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Package 191/467HostnameOS / ArchBUILDCHECKBUILD BIN
Genominator 1.6.0
James Bullard
Snapshot Date: 2011-10-20 07:20:33 -0700 (Thu, 20 Oct 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_8/madman/Rpacks/Genominator
Last Changed Rev: 54800 / Revision: 59457
Last Changed Date: 2011-04-13 15:27:35 -0700 (Wed, 13 Apr 2011)
lamb1 Linux (openSUSE 11.3) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ WARNINGS ] OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: Genominator
Version: 1.6.0
Command: D:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch Genominator_1.6.0.tar.gz
StartedAt: 2011-10-20 14:35:46 -0700 (Thu, 20 Oct 2011)
EndedAt: 2011-10-20 14:38:19 -0700 (Thu, 20 Oct 2011)
EllapsedTime: 152.4 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: Genominator.Rcheck
Warnings: 1

Command output

* using log directory 'D:/biocbld/bbs-2.8-bioc/meat/Genominator.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Genominator/DESCRIPTION' ... OK
* this is package 'Genominator' version '1.6.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'Genominator' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 164.9Mb
  sub-directories of 1Mb or more:
    data    1.3Mb
    doc   160.6Mb
* 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 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 ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... WARNING
Package vignette(s) without corresponding PDF:
   Genominator.Rnw
   plotting.Rnw
   withShortRead.Rnw

* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

WARNING: There was 1 warning, see
  'D:/biocbld/bbs-2.8-bioc/meat/Genominator.Rcheck/00check.log'
for details

Genominator.Rcheck/00install.out:

* installing *source* package 'Genominator' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (Genominator)

Genominator.Rcheck/Genominator-Ex.timings:

nameusersystemelapsed
ExpData000
addPrimingWeights5.030.335.53
aggregateExpData1.780.011.81
applyMapped1.760.021.78
collapseExpData2.990.033.02
computeCoverage0.920.050.98
computePrimingWeights0.470.340.81
getRegion0.230.000.24
importFromAlignedReads000
importToExpData0.490.000.48
joinExpData3.970.035.61
makeGeneRepresentation0.280.000.28
mergeWithAnnotation0.420.020.44
plot.genominator.coverage2.830.012.89
plot.genominator.goodness.of.fit0.790.041.33
regionGoodnessOfFit-methods0.690.011.64
splitByAnnotation0.890.030.92
summarizeByAnnotation0.470.000.47
summarizeExpData0.580.000.58
validAnnotation0.010.000.01
yeastAnno0.180.020.19