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Package 161/389HostnameOS / ArchBUILDCHECKBUILD BIN
Genominator 1.2.0
James Bullard
Snapshot Date: 2010-10-04 11:22:20 -0700 (Mon, 04 Oct 2010)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_6/madman/Rpacks/Genominator
Last Changed Rev: 46401 / Revision: 49923
Last Changed Date: 2010-04-22 11:21:23 -0700 (Thu, 22 Apr 2010)
wilson1 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  ERROR  skipped  skipped 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  ERROR  skipped  skipped 
pelham Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: Genominator
Version: 1.2.0
Command: /Library/Frameworks/R.framework/Versions/2.11/Resources/bin/R CMD check --no-vignettes --timings Genominator_1.2.0.tar.gz
StartedAt: 2010-10-04 17:13:48 -0700 (Mon, 04 Oct 2010)
EndedAt: 2010-10-04 17:16:08 -0700 (Mon, 04 Oct 2010)
EllapsedTime: 139.4 seconds
RetCode: 0
Status:  OK 
CheckDir: Genominator.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.6-bioc/meat/Genominator.Rcheck'
* using R version 2.11.1 Patched (2010-05-31 r52167)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'Genominator/DESCRIPTION' ... OK
* this is package 'Genominator' version '1.2.0'
* 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 data for non-ASCII characters ... OK
* checking examples ... OK
* checking tests ...
 OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

Genominator.Rcheck/00install.out:

* install options are ' --no-html'

* 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, 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
ExpData0.0020.0000.002
addPrimingWeights4.1650.1144.335
aggregateExpData1.3860.0301.578
applyMapped1.7970.1102.071
collapseExpData3.2500.1713.665
computeCoverage1.1790.0591.256
computePrimingWeights0.5380.0460.593
getRegion0.2200.0050.225
importFromAlignedReads000
importToExpData0.4850.0150.515
joinExpData3.7900.0784.258
makeGeneRepresentation0.5390.0080.554
mergeWithAnnotation0.4630.0080.475
plot.genominator.coverage3.6820.1653.902
plot.genominator.goodness.of.fit0.9650.0701.043
regionGoodnessOfFit-methods0.8940.0670.969
splitByAnnotation0.7860.0120.893
summarizeByAnnotation0.4250.0080.438
summarizeExpData0.6080.0130.625
validAnnotation0.0250.0020.028
yeastAnno0.3310.0150.353