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Package 39/233HostnameOS / ArchBUILDCHECKBUILD BIN
BSgenome 1.6.2
H. Pages
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/BSgenome
Last Changed Rev: 29241 / Revision: 30966
Last Changed Date: 2007-12-18 11:21:37 -0800 (Tue, 18 Dec 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: BSgenome
Version: 1.6.2
Command: D:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check BSgenome_1.6.2.tar.gz
StartedAt: 2008-04-09 18:46:11 -0700 (Wed, 09 Apr 2008)
EndedAt: 2008-04-09 18:48:34 -0700 (Wed, 09 Apr 2008)
EllapsedTime: 143.4 seconds
RetCode: 0
Status: OK
CheckDir: BSgenome.Rcheck
Warnings: 0

Command output

* checking for working latex ... OK
* using log directory 'D:/biocbld/bbs-2.1-bioc/meat/BSgenome.Rcheck'
* using R version 2.6.2 (2008-02-08)
* checking for file 'BSgenome/DESCRIPTION' ... OK
* this is package 'BSgenome' version '1.6.2'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'BSgenome' 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 ... 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
* creating BSgenome-Ex.R ... OK
* checking examples ... OK
* creating BSgenome-manual.tex ... OK
* checking BSgenome-manual.tex ... OK

BSgenome.Rcheck/00install.out:

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


---------- Making package BSgenome ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  installing R files
  preparing package BSgenome 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: Biostrings
  installing man source files
  installing indices
  installing help
 >>> Building/Updating help pages for package 'BSgenome'
     Formats: text html latex example chm 
  BSgenome-class                    text    html    latex   example chm
  available.genomes                 text    html    latex   example chm
  buildDataFiles                    text    html    latex   example chm
  getSeq                            text    html    latex   example chm
HHC5012: Error: Cannot create a temporary file in your TEMP path.
HHC4016: Warning: Cannot open ";c:\Program Files\Windows Resource Kits\Tools\;c:\Program 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\BSgenome.Rcheck\00_pkg_src\BSgenome\chm\BSgenome.chm

HHC4016: Warning: Cannot open ";c:\Program Files\Windows Resource Kits\Tools\;c:\Program 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:
  adding MD5 sums

* DONE (BSgenome)