Package: deltaGseg

Version: 0.99.2

Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings deltaGseg_0.99.2.tar.gz

StartedAt: 2013-03-25 01:08:36 -0700 (Mon, 25 Mar 2013)

EndedAt: 2013-03-25 01:39:37 -0700 (Mon, 25 Mar 2013)

EllapsedTime: 1860.5 seconds

RetCode: 0

Status:  OK

CheckDir: deltaGseg.Rcheck

Warnings: 0

* using log directory ‘/home/biocbuild/bbs-2.12-bioc/meat/deltaGseg.Rcheck’
* using R version 3.0.0 beta (2013-03-19 r62328)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘deltaGseg/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘deltaGseg’ version ‘0.99.2’
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘deltaGseg’ can be installed ... [13s/14s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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 ... NOTE
  WaveThresh: R wavelet software, release 4.6.1, installed
  
  Copyright Guy Nason and others 1993-2012
  
  Note: nlevels has been renamed to nlevelsWT
  
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking examples ... [28m/29m] OK
Examples with CPU or elapsed time > 5s
                    user system  elapsed
clusterPV       1187.334 23.857 1245.296
denoiseSegments  456.053  1.240  465.082
* 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

NOTE: There was 1 note.
See
  ‘/home/biocbuild/bbs-2.12-bioc/meat/deltaGseg.Rcheck/00check.log’
for details.

* installing *source* package ‘deltaGseg’ ...
** R
** data
** inst
** preparing package for lazy loading
WaveThresh: R wavelet software, release 4.6.1, installed

Copyright Guy Nason and others 1993-2012

Note: nlevels has been renamed to nlevelsWT

** help
*** installing help indices
** building package indices
** installing vignettes
   ‘deltaGseg.Rnw’ 
** testing if installed package can be loaded
WaveThresh: R wavelet software, release 4.6.1, installed

Copyright Guy Nason and others 1993-2012

Note: nlevels has been renamed to nlevelsWT

* DONE (deltaGseg)

name	user	system	elapsed
SegSeriesTrajectories-class	0.02	0.00	0.02
SegTrajectories-class	0.228	0.008	0.245
Trajectories-class	0.008	0.000	0.010
TransTrajectories-class	0.024	0.000	0.027
chooseBreaks	0.824	0.048	0.873
clusterPV-methods	0.008	0.004	0.013
clusterPV	1187.334	23.857	1245.296
clusterSegments-methods	0.008	0.000	0.010
clusterSegments	0.004	0.000	0.005
denoiseSegments-methods	0.008	0.000	0.010
denoiseSegments	456.053	1.240	465.082
diagnosticPlots-methods	0.012	0.000	0.008
diagnosticPlots	1.140	0.032	1.183
getAVD	0.060	0.020	0.081
getBreaks-methods	0.008	0.000	0.006
getBreaks	0.068	0.016	0.084
getIntervals-methods	0.004	0.000	0.004
getIntervals	0.076	0.008	0.084
getSegments-methods	0.012	0.000	0.010
getSegments	0.072	0.012	0.082
getTNames-methods	0.008	0.000	0.004
getTNames	0.076	0.012	0.088
getTraj	0.072	0.012	0.085
parseTraj	0.308	0.004	0.312
plotDiff-methods	0.004	0.000	0.005
plotDiff	0.700	0.008	0.707
splitTraj-methods	0.004	0.000	0.003
splitTraj	0.064	0.024	0.087
transformSeries-methods	0.008	0.000	0.005
transformSeries	0.136	0.012	0.148