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Package 172/419HostnameOS / ArchBUILDCHECKBUILD BIN
Genominator 1.4.2
James Bullard
Snapshot Date: 2011-03-30 23:22:56 -0700 (Wed, 30 Mar 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_7/madman/Rpacks/Genominator
Last Changed Rev: 53440 / Revision: 54281
Last Changed Date: 2011-03-04 07:13:04 -0800 (Fri, 04 Mar 2011)
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 

Summary

Package: Genominator
Version: 1.4.2
Command: /Library/Frameworks/R.framework/Versions/2.12/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch Genominator_1.4.2.tar.gz
StartedAt: 2011-03-31 06:01:18 -0700 (Thu, 31 Mar 2011)
EndedAt: 2011-03-31 06:03:59 -0700 (Thu, 31 Mar 2011)
EllapsedTime: 160.8 seconds
RetCode: 0
Status:  OK 
CheckDir: Genominator.Rcheck
Warnings: 0

Command output

* using log directory ‘/Users/biocbuild/bbs-2.7-bioc/meat/Genominator.Rcheck’
* using R version 2.12.2 Patched (2011-02-25 r54591)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Genominator/DESCRIPTION’ ... OK
* this is package ‘Genominator’ version ‘1.4.2’
* 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, mapply, order, paste, pmax, pmax.int, pmin,
    pmin.int, rbind, rep.int, table

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
ExpData0.0020.0010.003
addPrimingWeights5.2830.1345.499
aggregateExpData1.4860.0271.898
applyMapped1.8090.1071.942
collapseExpData3.3280.1733.565
computeCoverage1.1480.0581.269
computePrimingWeights0.4920.0460.540
getRegion0.2170.0040.227
importFromAlignedReads0.0000.0010.000
importToExpData0.4800.0140.515
joinExpData3.9950.0744.479
makeGeneRepresentation0.4320.0060.445
mergeWithAnnotation0.4570.0070.468
plot.genominator.coverage3.5170.1503.838
plot.genominator.goodness.of.fit0.9530.0801.135
regionGoodnessOfFit-methods0.8740.0721.022
splitByAnnotation0.8060.0100.818
summarizeByAnnotation0.4310.0080.456
summarizeExpData0.6550.0150.717
validAnnotation0.0260.0020.028
yeastAnno0.3350.0140.363