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Package 185/294HostnameOS / ArchBUILDCHECKBUILD BIN
nem 2.6.0
Florian Markowetz
Bioconductor Changelog
Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/nem
Last Changed Rev: 34811 / Revision: 38965
Last Changed Date: 2008-10-21 15:32:58 -0700 (Tue, 21 Oct 2008)
wilson2 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
pelham Mac OS X Leopard (10.5.6) / i386  OK [ OK ] OK 
Package: nem
Version: 2.6.0
Command: /Library/Frameworks/R.framework/Versions/2.8/Resources/bin/R CMD check --no-vignettes nem_2.6.0.tar.gz
StartedAt: 2009-04-18 17:56:39 -0700 (Sat, 18 Apr 2009)
EndedAt: 2009-04-18 17:58:13 -0700 (Sat, 18 Apr 2009)
EllapsedTime: 94.5 seconds
RetCode: 0
Status: OK
CheckDir: nem.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.3-bioc/meat/nem.Rcheck'
* using R version 2.8.1 Patched (2009-03-18 r48200)
* using session charset: ASCII
* checking for file 'nem/DESCRIPTION' ... OK
* this is package 'nem' version '2.6.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'nem' 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 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 ... NOTE
optimizecoregraph: no visible binding for global variable 'verbose'
optimizecoregraph: no visible binding for global variable 'IC.mode'
optimizecoregraph: no visible binding for global variable 'nu'
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* creating nem-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating nem-manual.tex ... OK
* checking nem-manual.tex using pdflatex ... OK

nem.Rcheck/00install.out:

* Installing *source* package 'nem' ...
** R
** data
** inst
** preparing package for lazy loading
Loading required package: e1071
Loading required package: class
Loading required package: graph
Loading required package: Rgraphviz
Loading required package: grid
Loading required package: RBGL

Attaching package: 'RBGL'


	The following object(s) are masked from package:e1071 :

	 extractPath 

Loading required package: time
Loading required package: cluster
Loading required package: bootstrap
Loading required package: RColorBrewer
Loading required package: plotrix
** help
 >>> Building/Updating help pages for package 'nem'
     Formats: text html latex example 
Note: removing empty section \seealso in file 'BFSlevel.Rd'
  BFSlevel                          text    html    latex   example
  BoutrosRNAi2002                   text    html    latex   example
  FULLmLL                           text    html    latex   example
  SCCgraph                          text    html    latex   example
  closest.transitive.greedy         text    html    latex
  enumerate.models                  text    html    latex   example
  generateNetwork                   text    html    latex   example
  getDensityMatrix                  text    html    latex
  infer.edge.type                   text    html    latex   example
Note: removing empty section \details in file 'internal.Rd'
  internal                          text    html    latex
Note: removing empty section \note in file 'local.model.prior.Rd'
Note: removing empty section \references in file 'local.model.prior.Rd'
  local.model.prior                 text    html    latex   example
  mLL                               text    html    latex   example
  moduleNetwork                     text    html    latex   example
  nem.BN                            text    html    latex
  nem                               text    html    latex   example
  nem.bootstrap                     text    html    latex   example
  nem.calcSignificance              text    html    latex   example
  nem.consensus                     text    html    latex   example
  nem.cont.preprocess               text    html    latex   example
  nem.discretize                    text    html    latex   example
  nem.greedy                        text    html    latex   example
  nem.greedyMAP                     text    html    latex   example
  nem.jackknife                     text    html    latex   example
  nemModelSelection                 text    html    latex   example
  network.AIC                       text    html    latex   example
  pairwise.posterior                text    html    latex   example
  plot.nem                          text    html    latex
  plotEffects                       text    html    latex   example
  prune.graph                       text    html    latex   example
  score                             text    html    latex   example
  selectEGenes                      text    html    latex   example
Note: removing empty section \seealso in file 'subsets.Rd'
  subsets                           text    html    latex   example
  transitive.closure                text    html    latex   example
  transitive.projections            text    html    latex
  transitive.reduction              text    html    latex   example
  triples.posterior                 text    html    latex   example
** building package indices ...
* DONE (nem)