Package: MLInterfaces

Version: 1.4.0

Command: D:\biocbld\1.8d\R\bin\R.exe CMD check MLInterfaces_1.4.0.tar.gz

RetCode: 0

Time: 103.5 seconds

Status: WARNINGS

CheckDir: MLInterfaces.Rcheck

Warnings: 1

* checking for working latex ... OK
* using log directory 'D:/biocbld/1.8d/Rpacks/MLInterfaces.Rcheck'
* using Version 2.3.1 (2006-06-01)
* checking for file 'MLInterfaces/DESCRIPTION' ... OK
* this is package 'MLInterfaces' version '1.4.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'MLInterfaces' 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 syntax errors ... OK
* checking R files for library.dynam ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking Rd files ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* creating MLInterfaces-Ex.R ... OK
* checking examples ... WARNING
Found the following significant warnings:
  Warning: 'golubMerge' is deprecated.
  Warning: 'golubMerge' is deprecated.
  Warning: 'golubMerge' is deprecated.
  Warning: 'golubMerge' is deprecated.
  Warning: 'golubMerge' is deprecated.
  Warning: 'golubMerge' is deprecated.
  Warning: 'golubMerge' is deprecated.
Deprecated functions may be defunct as soon as of the next release of R.
See ?Deprecated.
* checking package vignettes in 'inst/doc' ... OK
* creating MLInterfaces-manual.tex ... OK
* checking MLInterfaces-manual.tex ... OK

WARNING: There was 1 warning, see
  D:/biocbld/1.8d/Rpacks/MLInterfaces.Rcheck/00check.log
for details

installing R.css in D:/biocbld/1.8d/Rpacks/MLInterfaces.Rcheck


---------- Making package MLInterfaces ------------
  adding build stamp to DESCRIPTION
  installing R files
  save image
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

    Vignettes contain introductory material. To view, type
    'openVignette()' or start with 'help(Biobase)'. For details
    on reading vignettes, see the openVignette help page.

[1] "MLLabel"
[1] "predClass"
[1] "groupIndex"
[1] "MLScore"
[1] "probMat"
[1] "probArray"
[1] "membMat"
[1] "qualScore"
[1] "silhouetteVec"
[1] "MLOutput"
[1] "classifOutput"
[1] "clustOutput"
[1] "show"
[1] "show"
[1] "show"
[1] "show"
[1] "show"
[1] "RObject"
[1] "RObject"
[1] "distMat"
[1] "distMat"
[1] "show"
[1] "predLabels"
[1] "predLabels"
[1] "predLabels"
[1] "predLabels"
[1] "allClass"
[1] "allClass"
[1] "trainInds"
[1] "trainInds"
[1] "confuMat"
[1] "confuMat"
[1] "ldaB"
[1] "ldaB"
[1] "qdaB"
[1] "qdaB"
[1] "isoMDSB"
[1] "MLearn"
[1] "MLearn"
[1] "MLearn"
[1] "knnB"
[1] "knnB"
[1] "knn1B"
[1] "knn1B"
[1] "lvq1B"
[1] "lvq1B"
[1] "lvq2B"
[1] "lvq2B"
[1] "lvq3B"
[1] "lvq3B"
[1] "olvq1B"
[1] "olvq1B"
[1] "SOMB"
[1] "agnesB"
[1] "agnesB"
[1] "claraB"
[1] "claraB"
[1] "dianaB"
[1] "dianaB"
[1] "fannyB"
[1] "fannyB"
[1] "pamB"
[1] "pamB"
[1] "cvB"
[1] "cvB"
[1] "bclustB"
[1] "bclustB"
[1] "cmeansB"
[1] "cmeansB"
[1] "cshellB"
[1] "cshellB"
[1] "lcaB"
[1] "lcaB"
[1] "naiveBayesB"
[1] "naiveBayesB"
[1] "svmB"
[1] "svmB"
[1] "gbmB"
[1] "gbmB"
[1] "logitboostB"
[1] "logitboostB"
[1] "baggingB"
[1] "baggingB"
[1] "ipredknnB"
[1] "ipredknnB"
[1] "sldaB"
[1] "sldaB"
[1] "nnetB"
[1] "nnetB"
[1] "pamrB"
[1] "pamrB"
[1] "planarPlot"
[1] "planarPlot"
[1] "randomForestB"
[1] "randomForestB"
[1] "rpartB"
[1] "rpartB"
[1] "silhouetteB"
[1] "silhouetteB"
[1] "stat.diag.daB"
[1] "stat.diag.daB"
[1] "somout"
[1] "show"
[1] "somB"
[1] "somB"
[1] "SOMBout"
[1] "show"
[1] "SOMB"
[1] "hclustB"
[1] "hclustB"
[1] "hclustB"
[1] "hclustB"
[1] "kmeansB"
[1] "kmeansB"
[1] "varImpStruct"
[1] "getVarImp"
[1] "getVarImp"
[1] "show"
Creating a new generic function for 'plot' in 'MLInterfaces'
[1] "plot"
[1] "xval"
[1] "xval"
[1] "xval"
[1] "xvalLoop"
[1] "xvalLoop"
  installing inst files
  installing man source files
  installing indices
  installing help
 >>> Building/Updating help pages for package 'MLInterfaces'
     Formats: text html latex example chm 
  MLIclust                          text    html    latex   example chm
  MLIntInternals                    text    html    latex   example chm
  MLearn-methods                    text    html    latex   example chm
  SOMB                              text    html    latex   example chm
  classifOutput-class               text    html    latex   example chm
  confuMat-methods                  text    html    latex   example chm
  knnB                              text    html    latex   example chm
  planarPlot-methods                text    html    latex   example chm
  varImpStruct-class                text    html    latex   example chm
  xval-methods                      text    html    latex   example chm
  xvalLoop-methods                  text    html    latex           chm
  xvalLoop                          text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling d:\biocbld\1.8d\Rpacks\MLInterfaces.Rcheck\00_pkg_src\MLInterfaces\chm\MLInterfaces.chm


Compile time: 0 minutes, 0 seconds
13	Topics
200	Local links
0	Internet links
1	Graphic


Created d:\biocbld\1.8d\Rpacks\MLInterfaces.Rcheck\00_pkg_src\MLInterfaces\chm\MLInterfaces.chm, 43,991 bytes
Compression decreased file by 67,672 bytes.
  adding MD5 sums

* DONE (MLInterfaces)