredData	1.576	0.004	1.647
sampleSize	108.483	0.080	109.210
sampleSize3DscatterPlots	0.064	0.004	0.069
sampleSizeContourPlots	0.124	0.000	0.125
sampleSizeParameters	52.147	0.048	52.564
sample_technicalVariance	13.569	0.032	13.664
spectrumFilter	4.076	0.004	4.081