Back to the "Multiple platform build/check report"[A] B  C  D  E  F  G  H  I  J  K  L  M  N  O  P  Q  R  S  T  U  V  W  X  Y  Z 

Package 7/233HostnameOS / ArchBUILDCHECKBUILD BIN
affycomp 1.14.0
Rafael A. Irizarry
Snapshot Date: 2008-04-09 12:13:20 -0700 (Wed, 09 Apr 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_1/madman/Rpacks/affycomp
Last Changed Rev: 27709 / Revision: 30966
Last Changed Date: 2007-10-02 17:41:09 -0700 (Tue, 02 Oct 2007)
lamb1 Linux (SUSE 10.1) / x86_64  OK  OK 
wilson2 Linux (openSUSE 10.3) / x86_64  OK  OK 
wellington Linux (openSUSE 10.3) / i686  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
lemming Windows Server 2003 (32-bit) / x64  OK [ OK ] OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
Package: affycomp
Version: 1.14.0
Command: D:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check affycomp_1.14.0.tar.gz
StartedAt: 2008-04-09 17:54:52 -0700 (Wed, 09 Apr 2008)
EndedAt: 2008-04-09 17:58:26 -0700 (Wed, 09 Apr 2008)
EllapsedTime: 214.3 seconds
RetCode: 0
Status: OK
CheckDir: affycomp.Rcheck
Warnings: 0

Command output

* checking for working latex ... OK
* using log directory 'D:/biocbld/bbs-2.1-bioc/meat/affycomp.Rcheck'
* using R version 2.6.2 (2008-02-08)
* checking for file 'affycomp/DESCRIPTION' ... OK
* this is package 'affycomp' version '1.14.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'affycomp' 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 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 ... NOTE
affycomp: no visible binding for global variable 'mas5.assessment'
read.dilution: no visible binding for global variable
  'dilution.phenodata'
read.spikein: no visible binding for global variable
  'spikein.phenodata'
read.spikein: no visible binding for global variable
  'hgu133a.spikein.phenodata'
remove.hgu133a.xhyb: no visible binding for global variable
  'hgu133a.spikein.xhyb'
* 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 affycomp-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating affycomp-manual.tex ... OK
* checking affycomp-manual.tex ... OK

affycomp.Rcheck/00install.out:

installing R.css in D:/biocbld/bbs-2.1-bioc/meat/affycomp.Rcheck


---------- Making package affycomp ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  installing R files
  installing inst files
  installing data files
  installing man source files
  installing indices
  not zipping data
  installing help
 >>> Building/Updating help pages for package 'affycomp'
     Formats: text html latex example chm 
  SD                                text    html    latex   example chm
  affycomp.compfigs.auxiliary       text    html    latex   example chm
  affycomp.figures.auxiliary        text    html    latex   example chm
  affycomp.table                    text    html    latex   example chm
  affycompPlot                      text    html    latex   example chm
  assessAll                         text    html    latex           chm
  assessDilution                    text    html    latex           chm
  assessSD                          text    html    latex           chm
  assessSpikeIn                     text    html    latex           chm
  assessSpikeIn2                    text    html    latex           chm
  dilution.phenodata                text    html    latex           chm
  exprset.log                       text    html    latex           chm
  hgu133a.spikein.phenodata         text    html    latex           chm
  lw.sd.assessment                  text    html    latex           chm
  mas5.assessment                   text    html    latex           chm
  readin                            text    html    latex           chm
  remove.hgu133a.xhyb               text    html    latex           chm
  rma.assessment                    text    html    latex           chm
  rma.sd.assessment                 text    html    latex           chm
  spikein.phenodata                 text    html    latex           chm
  xhyb                              text    html    latex           chm
HHC5012: Error: Cannot create a temporary file in your TEMP path.
HHC4016: Warning: Cannot open "Files\Affymetrix\GDAC NetAffx;c:\gs\gs8.51\bin;c:\Program Files\Java\jdk1.5.0_06\bin;c:\program files\imagemagick-6.3.2-q16;c:\Program Files\MySQL\MySQL Server 5.0\bin;c:\Program Files\ggobi".
Microsoft HTML Help Compiler 4.74.8702

Compiling d:\biocbld\bbs-2.1-bioc\meat\affycomp.Rcheck\00_pkg_src\affycomp\chm\affycomp.chm

HHC4016: Warning: Cannot open "Files\Affymetrix\GDAC NetAffx;c:\gs\gs8.51\bin;c:\Program Files\Java\jdk1.5.0_06\bin;c:\program files\imagemagick-6.3.2-q16;c:\Program Files\MySQL\MySQL Server 5.0\bin;c:\Program Files\ggobi".


The following files were not compiled:
  preparing package affycomp 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)'.

  adding MD5 sums

* DONE (affycomp)