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Package 250/251HostnameOS / ArchBUILDCHECKBUILD BIN
xps 0.3.12
Christian Stratowa
Snapshot Date: 2007-12-11 00:09:07 -0800 (Tue, 11 Dec 2007)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/xps
Last Changed Rev: 28904 / Revision: 29143
Last Changed Date: 2007-11-25 13:04:33 -0800 (Sun, 25 Nov 2007)
lamb1 Linux (SUSE 10.1) / x86_64 [ OK ] OK 
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 N O T   S U P P O R T E D
lemming Windows Server 2003 (32-bit) / x64 N O T   S U P P O R T E D
Package: xps
Version: 0.3.12
Command: /home/biocbuild/bbs-2.2-bioc/R/bin/R CMD build xps
StartedAt: 2007-12-11 02:35:42 -0800 (Tue, 11 Dec 2007)
EndedAt: 2007-12-11 02:37:13 -0800 (Tue, 11 Dec 2007)
EllapsedTime: 90.6 seconds
RetCode: 0
Status: OK
PackageFile: xps_0.3.12.tar.gz
PackageFileSize: 1.732 MiB

Command output

* checking for file 'xps/DESCRIPTION' ... OK
* preparing 'xps':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
* Installing *source* package 'xps' ...
checking for gcc... gcc -std=gnu99
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc -std=gnu99 accepts -g... yes
checking for gcc -std=gnu99 option to accept ANSI C... none needed
checking how to run the C preprocessor... gcc -std=gnu99 -E
checking for gcc... (cached) gcc -std=gnu99
checking whether we are using the GNU C compiler... (cached) yes
checking whether gcc -std=gnu99 accepts -g... (cached) yes
checking for gcc -std=gnu99 option to accept ANSI C... (cached) none needed
checking for root-config... yes
found ROOT version 5.17/05 in directory /usr/local
** libs
** arch - 
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c TMLMath.cxx
TMLMath.cxx:1109:1: warning: "xmax" redefined
TMLMath.cxx:1060:1: warning: this is the location of the previous definition
TMLMath.cxx: In static member function 'static Double_t TMLMath::PBetaRaw(Double_t, Double_t, Double_t, Int_t)':
TMLMath.cxx:1397: warning: converting to 'Int_t' from 'Double_t'
TMLMath.cxx:1403: warning: converting to 'Int_t' from 'Double_t'
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c TStat.cxx
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c StatUtils.cxx
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c XPSBase.cxx
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c XPSUtils.cxx
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c XPSSchemes.cxx
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c XPSDataTypes.cxx
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c XPSProjectHandler.cxx
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c XPSData.cxx
XPSData.cxx: In member function 'virtual Int_t XGeneChipHyb::ReadXMLHeader(std::ifstream&, const char*, char)':
XPSData.cxx:1963: warning: unused variable 'fNMasked'
XPSData.cxx:1973: warning: unused variable 'fNOutlier'
XPSData.cxx:1983: warning: unused variable 'fNModified'
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c XPSProcessing.cxx
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c XPSHybridizer.cxx
XPSHybridizer.cxx: In member function 'Double_t XDetectionCall::WilcoxTest(Int_t, Double_t*, Double_t)':
XPSHybridizer.cxx:1709: warning: 'pval' may be used uninitialized in this function
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c XPSSelector.cxx
XPSSelector.cxx: In member function 'Double_t XRankSelector::Cutoff(Int_t, const Double_t*, Double_t, Bool_t)':
XPSSelector.cxx:333: warning: 'par0' may be used uninitialized in this function
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c XPSNormalizer.cxx
XPSNormalizer.cxx: In member function 'virtual Int_t XNormalizer::Calculate(Int_t, Double_t*, Double_t*, Int_t*)':
XPSNormalizer.cxx:220: warning: 'his2all' may be used uninitialized in this function
XPSNormalizer.cxx:221: warning: 'his2sel' may be used uninitialized in this function
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c XPSPreProcessing.cxx
XPSPreProcessing.cxx: In member function 'virtual Int_t XGCProcesSet::DoMedianPolish(Int_t, TTree**, Int_t, TTree**)':
XPSPreProcessing.cxx:4180: warning: operation on 'numsels' may be undefined
XPSPreProcessing.cxx: In member function 'virtual Int_t XGCProcesSet::DoMedianPolish(Int_t, TTree**, Int_t, TTree**, TFile*)':
XPSPreProcessing.cxx:4533: warning: operation on 'numsels' may be undefined
XPSPreProcessing.cxx: In member function 'virtual Int_t XGenomeProcesSet::DetectCall(Int_t, TTree**, Int_t&, TTree**)':
XPSPreProcessing.cxx:4873: warning: unused variable 'scmleaf'
XPSPreProcessing.cxx: In member function 'virtual Int_t XGenomeProcesSet::DoMedianPolish(Int_t, TTree**, Int_t, TTree**)':
XPSPreProcessing.cxx:5671: warning: operation on 'numsels' may be undefined
XPSPreProcessing.cxx: In member function 'virtual Int_t XGenomeProcesSet::DoMedianPolish(Int_t, TTree**, Int_t, TTree**, TFile*)':
XPSPreProcessing.cxx:6056: warning: operation on 'numsels' may be undefined
XPSPreProcessing.cxx: In member function 'virtual Int_t XExonProcesSet::DoMedianPolish(Int_t, TTree**, Int_t, TTree**)':
XPSPreProcessing.cxx:7869: warning: operation on 'numsels' may be undefined
XPSPreProcessing.cxx: In member function 'virtual Int_t XExonProcesSet::DoMedianPolish(Int_t, TTree**, Int_t, TTree**, TFile*)':
XPSPreProcessing.cxx:8266: warning: operation on 'numsels' may be undefined
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c XPSNormation.cxx
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c rwrapper.cxx
Generating dictionary xpsDict.cxx...
g++ -O2 -Wall -fPIC -pthread -m64 -I/usr/local/include/root -c xpsDict.cxx
g++ -shared -O2 -m64 TMLMath.o TStat.o StatUtils.o XPSBase.o XPSUtils.o XPSSchemes.o XPSDataTypes.o XPSProjectHandler.o XPSData.o XPSProcessing.o XPSHybridizer.o XPSSelector.o XPSNormalizer.o XPSPreProcessing.o XPSNormation.o rwrapper.o xpsDict.o -o  xps.so -L/usr/local/lib/root -lCore -lCint -lRIO -lNet -lHist -lGraf -lGraf3d -lGpad -lTree -lRint -lPostscript -lMatrix -lPhysics -lGui -pthread -lm -ldl -rdynamic 
** R
** inst
** preparing package for lazy loading
** help
 >>> Building/Updating help pages for package 'xps'
     Formats: text html latex example 
  CallTreeSet-class                 text    html    latex   example
  DataTreeSet-class                 text    html    latex   example
  ExprTreeSet-class                 text    html    latex   example
  ProcesSet-class                   text    html    latex   example
  ProjectInfo-class                 text    html    latex   example
  ROOT                              text    html    latex
  SchemeTreeSet-class               text    html    latex   example
  TreeSet-class                     text    html    latex   example
  addData-methods                   text    html    latex   example
  attachBgrd-methods                text    html    latex
  attachInten-methods               text    html    latex   example
  attachMask-methods                text    html    latex   example
  bgcorrect                         text    html    latex   example
  boxplot-methods                   text    html    latex   example
  boxplot.dev                       text    html    latex
  callplot-methods                  text    html    latex
  dabg.call                         text    html    latex   example
  export                            text    html    latex   example
  export.root                       text    html    latex   example
  express                           text    html    latex   example
  getChipName                       text    html    latex   example
  getChipType                       text    html    latex   example
  getDatatype                       text    html    latex   example
  getNameType                       text    html    latex   example
  getNumberTrees                    text    html    latex   example
  getProbeInfo                      text    html    latex   example
  getTreeData-methods               text    html    latex
  getTreeNames                      text    html    latex   example
  hist-methods                      text    html    latex   example
  image-methods                     text    html    latex
  image.dev                         text    html    latex   example
  import.data                       text    html    latex   example
  import.exon.scheme                text    html    latex   example
  import.expr.scheme                text    html    latex   example
  import.genome.scheme              text    html    latex   example
  isROOTFile                        text    html    latex   example
  mas4                              text    html    latex   example
  mas5                              text    html    latex   example
  mas5.call                         text    html    latex   example
  mboxplot-methods                  text    html    latex   example
  mvaplot-methods                   text    html    latex
  mvaplot.dev                       text    html    latex
  normalize                         text    html    latex   example
  pm-methods                        text    html    latex   example
  pmplot-methods                    text    html    latex   example
  rma                               text    html    latex   example
  root.browser-methods              text    html    latex
  root.data                         text    html    latex   example
  root.density                      text    html    latex   example
  root.graph1D                      text    html    latex   example
  root.graph2D                      text    html    latex   example
  root.hist1D                       text    html    latex   example
  root.hist2D                       text    html    latex   example
  root.hist3D                       text    html    latex   example
  root.image                        text    html    latex   example
  root.mvaplot                      text    html    latex   example
  root.scheme                       text    html    latex   example
  summarize                         text    html    latex   example
  type2Exten                        text    html    latex   example
  validData-methods                 text    html    latex
  validTreetype                     text    html    latex   example
  xps-package                       text    html    latex
  xpsOptions                        text    html    latex
** building package indices ...
* DONE (xps)
* 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 'xps_0.3.12.tar.gz'