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Package 47/462HostnameOS / ArchBUILDCHECKBUILD BIN
baySeq 1.7.0
Thomas J. Hardcastle
Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/baySeq
Last Changed Rev: 54802 / Revision: 55359
Last Changed Date: 2011-04-13 15:36:43 -0700 (Wed, 13 Apr 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK [ OK ] OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: baySeq
Version: 1.7.0
Command: E:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings baySeq_1.7.0.tar.gz
StartedAt: 2011-05-09 12:33:32 -0700 (Mon, 09 May 2011)
EndedAt: 2011-05-09 12:42:45 -0700 (Mon, 09 May 2011)
EllapsedTime: 553.3 seconds
RetCode: 0
Status:  OK  
CheckDir: baySeq.Rcheck
Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.9-bioc/meat/baySeq.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-04-17 r55484)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'baySeq/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'baySeq' version '1.7.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'baySeq' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... 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 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 ... NOTE
getPosteriors: no visible binding for global variable 'clustAssign'
getPosteriors: no visible binding for global variable 'getPostsEnv'
getPriors.NB: no visible global function definition for
  'estimateCommonDisp'
getPriors.NB: no visible global function definition for
  'estimateTagwiseDisp'
* 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

baySeq.Rcheck/00install.out:

* installing *source* package 'baySeq' ...
** R
** data
** inst
** preparing package for lazy loading
Creating a generic for 'rbind' in package 'baySeq'
    (the supplied definition differs from and overrides the implicit generic
    in package 'base': Signatures differ:  (...), (deparse.level))
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'baySeq.Rnw' 
** testing if installed package can be loaded

* DONE (baySeq)

baySeq.Rcheck/baySeq-Ex.timings:

nameusersystemelapsed
baySeq-classes0.030.000.04
baySeq-package5.550.005.56
bimodalSep000
getLikelihoods116.50 0.00156.58
getPosteriors0.010.000.01
getPriors 0.13 0.0233.00
getTPs5.610.005.61
plotMA.CD0.010.000.01
plotPosteriors114.83 0.02115.21
plotPriors204.68 0.04206.05
topCounts5.610.005.61