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Package 244/251HostnameOS / ArchBUILDCHECKBUILD BIN
vsn 3.4.1
Wolfgang Huber
Snapshot Date: 2007-12-11 00:09:07 -0800 (Tue, 11 Dec 2007)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/vsn
Last Changed Rev: 28963 / Revision: 29143
Last Changed Date: 2007-11-29 03:23:05 -0800 (Thu, 29 Nov 2007)
lamb1 Linux (SUSE 10.1) / x86_64  OK [ WARNINGS ]
wilson2 Linux (openSUSE 10.3) / x86_64  OK  WARNINGS 
wellington Linux (openSUSE 10.3) / i686  OK  WARNINGS 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  WARNINGS  OK 
lemming Windows Server 2003 (32-bit) / x64  OK  WARNINGS  OK 
Package: vsn
Version: 3.4.1
Command: /home/biocbuild/bbs-2.2-bioc/R/bin/R CMD check vsn_3.4.1.tar.gz
StartedAt: 2007-12-11 05:19:06 -0800 (Tue, 11 Dec 2007)
EndedAt: 2007-12-11 05:21:05 -0800 (Tue, 11 Dec 2007)
EllapsedTime: 118.5 seconds
RetCode: 0
Status: WARNINGS
CheckDir: vsn.Rcheck
Warnings: 1

Command output

* checking for working latex ... OK
* using log directory '/home/biocbuild/bbs-2.2-bioc/meat/vsn.Rcheck'
* using R version 2.7.0 Under development (unstable) (2007-11-18 r43497)
* checking for file 'vsn/DESCRIPTION' ... OK
* this is package 'vsn' version '3.4.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'vsn' 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 whether the name space 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 ... OK
* 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
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating vsn-Ex.R ... OK
* checking examples ... WARNING
Found the following significant warnings:
  Warning: The function 'vsn' is deprecated.
  Warning: The function 'vsn' 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 vsn-manual.tex ... OK
* checking vsn-manual.tex ... OK

WARNING: There was 1 warning, see
  /home/biocbuild/bbs-2.2-bioc/meat/vsn.Rcheck/00check.log
for details

vsn.Rcheck/00install.out:

* Installing *source* package 'vsn' ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c init.c -o init.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c vsn2.c -o vsn2.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c vsn.c -o vsn.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o vsn.so init.o vsn2.o vsn.o   -L/home/biocbuild/bbs-2.2-bioc/R/lib -lR
** R
** data
** inst
** preparing package for lazy loading
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

Loading required package: affy
Loading required package: affyio
Loading required package: preprocessCore
Loading required package: limma
Creating a new generic function for "logLik" in "vsn"
Creating a new generic function for "coef" in "vsn"
Creating a new generic function for "coefficients" in "vsn"
** help
 >>> Building/Updating help pages for package 'vsn'
     Formats: text html latex example 
  class.vsn                         text    html    latex   example
  class.vsnInput                    text    html    latex
  getIntensityMatrix                text    html    latex   example
  justvsn                           text    html    latex   example
  kidney                            text    html    latex   example
  lymphoma                          text    html    latex   example
  meanSdPlot                        text    html    latex   example
  normalize.AffyBatch.vsn           text    html    latex   example
  sagmbSimulateData                 text    html    latex   example
  scalingFactorTransformation       text    html    latex   example
  vsn-package                       text    html    latex
  vsn                               text    html    latex   example
  vsn2                              text    html    latex   example
  vsn2trsf                          text    html    latex   example
  vsnLikelihood                     text    html    latex   example
  vsnPlotPar                        text    html    latex   example
  vsnh                              text    html    latex   example
** building package indices ...
* DONE (vsn)