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Package 95/264HostnameOS / ArchBUILDCHECKBUILD BIN
GeneticsBase 1.3.2
Gregory Warnes
Snapshot Date: 2008-04-09 00:13:10 -0700 (Wed, 09 Apr 2008)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/GeneticsBase
Last Changed Rev: 30521 / Revision: 30951
Last Changed Date: 2008-03-14 10:49:30 -0700 (Fri, 14 Mar 2008)
lamb1 Linux (SUSE 10.1) / x86_64  ERROR  skipped 
wilson2 Linux (openSUSE 10.3) / x86_64  ERROR  skipped 
wellington Linux (openSUSE 10.3) / i686  ERROR  skipped 
liverpool Windows Server 2003 R2 (32-bit) / x64 [ ERROR ] skipped  skipped 
pelham Mac OS X Leopard (10.5.1) / i386  ERROR  skipped  skipped 
Package: GeneticsBase
Version: 1.3.2
Command: E:\biocbld\bbs-2.2-bioc\R\bin\R.exe CMD build GeneticsBase
StartedAt: 2008-04-09 03:58:30 -0700 (Wed, 09 Apr 2008)
EndedAt: 2008-04-09 03:59:56 -0700 (Wed, 09 Apr 2008)
EllapsedTime: 85.7 seconds
RetCode: 1
Status: ERROR
PackageFile: None
PackageFileSize: NA

Command output

* checking for file 'GeneticsBase/DESCRIPTION' ... OK
* preparing 'GeneticsBase':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
installing R.css in E:/biocbld/bbs-2.2-bioc/tmpdir/Rinst495635302


---------- Making package GeneticsBase ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  making DLL ...
making LdMax.d from LdMax.cpp
making convert.d from convert.cpp
making getLDdist.d from getLDdist.cpp
making readGenes.ped.d from readGenes.ped.cpp
making register.d from register.cpp
g++   -Ie:/biocbld/bbs-2.2-bioc/R/include     -O2 -Wall  -c LdMax.cpp -o LdMax.o
g++   -Ie:/biocbld/bbs-2.2-bioc/R/include     -O2 -Wall  -c convert.cpp -o convert.o
g++   -Ie:/biocbld/bbs-2.2-bioc/R/include     -O2 -Wall  -c getLDdist.cpp -o getLDdist.o
g++   -Ie:/biocbld/bbs-2.2-bioc/R/include     -O2 -Wall  -c readGenes.ped.cpp -o readGenes.ped.o
g++   -Ie:/biocbld/bbs-2.2-bioc/R/include     -O2 -Wall  -c register.cpp -o register.o
windres --preprocessor="gcc -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.2-bioc/R/include  -i GeneticsBase_res.rc -o GeneticsBase_res.o
g++   -shared -s  -o GeneticsBase.dll GeneticsBase.def LdMax.o convert.o getLDdist.o readGenes.ped.o register.o GeneticsBase_res.o  -Le:/biocbld/bbs-2.2-bioc/R/bin    -lR
  ... DLL made
  installing DLL
  installing R files
  installing inst files
  installing data files
  preparing package GeneticsBase for lazy loading
Loading required package: combinat

Attaching package: 'combinat'


	The following object(s) are masked from package:utils :

	 combn 

Loading required package: xtable
Loading required package: mvtnorm
Loading required package: haplo.stats
  installing man source files
  installing indices
Loading required package: methods
Loading required package: combinat

Attaching package: 'combinat'


	The following object(s) are masked from package:utils :

	 combn 

Loading required package: xtable
Loading required package: mvtnorm
Loading required package: haplo.stats
  not zipping data
  installing help
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 >>> Building/Updating help pages for package 'GeneticsBase'
     Formats: text html latex example chm 
  ALZH                              text    html    latex   example chm
  Armitage                          text    html    latex   example chm
  CAMP                              text    html    latex   example chm
  HWE                               text    html    latex   example chm
  HWE.chisq                         text    html    latex   example chm
  HWE.exact                         text    html    latex   example chm
  LD-class                          text    html    latex   example chm
  LD                                text    html    latex   example chm
  LDband-class                      text    html    latex   example chm
  LDdist-class                      text    html    latex           chm
  PGtables                          text    html    latex   example chm
  PerlgenExample                    text    html    latex   example chm
  PfizerExample                     text    html    latex   example chm
  alleleCount                       text    html    latex   example chm
  alleleLevels                      text    html    latex   example chm
  alleleSummary                     text    html    latex   example chm
  alleles                           text    html    latex   example chm
  as.geneSet                        text    html    latex   example chm
  binsearch                         text    html    latex   example chm
  callCodes                         text    html    latex   example chm
  ci.balance                        text    html    latex   example chm
  convert                           text    html    latex   example chm
  decodeCallCodes                   text    html    latex   example chm
  desMarkers                        text    html    latex   example chm
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  errorMetrics                      text    html    latex   example chm
  extractAlleles                    text    html    latex           chm
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  founderGeneSet                    text    html    latex   example chm
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  geneSet2Ped                       text    html    latex   example chm
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  studyInfo                         text    html    latex   example chm
  transTables                       text    html    latex   example chm
  xbat                              text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702



Compiling e:\biocbld\bbs-2.2-bioc\meat\GeneticsBase\chm\GeneticsBase.chm





Compile time: 0 minutes, 2 seconds

71	Topics

269	Local links

8	Internet links

1	Graphic





Created e:\biocbld\bbs-2.2-bioc\meat\GeneticsBase\chm\GeneticsBase.chm, 106,961 bytes

Compression decreased file by 194,218 bytes.

  adding MD5 sums

* DONE (GeneticsBase)
* creating vignettes ... ERROR
Loading required package: combinat

Attaching package: 'combinat'


	The following object(s) are masked from package:utils :

	 combn 

Loading required package: xtable
Loading required package: mvtnorm
Loading required package: haplo.stats
Loading required package: gdata

Attaching package: 'gdata'


	The following object(s) are masked from package:GeneticsBase :

	 nobs 

Loading required package: gmodels
Loading required package: gtools

Attaching package: 'gtools'


	The following object(s) are masked from package:GeneticsBase :

	 binsearch 


Attaching package: 'GeneticsDesign'


	The following object(s) are masked from package:GeneticsBase :

	 gregorius 

Loading required package: MASS

Error: processing vignette 'Tutorial.Rnw' failed with diagnostics:
 chunk 37 
Error in `colnames<-`(`*tmp*`, value = c(0.1, 0.2, 0.3, 0.4, 0.5, 0.6,  : 
  attempt to set colnames on object with less than two dimensions
In addition: There were 50 or more warnings (use warnings() to see the first 50)
Execution halted