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Package 83/233HostnameOS / ArchBUILDCHECKBUILD BIN
GeneticsBase 1.2.0
Gregory Warnes
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/GeneticsBase
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: GeneticsBase
Version: 1.2.0
Command: D:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD build GeneticsBase
StartedAt: 2008-04-09 17:26:44 -0700 (Wed, 09 Apr 2008)
EndedAt: 2008-04-09 17:28:24 -0700 (Wed, 09 Apr 2008)
EllapsedTime: 100.1 seconds
RetCode: 0
Status: OK
PackageFile: GeneticsBase_1.2.0.tar.gz
PackageFileSize: 1.488 MiB

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 D:/biocbld/bbs-2.1-bioc/tmpdir/Rinst152403726


---------- 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++-sjlj   -Id:/biocbld/bbs-2.1-bioc/R/include     -O2 -Wall  -c LdMax.cpp -o LdMax.o
g++-sjlj   -Id:/biocbld/bbs-2.1-bioc/R/include     -O2 -Wall  -c convert.cpp -o convert.o
g++-sjlj   -Id:/biocbld/bbs-2.1-bioc/R/include     -O2 -Wall  -c getLDdist.cpp -o getLDdist.o
g++-sjlj   -Id:/biocbld/bbs-2.1-bioc/R/include     -O2 -Wall  -c readGenes.ped.cpp -o readGenes.ped.o
g++-sjlj   -Id:/biocbld/bbs-2.1-bioc/R/include     -O2 -Wall  -c register.cpp -o register.o
windres --preprocessor="gcc-sjlj -E -xc -DRC_INVOKED" -I d:/biocbld/bbs-2.1-bioc/R/include  -i GeneticsBase_res.rc -o GeneticsBase_res.o
g++-sjlj   -shared -s  -o GeneticsBase.dll GeneticsBase.def LdMax.o convert.o getLDdist.o readGenes.ped.o register.o GeneticsBase_res.o  -Ld:/biocbld/bbs-2.1-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
 >>> 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
  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
  description                       text    html    latex   example chm
  diseq                             text    html    latex   example chm
  errorMetrics                      text    html    latex   example chm
  extractAlleles                    text    html    latex   example chm
  fastGrid                          text    html    latex   example chm
  founderGeneSet                    text    html    latex   example chm
  geneSet-class                     text    html    latex   example chm
  geneSet2Ped                       text    html    latex   example chm
  genotypeCoding                    text    html    latex   example chm
  genotypeLevels                    text    html    latex   example chm
  genotypeSummary                   text    html    latex   example chm
  genotypes                         text    html    latex   example chm
  gregorius                         text    html    latex   example chm
  haplo.em.w                        text    html    latex   example chm
  haplo.scan.w                      text    html    latex   example chm
  haplo.score.slide.w               text    html    latex   example chm
  haplo.score.w                     text    html    latex   example chm
  hapmapchr                         text    html    latex   example chm
  homozygote                        text    html    latex   example chm
  html                              text    html    latex   example chm
  left                              text    html    latex   example chm
  makeMarkerInfo                    text    html    latex   example chm
  makeTransTable                    text    html    latex   example chm
  makeTransTableList                text    html    latex   example chm
  markerInfo                        text    html    latex   example chm
  markerNames                       text    html    latex   example chm
  markerSummary                     text    html    latex   example chm
  missingCodes                      text    html    latex   example chm
  nallele                           text    html    latex   example chm
  nmarker                           text    html    latex   example chm
  notes                             text    html    latex   example chm
  ped2geneSet                       text    html    latex           chm
  phase                             text    html    latex   example chm
  ploidy                            text    html    latex   example chm
  print.LD                          text    html    latex   example chm
  qtlex                             text    html    latex   example chm
  read.pfizer                       text    html    latex   example chm
  read.phe                          text    html    latex   example chm
  readGenes                         text    html    latex   example chm
  readGenes.ped                     text    html    latex   example chm
  readGenes.perlegen                text    html    latex   example chm
  readGenes.pfizer                  text    html    latex   example chm
  sampleInfo                        text    html    latex   example chm
  studyInfo                         text    html    latex   example chm
  transTables                       text    html    latex   example chm
  xbat                              text    html    latex   example chm
HHC5012: Error: Cannot create a temporary file in your TEMP path.

HHC4016: Warning: Cannot open "ram 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\GeneticsBase\chm\GeneticsBase.chm



HHC4016: Warning: Cannot open "ram 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 (GeneticsBase)
* creating vignettes ... OK
* cleaning src
* removing junk files
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building 'GeneticsBase_1.2.0.tar.gz'