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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: E:\biocbld\bbs-2.3-bioc\R\bin\R.exe CMD check --no-vignettes nem_2.6.0.tar.gz
StartedAt: 2009-04-18 19:27:45 -0700 (Sat, 18 Apr 2009)
EndedAt: 2009-04-18 19:29:05 -0700 (Sat, 18 Apr 2009)
EllapsedTime: 80.3 seconds
RetCode: 0
Status: OK
CheckDir: nem.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.3-bioc/meat/nem.Rcheck'
* using R version 2.8.1 (2008-12-22)
* using session charset: ISO8859-1
* 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 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 R.css in E:/biocbld/bbs-2.3-bioc/meat/nem.Rcheck


---------- Making package nem ------------
  adding build stamp to DESCRIPTION
  installing R files
  installing inst files
  installing data files
  preparing package nem 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
  installing man source files
  installing indices
  not zipping data
  installing help
 >>> Building/Updating help pages for package 'nem'
     Formats: text html latex example chm 
Note: removing empty section \seealso in file 'BFSlevel.Rd'
Note: removing empty section \seealso in file 'BFSlevel.Rd'
  BFSlevel                          text    html    latex   example chm
  BoutrosRNAi2002                   text    html    latex   example chm
  FULLmLL                           text    html    latex   example chm
  SCCgraph                          text    html    latex   example chm
  closest.transitive.greedy         text    html    latex           chm
  enumerate.models                  text    html    latex   example chm
  generateNetwork                   text    html    latex   example chm
  getDensityMatrix                  text    html    latex           chm
  infer.edge.type                   text    html    latex   example chm
Note: removing empty section \details in file 'internal.Rd'
Note: removing empty section \details in file 'internal.Rd'
  internal                          text    html    latex           chm
Note: removing empty section \note in file 'local.model.prior.Rd'
Note: removing empty section \references in file 'local.model.prior.Rd'
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 chm
  mLL                               text    html    latex   example chm
  moduleNetwork                     text    html    latex   example chm
  nem.BN                            text    html    latex           chm
  nem                               text    html    latex   example chm
  nem.bootstrap                     text    html    latex   example chm
  nem.calcSignificance              text    html    latex   example chm
  nem.consensus                     text    html    latex   example chm
  nem.cont.preprocess               text    html    latex   example chm
  nem.discretize                    text    html    latex   example chm
  nem.greedy                        text    html    latex   example chm
  nem.greedyMAP                     text    html    latex   example chm
  nem.jackknife                     text    html    latex   example chm
  nemModelSelection                 text    html    latex   example chm
  network.AIC                       text    html    latex   example chm
  pairwise.posterior                text    html    latex   example chm
  plot.nem                          text    html    latex           chm
  plotEffects                       text    html    latex   example chm
  prune.graph                       text    html    latex   example chm
  score                             text    html    latex   example chm
  selectEGenes                      text    html    latex   example chm
Note: removing empty section \seealso in file 'subsets.Rd'
Note: removing empty section \seealso in file 'subsets.Rd'
  subsets                           text    html    latex   example chm
  transitive.closure                text    html    latex   example chm
  transitive.projections            text    html    latex           chm
  transitive.reduction              text    html    latex   example chm
  triples.posterior                 text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling e:\biocbld\bbs-2.3-bioc\meat\nem.Rcheck\00_pkg_src\nem\chm\nem.chm


Compile time: 0 minutes, 0 seconds
37	Topics
229	Local links
0	Internet links
1	Graphic


Created e:\biocbld\bbs-2.3-bioc\meat\nem.Rcheck\00_pkg_src\nem\chm\nem.chm, 75,292 bytes
Compression decreased file by 104,914 bytes.
  adding MD5 sums

* DONE (nem)