Package: ppiStats

Version: 1.18.0

Command: D:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch ppiStats_1.18.0.tar.gz

StartedAt: 2011-10-20 16:00:30 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 16:02:38 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 128.2 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: ppiStats.Rcheck

Warnings: 1

* using log directory 'D:/biocbld/bbs-2.8-bioc/meat/ppiStats.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 'ppiStats/DESCRIPTION' ... OK
* this is package 'ppiStats' version '1.18.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'ppiStats' can be installed ... OK
* checking installed package size ... OK
* 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 ... NOTE
prepare_Rd: findAdjacent.Rd:27-29: Dropping empty section \examples
prepare_Rd: hgParams.Rd:39: Dropping empty section \references
prepare_Rd: hgParams.Rd:42-44: Dropping empty section \examples
prepare_Rd: hgTests.Rd:40: Dropping empty section \references
prepare_Rd: hgTests.Rd:43-45: Dropping empty section \examples
* 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 examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... WARNING
Package vignette(s) without corresponding PDF:
   ppiStats.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/ppiStats.Rcheck/00check.log'
for details

* installing *source* package 'ppiStats' ...
** R
** inst
** preparing package for lazy loading
Warning in fun(...) :
  Rgraphviz built with Graphviz version 2.20.3.
Found installed Graphviz version 2.25.20090912.445. This _may_ cause problems.
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
Warning message:
In fun(...) : Rgraphviz built with Graphviz version 2.20.3.
Found installed Graphviz version 2.25.20090912.445. This _may_ cause problems.

* DONE (ppiStats)

name	user	system	elapsed
assessSymmetry	3.21	0.50	3.70
bpMatrix	0.77	0.25	1.01
calcInOutDegStats	0.01	0.00	0.02
createSummaryTables	0.27	0.00	0.27
degreeEstimates	0	0	0
estErrProbMethodOfMoments	0	0	0
estimateCCMErrorRates	2.04	0.30	2.34
estimatePPIErrorRates	9.47	0.21	9.72
genBPGraph	0.05	0.00	0.04
idProteinErrorType	2.23	0.46	2.71
idProteinType	0.08	0.04	0.12
inOutScatterCharts	0	0	0
nullDistDoublyTestedEdges	0.52	0.04	0.55
twPERM	0	0	0
viabilityCharts	0.4	0.0	0.4