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Package 176/436HostnameOS / ArchBUILDCHECKBUILD BIN
Genominator 1.5.1
James Bullard
Snapshot Date: 2011-02-24 11:26:35 -0800 (Thu, 24 Feb 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/Genominator
Last Changed Rev: 51309 / Revision: 53255
Last Changed Date: 2010-12-07 09:03:25 -0800 (Tue, 07 Dec 2010)
lamb2 Linux (openSUSE 11.2) / 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 
petty Mac OS X Snow Leopard (10.6.4) / i386  OK  OK  OK 

Summary

Package: Genominator
Version: 1.5.1
Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings Genominator_1.5.1.tar.gz
StartedAt: 2011-02-24 19:55:41 -0800 (Thu, 24 Feb 2011)
EndedAt: 2011-02-24 19:57:28 -0800 (Thu, 24 Feb 2011)
EllapsedTime: 107.4 seconds
RetCode: 0
Status:  OK 
CheckDir: Genominator.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.8-bioc/meat/Genominator.Rcheck’
* using R version 2.13.0 Under development (unstable) (2011-01-10 r53950)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Genominator/DESCRIPTION’ ... OK
* this is package ‘Genominator’ version ‘1.5.1’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘Genominator’ can be installed ... 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 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 ... 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK

Genominator.Rcheck/00install.out:

* installing *source* package ‘Genominator’ ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: DBI

Attaching package: 'IRanges'

The following object(s) are masked from 'package:base':

    Map, cbind, eval, intersect, mapply, order, paste, pmax, pmax.int,
    pmin, pmin.int, rbind, rep.int, setdiff, table, union

Loading required package: biomaRt
Loading required package: grid
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (Genominator)

Genominator.Rcheck/Genominator-Ex.timings:

nameusersystemelapsed
ExpData0.0000.0000.001
addPrimingWeights3.7120.0963.859
aggregateExpData2.0360.0002.056
applyMapped2.0240.0162.039
collapseExpData3.3080.0483.359
computeCoverage1.1760.0161.198
computePrimingWeights0.3200.0240.346
getRegion0.2930.0040.301
importFromAlignedReads000
importToExpData0.6080.0120.624
joinExpData5.4400.0165.485
makeGeneRepresentation0.3320.0081.042
mergeWithAnnotation0.6160.0000.625
plot.genominator.coverage3.6960.0764.455
plot.genominator.goodness.of.fit0.8920.0200.919
regionGoodnessOfFit-methods0.8440.0280.875
splitByAnnotation1.1960.0041.209
summarizeByAnnotation0.6280.0000.625
summarizeExpData0.7240.0040.731
validAnnotation0.0120.0000.013
yeastAnno0.1520.0040.155