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Package 29/514HostnameOS / ArchBUILDCHECKBUILD BIN
AgiMicroRna 2.4.0
Pedro Lopez-Romero
Snapshot Date: 2012-03-23 18:21:46 -0700 (Fri, 23 Mar 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_9/madman/Rpacks/AgiMicroRna
Last Changed Rev: 59920 / Revision: 64395
Last Changed Date: 2011-10-31 15:59:03 -0700 (Mon, 31 Oct 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: AgiMicroRna
Version: 2.4.0
Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings AgiMicroRna_2.4.0.tar.gz
StartedAt: 2012-03-23 23:02:42 -0700 (Fri, 23 Mar 2012)
EndedAt: 2012-03-23 23:08:55 -0700 (Fri, 23 Mar 2012)
EllapsedTime: 373.6 seconds
RetCode: 0
Status:  OK 
CheckDir: AgiMicroRna.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/AgiMicroRna.Rcheck’
* using R version 2.14.2 (2012-02-29)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘AgiMicroRna/DESCRIPTION’ ... OK
* this is package ‘AgiMicroRna’ version ‘2.4.0’
* 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 ‘AgiMicroRna’ 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 ... NOTE
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
               old_size new_size compress
  dd.micro.rda    1.7Mb    1.2Mb       xz
  ddPROC.rda       54Kb     45Kb       xz
* 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

AgiMicroRna.Rcheck/00install.out:

* installing *source* package ‘AgiMicroRna’ ...
** R
** data
** inst
** preparing package for lazy loading
Warning in .simpleDuplicateClass(def, prev) :
  A specification for S3 class “connection” in package ‘graph’ seems equivalent to one from package ‘IRanges’ and is not turning on duplicate class definitions for this class
Warning in .simpleDuplicateClass(def, prev) :
  A specification for S3 class “file” in package ‘graph’ seems equivalent to one from package ‘IRanges’ and is not turning on duplicate class definitions for this class
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘AgiMicroRna.Rnw’ using ‘latin1’ 
** testing if installed package can be loaded

* DONE (AgiMicroRna)

AgiMicroRna.Rcheck/AgiMicroRna-Ex.timings:

nameusersystemelapsed
HeatMapMicroRna1.5400.1361.773
PCAplotMicroRna0.1360.0120.149
RleMicroRna2.8280.0202.879
basicLimma000
boxplotMicroRna0.6920.0080.703
cvArray000
filterMicroRna1.8290.0441.876
getDecideTests0.0000.0000.001
hierclusMicroRna0.0120.0000.012
mvaBASIC1.3680.0361.406
mvaMicroRna16.057 0.07216.375
plotDensityMicroRna0.2600.0080.268
pvalHistogram000
qcPlots0.0000.0000.001
readMicroRnaAFE000
rmaMicroRna131.816 0.108133.631
significantMicroRna0.6400.0160.660
tgsMicroRna1.1560.0081.163
tgsNormalization0.0000.0000.001
uRNAList0.0000.0000.001
writeEset0.0000.0000.001