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Package 451/631HostnameOS / ArchBUILDCHECKBUILD BIN
phenoDist 1.7.0
Xian Zhang
Snapshot Date: 2013-01-15 17:01:14 -0800 (Tue, 15 Jan 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/phenoDist
Last Changed Rev: 70052 / Revision: 72575
Last Changed Date: 2012-10-01 15:43:56 -0700 (Mon, 01 Oct 2012)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
lamb2 Linux (openSUSE 11.4) / x86_64  OK [ OK ]
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Leopard (10.5.8) / i386 N O T   S U P P O R T E D

Summary

Package: phenoDist
Version: 1.7.0
Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings phenoDist_1.7.0.tar.gz
StartedAt: 2013-01-16 05:11:20 -0800 (Wed, 16 Jan 2013)
EndedAt: 2013-01-16 05:19:55 -0800 (Wed, 16 Jan 2013)
EllapsedTime: 515.2 seconds
RetCode: 0
Status:  OK 
CheckDir: phenoDist.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/phenoDist.Rcheck’
* using R Under development (unstable) (2012-12-17 r61365)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘phenoDist/DESCRIPTION’ ... OK
* this is package ‘phenoDist’ 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 for hidden files and directories ... NOTE
Found the following hidden files and directories:
  .BBSoptions
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘phenoDist’ can be installed ... 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 installed files from ‘inst/doc’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
                        user system elapsed
distToNeg            176.459  0.072 176.597
PDMBySvmWeightVector  22.357  0.080  22.444
PDMBySvmAccuracy      11.785  0.040  11.827
PDMByKS               10.593  0.132  59.868
PDMByFactorAnalysis    4.520  0.100  21.979
* 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
  ‘/loc/home/biocbuild/bbs-2.12-bioc/meat/phenoDist.Rcheck/00check.log’
for details.

phenoDist.Rcheck/00install.out:

* installing *source* package ‘phenoDist’ ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘phenoDist.Rnw’ 
** testing if installed package can be loaded

* DONE (phenoDist)

phenoDist.Rcheck/phenoDist-Ex.timings:

nameusersystemelapsed
PDMByFactorAnalysis 4.520 0.10021.979
PDMByKS10.593 0.13259.868
PDMBySvmAccuracy11.785 0.04011.827
PDMBySvmWeightVector22.357 0.08022.444
PDMByWellAvg1.7960.0124.306
clusterDist1.1600.0241.186
ctlSeparatn0.0080.0000.010
distToNeg176.459 0.072176.597
enrichAnalysis0.0040.0000.003
repCorr0.0120.0000.012
repDistRank0.0120.0000.012