Package: xps

Version: 1.13.1

Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch xps_1.13.1.tar.gz

StartedAt: 2011-06-22 05:51:24 -0700 (Wed, 22 Jun 2011)

EndedAt: 2011-06-22 05:57:08 -0700 (Wed, 22 Jun 2011)

EllapsedTime: 344.2 seconds

RetCode: 0

Status:  OK

CheckDir: xps.Rcheck

Warnings: 0

* using log directory ‘/Users/biocbuild/bbs-2.9-bioc/meat/xps.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-06-03 r56037)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘xps/DESCRIPTION’ ... OK
* this is package ‘xps’ version ‘1.13.1’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘xps’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 13.6Mb
  sub-directories of 1Mb or more:
    doc    5.3Mb
    libs   5.3Mb
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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 package can be unloaded cleanly ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... 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 metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

* installing *source* package ‘xps’ ...
checking for gcc... gcc-4.2 -arch i386 -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-4.2 -arch i386 -std=gnu99 accepts -g... yes
checking for gcc-4.2 -arch i386 -std=gnu99 option to accept ANSI C... none needed
checking how to run the C preprocessor... gcc-4.2 -arch i386 -std=gnu99 -E
checking for gcc... (cached) gcc-4.2 -arch i386 -std=gnu99
checking whether we are using the GNU C compiler... (cached) yes
checking whether gcc-4.2 -arch i386 -std=gnu99 accepts -g... (cached) yes
checking for gcc-4.2 -arch i386 -std=gnu99 option to accept ANSI C... (cached) none needed
found ROOT version 5.27/04 in directory /usr/local/root
** libs
** arch - i386
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c TMLMath.cxx
TMLMath.cxx:1109:1: warning: "xmax" redefined
TMLMath.cxx:1060:1: warning: this is the location of the previous definition
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c TStat.cxx
In file included from TStat.cxx:53:
TStat.h:332: warning: unused parameter ‘x’
TStat.h:333: warning: unused parameter ‘x’
TStat.h:334: warning: unused parameter ‘x’
TStat.h:335: warning: unused parameter ‘x’
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c StatUtils.cxx
In file included from StatUtils.cxx:58:
TStat.h:332: warning: unused parameter ‘x’
TStat.h:333: warning: unused parameter ‘x’
TStat.h:334: warning: unused parameter ‘x’
TStat.h:335: warning: unused parameter ‘x’
StatUtils.cxx:240: warning: unused parameter ‘df’
StatUtils.cxx:264: warning: unused parameter ‘df’
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSBase.cxx
In file included from XPSBase.cxx:101:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSUtils.cxx
In file included from XPSUtils.cxx:79:
TStat.h:332: warning: unused parameter ‘x’
TStat.h:333: warning: unused parameter ‘x’
TStat.h:334: warning: unused parameter ‘x’
TStat.h:335: warning: unused parameter ‘x’
XPSUtils.cxx:1332: warning: unused parameter ‘canvasname’
XPSUtils.cxx:1332: warning: unused parameter ‘treename’
XPSUtils.cxx:1332: warning: unused parameter ‘varexp’
XPSUtils.cxx:1332: warning: unused parameter ‘selection’
XPSUtils.cxx:1332: warning: unused parameter ‘opt’
XPSUtils.cxx:1721: warning: unused parameter ‘min’
XPSUtils.cxx:1721: warning: unused parameter ‘max’
XPSUtils.cxx:2116: warning: unused parameter ‘n’
XPSUtils.cxx:2116: warning: unused parameter ‘x’
XPSUtils.cxx:2116: warning: unused parameter ‘y’
XPSUtils.cxx:2116: warning: unused parameter ‘z’
XPSUtils.cxx:2116: warning: unused parameter ‘opt’
XPSUtils.cxx:2624: warning: unused parameter ‘index’
XPSUtils.cxx:3077: warning: unused parameter ‘n’
XPSUtils.cxx:3077: warning: unused parameter ‘colors’
XPSUtils.cxx:3077: warning: unused parameter ‘priority’
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSSchemes.cxx
In file included from XPSSchemes.h:41,
                 from XPSSchemes.cxx:71:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
XPSSchemes.cxx:10004: warning: unused parameter ‘index’
XPSSchemes.cxx:10015: warning: unused parameter ‘index’
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSDataTypes.cxx
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSProjectHandler.cxx
In file included from XPSProjectHandler.cxx:47:
XPSProjectHandler.h:84: warning: unused parameter ‘name’
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSData.cxx
In file included from XPSSchemes.h:41,
                 from XPSData.h:43,
                 from XPSData.cxx:80:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
In file included from XPSData.h:47,
                 from XPSData.cxx:80:
XPSProjectHandler.h:84: warning: unused parameter ‘name’
In file included from XPSData.cxx:80:
XPSData.h:700: warning: unused parameter ‘min’
XPSData.h:700: warning: unused parameter ‘max’
XPSData.h:700: warning: unused parameter ‘var2sort’
XPSData.h:700: warning: unused parameter ‘down’
In file included from XPSData.cxx:82:
TStat.h:332: warning: unused parameter ‘x’
TStat.h:333: warning: unused parameter ‘x’
TStat.h:334: warning: unused parameter ‘x’
TStat.h:335: warning: unused parameter ‘x’
XPSData.cxx:504: warning: unused parameter ‘name’
XPSData.cxx: In member function ‘virtual Int_t XGeneChipHyb::ExportMaskTreeInfo(Int_t, TString*, const char*, std::ofstream&, const char*)’:
XPSData.cxx:1797: warning: unused variable ‘err’
XPSData.cxx: At global scope:
XPSData.cxx:1792: warning: unused parameter ‘n’
XPSData.cxx:1792: warning: unused parameter ‘names’
XPSData.cxx:1792: warning: unused parameter ‘varlist’
XPSData.cxx:1792: warning: unused parameter ‘output’
XPSData.cxx:1792: warning: unused parameter ‘sep’
XPSData.cxx: In member function ‘virtual Int_t XGeneChipHyb::ReadXMLHeader(std::ifstream&, const char*, char)’:
XPSData.cxx:2810: warning: unused variable ‘fNMasked’
XPSData.cxx:2820: warning: unused variable ‘fNOutlier’
XPSData.cxx:2830: warning: unused variable ‘fNModified’
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSProcessing.cxx
In file included from XPSSchemes.h:41,
                 from XPSProcessing.h:42,
                 from XPSProcessing.cxx:69:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
In file included from XPSData.h:47,
                 from XPSProcessing.h:46,
                 from XPSProcessing.cxx:69:
XPSProjectHandler.h:84: warning: unused parameter ‘name’
In file included from XPSProcessing.h:46,
                 from XPSProcessing.cxx:69:
XPSData.h:700: warning: unused parameter ‘min’
XPSData.h:700: warning: unused parameter ‘max’
XPSData.h:700: warning: unused parameter ‘var2sort’
XPSData.h:700: warning: unused parameter ‘down’
In file included from XPSProcessing.cxx:71:
TStat.h:332: warning: unused parameter ‘x’
TStat.h:333: warning: unused parameter ‘x’
TStat.h:334: warning: unused parameter ‘x’
TStat.h:335: warning: unused parameter ‘x’
XPSProcessing.cxx:786: warning: unused parameter ‘name’
XPSProcessing.cxx: In member function ‘virtual Int_t XProcesSet::ExportMaskTreeInfo(Int_t, TString*, const char*, std::ofstream&, const char*)’:
XPSProcessing.cxx:1530: warning: unused variable ‘err’
XPSProcessing.cxx: At global scope:
XPSProcessing.cxx:1525: warning: unused parameter ‘n’
XPSProcessing.cxx:1525: warning: unused parameter ‘names’
XPSProcessing.cxx:1525: warning: unused parameter ‘varlist’
XPSProcessing.cxx:1525: warning: unused parameter ‘output’
XPSProcessing.cxx:1525: warning: unused parameter ‘sep’
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSHybridizer.cxx
In file included from XPSHybridizer.cxx:64:
TStat.h:332: warning: unused parameter ‘x’
TStat.h:333: warning: unused parameter ‘x’
TStat.h:334: warning: unused parameter ‘x’
TStat.h:335: warning: unused parameter ‘x’
In file included from XPSSchemes.h:41,
                 from XPSProcessing.h:42,
                 from XPSHybridizer.h:42,
                 from XPSHybridizer.cxx:65:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
In file included from XPSData.h:47,
                 from XPSProcessing.h:46,
                 from XPSHybridizer.h:42,
                 from XPSHybridizer.cxx:65:
XPSProjectHandler.h:84: warning: unused parameter ‘name’
In file included from XPSProcessing.h:46,
                 from XPSHybridizer.h:42,
                 from XPSHybridizer.cxx:65:
XPSData.h:700: warning: unused parameter ‘min’
XPSData.h:700: warning: unused parameter ‘max’
XPSData.h:700: warning: unused parameter ‘var2sort’
XPSData.h:700: warning: unused parameter ‘down’
In file included from XPSHybridizer.cxx:65:
XPSHybridizer.h:178: warning: unused parameter ‘n’
XPSHybridizer.h:178: warning: unused parameter ‘x’
XPSHybridizer.h:178: warning: unused parameter ‘y’
XPSHybridizer.h:178: warning: unused parameter ‘z’
XPSHybridizer.h:178: warning: unused parameter ‘dx’
XPSHybridizer.h:178: warning: unused parameter ‘dy’
XPSHybridizer.h:178: warning: unused parameter ‘idx’
XPSHybridizer.h:178: warning: unused parameter ‘nsub’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:438: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:438: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:438: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.cxx:748: warning: unused parameter ‘msk’
XPSHybridizer.cxx:1872: warning: unused parameter ‘num’
XPSHybridizer.cxx:1985: warning: unused parameter ‘num’
XPSHybridizer.cxx:2168: warning: unused parameter ‘value1’
XPSHybridizer.cxx:2168: warning: unused parameter ‘value2’
XPSHybridizer.cxx:2168: warning: unused parameter ‘num’
XPSHybridizer.cxx:2292: warning: unused parameter ‘num’
XPSHybridizer.cxx:2552: warning: unused parameter ‘msk’
XPSHybridizer.cxx:2596: warning: unused parameter ‘x’
XPSHybridizer.cxx:2596: warning: unused parameter ‘scale’
XPSHybridizer.cxx:2784: warning: unused parameter ‘x’
XPSHybridizer.cxx:2784: warning: unused parameter ‘scale’
XPSHybridizer.cxx:3831: warning: unused parameter ‘msk’
XPSHybridizer.cxx:3891: warning: unused parameter ‘msk’
XPSHybridizer.cxx:4464: warning: unused parameter ‘msk’
XPSHybridizer.cxx: In member function ‘Double_t XDetectionCall::WilcoxTest(Int_t, Double_t*, Double_t)’:
XPSHybridizer.cxx:2066: warning: ‘pval’ may be used uninitialized in this function
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSSelector.cxx
In file included from XPSSchemes.h:41,
                 from XPSProcessing.h:42,
                 from XPSSelector.h:42,
                 from XPSSelector.cxx:52:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
In file included from XPSData.h:47,
                 from XPSProcessing.h:46,
                 from XPSSelector.h:42,
                 from XPSSelector.cxx:52:
XPSProjectHandler.h:84: warning: unused parameter ‘name’
In file included from XPSProcessing.h:46,
                 from XPSSelector.h:42,
                 from XPSSelector.cxx:52:
XPSData.h:700: warning: unused parameter ‘min’
XPSData.h:700: warning: unused parameter ‘max’
XPSData.h:700: warning: unused parameter ‘var2sort’
XPSData.h:700: warning: unused parameter ‘down’
In file included from XPSSelector.cxx:52:
XPSSelector.h:152: warning: ‘virtual Int_t XProbeSelector::Calculate(Int_t, Double_t*, Double_t*, Int_t*)’ was hidden
XPSSelector.h:209: warning:   by ‘XUnitSelector::Calculate’
XPSSelector.cxx:316: warning: unused parameter ‘max’
XPSSelector.cxx:316: warning: unused parameter ‘showGraph’
XPSSelector.cxx: In member function ‘Double_t XRankSelector::Cutoff(Int_t, const Double_t*, Double_t, Bool_t)’:
XPSSelector.cxx:334: warning: ‘par0’ may be used uninitialized in this function
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSNormalizer.cxx
In file included from XPSSchemes.h:41,
                 from XPSProcessing.h:42,
                 from XPSNormalizer.h:42,
                 from XPSNormalizer.cxx:63:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
In file included from XPSData.h:47,
                 from XPSProcessing.h:46,
                 from XPSNormalizer.h:42,
                 from XPSNormalizer.cxx:63:
XPSProjectHandler.h:84: warning: unused parameter ‘name’
In file included from XPSProcessing.h:46,
                 from XPSNormalizer.h:42,
                 from XPSNormalizer.cxx:63:
XPSData.h:700: warning: unused parameter ‘min’
XPSData.h:700: warning: unused parameter ‘max’
XPSData.h:700: warning: unused parameter ‘var2sort’
XPSData.h:700: warning: unused parameter ‘down’
In file included from XPSNormalizer.cxx:64:
TStat.h:332: warning: unused parameter ‘x’
TStat.h:333: warning: unused parameter ‘x’
TStat.h:334: warning: unused parameter ‘x’
TStat.h:335: warning: unused parameter ‘x’
XPSNormalizer.cxx:533: warning: unused parameter ‘xout’
XPSNormalizer.cxx:610: warning: unused parameter ‘xout’
XPSNormalizer.cxx:689: warning: unused parameter ‘xout’
XPSNormalizer.cxx:1129: warning: unused parameter ‘n’
XPSNormalizer.cxx:1160: warning: unused parameter ‘n’
XPSNormalizer.cxx:1297: warning: unused parameter ‘x’
XPSNormalizer.cxx:1297: warning: unused parameter ‘msk’
XPSNormalizer.cxx: In member function ‘virtual Int_t XNormalizer::Calculate(Int_t, Double_t*, Double_t*, Int_t*)’:
XPSNormalizer.cxx:240: warning: ‘his2sel’ may be used uninitialized in this function
XPSNormalizer.cxx:239: warning: ‘his2all’ may be used uninitialized in this function
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSPreProcessing.cxx
In file included from XPSSchemes.h:41,
                 from XPSProcessing.h:42,
                 from XPSPreProcessing.h:42,
                 from XPSPreProcessing.cxx:93:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
In file included from XPSData.h:47,
                 from XPSProcessing.h:46,
                 from XPSPreProcessing.h:42,
                 from XPSPreProcessing.cxx:93:
XPSProjectHandler.h:84: warning: unused parameter ‘name’
In file included from XPSProcessing.h:46,
                 from XPSPreProcessing.h:42,
                 from XPSPreProcessing.cxx:93:
XPSData.h:700: warning: unused parameter ‘min’
XPSData.h:700: warning: unused parameter ‘max’
XPSData.h:700: warning: unused parameter ‘var2sort’
XPSData.h:700: warning: unused parameter ‘down’
In file included from XPSPreProcessing.cxx:93:
XPSPreProcessing.h:324: warning: ‘virtual Int_t XPreProcesSet::QualityControl(Int_t, TTree**, Int_t&, TTree**)’ was hidden
XPSPreProcessing.h:395: warning:   by ‘virtual Int_t XGCProcesSet::QualityControl(Int_t, TTree**, Int_t, TTree**, const char*)’
In file included from XPSPreProcessing.cxx:94:
XPSHybridizer.h:178: warning: unused parameter ‘n’
XPSHybridizer.h:178: warning: unused parameter ‘x’
XPSHybridizer.h:178: warning: unused parameter ‘y’
XPSHybridizer.h:178: warning: unused parameter ‘z’
XPSHybridizer.h:178: warning: unused parameter ‘dx’
XPSHybridizer.h:178: warning: unused parameter ‘dy’
XPSHybridizer.h:178: warning: unused parameter ‘idx’
XPSHybridizer.h:178: warning: unused parameter ‘nsub’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:438: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:438: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:438: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
In file included from XPSPreProcessing.cxx:95:
XPSSelector.h:152: warning: ‘virtual Int_t XProbeSelector::Calculate(Int_t, Double_t*, Double_t*, Int_t*)’ was hidden
XPSSelector.h:209: warning:   by ‘XUnitSelector::Calculate’
In file included from XPSPreProcessing.cxx:97:
TStat.h:332: warning: unused parameter ‘x’
TStat.h:333: warning: unused parameter ‘x’
TStat.h:334: warning: unused parameter ‘x’
TStat.h:335: warning: unused parameter ‘x’
XPSPreProcessing.cxx: In member function ‘virtual Int_t XGCProcesSet::DoDataQualityControl(Int_t, TTree**, TTree**, TTree**, XDNAChip*, TFile*)’:
XPSPreProcessing.cxx:3026: warning: operation on ‘numsels’ may be undefined
XPSPreProcessing.cxx: In member function ‘virtual Int_t XGCProcesSet::DoBorderElements(Int_t, TTree**, TTree**, XDNAChip*, TFile*)’:
XPSPreProcessing.cxx:3515: warning: unused variable ‘idxhi’
XPSPreProcessing.cxx:3515: warning: unused variable ‘idxlo’
XPSPreProcessing.cxx: At global scope:
XPSPreProcessing.cxx:3502: warning: unused parameter ‘file’
XPSPreProcessing.cxx: In member function ‘virtual Int_t XGCProcesSet::DoBgrdQualityControl(Int_t, TTree**, XDNAChip*, TFile*)’:
XPSPreProcessing.cxx:3670: warning: unused variable ‘numunits’
XPSPreProcessing.cxx:3671: warning: unused variable ‘size’
XPSPreProcessing.cxx: At global scope:
XPSPreProcessing.cxx:3661: warning: unused parameter ‘numbgrd’
XPSPreProcessing.cxx:3661: warning: unused parameter ‘bgrdtree’
XPSPreProcessing.cxx:3661: warning: unused parameter ‘file’
XPSPreProcessing.cxx: In member function ‘virtual Int_t XGCProcesSet::DoMultichipCall(Int_t, TTree**, Int_t&, TTree**, TFile*)’:
XPSPreProcessing.cxx:4252: warning: operation on ‘numsels’ may be undefined
XPSPreProcessing.cxx: In member function ‘virtual Int_t XGCProcesSet::DoMultichipExpress(Int_t, TTree**, Int_t, TTree**, TFile*)’:
XPSPreProcessing.cxx:5135: warning: operation on ‘numsels’ may be undefined
XPSPreProcessing.cxx: In member function ‘virtual Int_t XGCProcesSet::ExportQualTrees(Int_t, TString*, const char*, std::ofstream&, const char*)’:
XPSPreProcessing.cxx:6762: warning: unused variable ‘idxstr’
XPSPreProcessing.cxx: At global scope:
XPSPreProcessing.cxx:7981: warning: unused parameter ‘bgrd’
XPSPreProcessing.cxx:7981: warning: unused parameter ‘bgdev’
XPSPreProcessing.cxx:8077: warning: unused parameter ‘algorithm’
XPSPreProcessing.cxx:8097: warning: unused parameter ‘algorithm’
XPSPreProcessing.cxx:8599: warning: unused parameter ‘nrow’
XPSPreProcessing.cxx: In member function ‘TTree* XGCProcesSet::FillDataTree(TTree*, const char*, XAlgorithm*, Int_t, Int_t, Double_t*, Double_t*)’:
XPSPreProcessing.cxx:8737: warning: label ‘cleanup’ defined but not used
XPSPreProcessing.cxx: In member function ‘virtual Int_t XExonProcesSet::DoSpliceExpress(Int_t, TTree**, Int_t, TTree**, TFile*)’:
XPSPreProcessing.cxx:9591: warning: operation on ‘numsels’ may be undefined
XPSPreProcessing.cxx:9782: warning: unused variable ‘numatoms’
XPSPreProcessing.cxx:9389: warning: unused variable ‘x’
XPSPreProcessing.cxx:9390: warning: unused variable ‘y’
XPSPreProcessing.cxx:9395: warning: unused variable ‘stepout’
XPSPreProcessing.cxx: In member function ‘virtual TTree* XExonProcesSet::SchemeTree(XAlgorithm*, void*, TLeaf**)’:
XPSPreProcessing.cxx:10349: warning: unused variable ‘scheme_ptr_ptr’
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSNormation.cxx
In file included from XPSSchemes.h:41,
                 from XPSProcessing.h:42,
                 from XPSNormation.h:42,
                 from XPSNormation.cxx:70:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
In file included from XPSData.h:47,
                 from XPSProcessing.h:46,
                 from XPSNormation.h:42,
                 from XPSNormation.cxx:70:
XPSProjectHandler.h:84: warning: unused parameter ‘name’
In file included from XPSProcessing.h:46,
                 from XPSNormation.h:42,
                 from XPSNormation.cxx:70:
XPSData.h:700: warning: unused parameter ‘min’
XPSData.h:700: warning: unused parameter ‘max’
XPSData.h:700: warning: unused parameter ‘var2sort’
XPSData.h:700: warning: unused parameter ‘down’
In file included from XPSNormation.cxx:71:
XPSSelector.h:152: warning: ‘virtual Int_t XProbeSelector::Calculate(Int_t, Double_t*, Double_t*, Int_t*)’ was hidden
XPSSelector.h:209: warning:   by ‘XUnitSelector::Calculate’
In file included from XPSNormation.cxx:73:
TStat.h:332: warning: unused parameter ‘x’
TStat.h:333: warning: unused parameter ‘x’
TStat.h:334: warning: unused parameter ‘x’
TStat.h:335: warning: unused parameter ‘x’
XPSNormation.cxx:182: warning: unused parameter ‘infile’
XPSNormation.cxx:1019: warning: unused parameter ‘method’
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSFilter.cxx
In file included from XPSFilter.h:49,
                 from XPSFilter.cxx:44:
TStat.h:332: warning: unused parameter ‘x’
TStat.h:333: warning: unused parameter ‘x’
TStat.h:334: warning: unused parameter ‘x’
TStat.h:335: warning: unused parameter ‘x’
In file included from XPSSchemes.h:41,
                 from XPSProcessing.h:42,
                 from XPSFilter.h:52,
                 from XPSFilter.cxx:44:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
In file included from XPSData.h:47,
                 from XPSProcessing.h:46,
                 from XPSFilter.h:52,
                 from XPSFilter.cxx:44:
XPSProjectHandler.h:84: warning: unused parameter ‘name’
In file included from XPSProcessing.h:46,
                 from XPSFilter.h:52,
                 from XPSFilter.cxx:44:
XPSData.h:700: warning: unused parameter ‘min’
XPSData.h:700: warning: unused parameter ‘max’
XPSData.h:700: warning: unused parameter ‘var2sort’
XPSData.h:700: warning: unused parameter ‘down’
In file included from XPSFilter.cxx:44:
XPSFilter.h:118: warning: ‘virtual Int_t XFilter::Calculate(TTree*, const char*, TTree*, const char*)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSFilter.h:118: warning: ‘virtual Int_t XFilter::Calculate(TTree*, const char*, TTree*, const char*)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSFilter.h:120: warning: ‘virtual Int_t XFilter::Calculate(Int_t, TTree**, const char*, TTree*, const char*)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSFilter.cxx:621: warning: unused parameter ‘sepo’
XPSFilter.cxx:1351: warning: unused parameter ‘table’
XPSFilter.cxx:1630: warning: unused parameter ‘infile’
XPSFilter.cxx:1630: warning: unused parameter ‘outfile’
XPSFilter.cxx:1630: warning: unused parameter ‘varlist’
XPSFilter.cxx:1630: warning: unused parameter ‘nrows’
XPSFilter.cxx:1630: warning: unused parameter ‘sepi’
XPSFilter.cxx:1630: warning: unused parameter ‘sepo’
XPSFilter.cxx:1630: warning: unused parameter ‘delim’
XPSFilter.cxx: In member function ‘virtual Int_t XUniFilter::Calculate(TTree*, const char*, TTree*, const char*, Int_t)’:
XPSFilter.cxx:1787: warning: unused variable ‘brchUnit’
XPSFilter.cxx: At global scope:
XPSFilter.cxx:1657: warning: unused parameter ‘leafname’
XPSFilter.cxx:1839: warning: unused parameter ‘outtree’
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSAnalyzer.cxx
In file included from XPSSchemes.h:41,
                 from XPSProcessing.h:42,
                 from XPSAnalyzer.h:45,
                 from XPSAnalyzer.cxx:42:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
In file included from XPSData.h:47,
                 from XPSProcessing.h:46,
                 from XPSAnalyzer.h:45,
                 from XPSAnalyzer.cxx:42:
XPSProjectHandler.h:84: warning: unused parameter ‘name’
In file included from XPSProcessing.h:46,
                 from XPSAnalyzer.h:45,
                 from XPSAnalyzer.cxx:42:
XPSData.h:700: warning: unused parameter ‘min’
XPSData.h:700: warning: unused parameter ‘max’
XPSData.h:700: warning: unused parameter ‘var2sort’
XPSData.h:700: warning: unused parameter ‘down’
XPSAnalyzer.cxx:213: warning: unused parameter ‘type’
XPSAnalyzer.cxx:213: warning: unused parameter ‘options’
XPSAnalyzer.cxx:213: warning: unused parameter ‘npars’
XPSAnalyzer.cxx:213: warning: unused parameter ‘pars’
XPSAnalyzer.cxx:227: warning: unused parameter ‘infile’
XPSAnalyzer.cxx:227: warning: unused parameter ‘outfile’
XPSAnalyzer.cxx:227: warning: unused parameter ‘varlist’
XPSAnalyzer.cxx:227: warning: unused parameter ‘nrows’
XPSAnalyzer.cxx:227: warning: unused parameter ‘nperm’
XPSAnalyzer.cxx:227: warning: unused parameter ‘mu’
XPSAnalyzer.cxx:227: warning: unused parameter ‘sepi’
XPSAnalyzer.cxx:227: warning: unused parameter ‘sepo’
XPSAnalyzer.cxx:227: warning: unused parameter ‘delim’
XPSAnalyzer.cxx:227: warning: unused parameter ‘linebuf’
XPSAnalyzer.cxx:239: warning: unused parameter ‘n’
XPSAnalyzer.cxx:239: warning: unused parameter ‘gid’
XPSAnalyzer.cxx:239: warning: unused parameter ‘intree’
XPSAnalyzer.cxx:239: warning: unused parameter ‘leafname’
XPSAnalyzer.cxx:239: warning: unused parameter ‘outtree’
XPSAnalyzer.cxx:239: warning: unused parameter ‘varlist’
XPSAnalyzer.cxx:239: warning: unused parameter ‘nperm’
XPSAnalyzer.cxx:239: warning: unused parameter ‘mu’
XPSAnalyzer.cxx:288: warning: unused parameter ‘type’
XPSAnalyzer.cxx:288: warning: unused parameter ‘options’
XPSAnalyzer.cxx:288: warning: unused parameter ‘npars’
XPSAnalyzer.cxx:288: warning: unused parameter ‘pars’
XPSAnalyzer.cxx:302: warning: unused parameter ‘infile’
XPSAnalyzer.cxx:302: warning: unused parameter ‘outfile’
XPSAnalyzer.cxx:302: warning: unused parameter ‘varlist’
XPSAnalyzer.cxx:302: warning: unused parameter ‘nrows’
XPSAnalyzer.cxx:302: warning: unused parameter ‘nperm’
XPSAnalyzer.cxx:302: warning: unused parameter ‘mu’
XPSAnalyzer.cxx:302: warning: unused parameter ‘sepi’
XPSAnalyzer.cxx:302: warning: unused parameter ‘sepo’
XPSAnalyzer.cxx:302: warning: unused parameter ‘delim’
XPSAnalyzer.cxx:302: warning: unused parameter ‘linebuf’
XPSAnalyzer.cxx:314: warning: unused parameter ‘n’
XPSAnalyzer.cxx:314: warning: unused parameter ‘gid’
XPSAnalyzer.cxx:314: warning: unused parameter ‘intree’
XPSAnalyzer.cxx:314: warning: unused parameter ‘leafname’
XPSAnalyzer.cxx:314: warning: unused parameter ‘outtree’
XPSAnalyzer.cxx:314: warning: unused parameter ‘varlist’
XPSAnalyzer.cxx:314: warning: unused parameter ‘nperm’
XPSAnalyzer.cxx:314: warning: unused parameter ‘mu’
XPSAnalyzer.cxx:363: warning: unused parameter ‘type’
XPSAnalyzer.cxx:363: warning: unused parameter ‘options’
XPSAnalyzer.cxx:363: warning: unused parameter ‘npars’
XPSAnalyzer.cxx:363: warning: unused parameter ‘pars’
XPSAnalyzer.cxx:377: warning: unused parameter ‘infile’
XPSAnalyzer.cxx:377: warning: unused parameter ‘outfile’
XPSAnalyzer.cxx:377: warning: unused parameter ‘varlist’
XPSAnalyzer.cxx:377: warning: unused parameter ‘nrows’
XPSAnalyzer.cxx:377: warning: unused parameter ‘nperm’
XPSAnalyzer.cxx:377: warning: unused parameter ‘mu’
XPSAnalyzer.cxx:377: warning: unused parameter ‘sepi’
XPSAnalyzer.cxx:377: warning: unused parameter ‘sepo’
XPSAnalyzer.cxx:377: warning: unused parameter ‘delim’
XPSAnalyzer.cxx:377: warning: unused parameter ‘linebuf’
XPSAnalyzer.cxx:389: warning: unused parameter ‘n’
XPSAnalyzer.cxx:389: warning: unused parameter ‘gid’
XPSAnalyzer.cxx:389: warning: unused parameter ‘intree’
XPSAnalyzer.cxx:389: warning: unused parameter ‘leafname’
XPSAnalyzer.cxx:389: warning: unused parameter ‘outtree’
XPSAnalyzer.cxx:389: warning: unused parameter ‘varlist’
XPSAnalyzer.cxx:389: warning: unused parameter ‘nperm’
XPSAnalyzer.cxx:389: warning: unused parameter ‘mu’
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c XPSAnalysis.cxx
In file included from XPSSchemes.h:41,
                 from XPSAnalysis.h:41,
                 from XPSAnalysis.cxx:63:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
In file included from XPSData.h:47,
                 from XPSProcessing.h:46,
                 from XPSAnalysis.h:44,
                 from XPSAnalysis.cxx:63:
XPSProjectHandler.h:84: warning: unused parameter ‘name’
In file included from XPSProcessing.h:46,
                 from XPSAnalysis.h:44,
                 from XPSAnalysis.cxx:63:
XPSData.h:700: warning: unused parameter ‘min’
XPSData.h:700: warning: unused parameter ‘max’
XPSData.h:700: warning: unused parameter ‘var2sort’
XPSData.h:700: warning: unused parameter ‘down’
In file included from XPSFilter.h:49,
                 from XPSAnalysis.cxx:64:
TStat.h:332: warning: unused parameter ‘x’
TStat.h:333: warning: unused parameter ‘x’
TStat.h:334: warning: unused parameter ‘x’
TStat.h:335: warning: unused parameter ‘x’
In file included from XPSAnalysis.cxx:64:
XPSFilter.h:118: warning: ‘virtual Int_t XFilter::Calculate(TTree*, const char*, TTree*, const char*)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSFilter.h:118: warning: ‘virtual Int_t XFilter::Calculate(TTree*, const char*, TTree*, const char*)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSFilter.h:120: warning: ‘virtual Int_t XFilter::Calculate(Int_t, TTree**, const char*, TTree*, const char*)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSAnalysis.cxx:266: warning: unused parameter ‘infile’
XPSAnalysis.cxx:444: warning: unused parameter ‘type’
XPSAnalysis.cxx:964: warning: unused parameter ‘ntree’
XPSAnalysis.cxx:964: warning: unused parameter ‘tree’
XPSAnalysis.cxx:964: warning: unused parameter ‘n’
XPSAnalysis.cxx:964: warning: unused parameter ‘msk’
XPSAnalysis.cxx:1709: warning: unused parameter ‘exten’
XPSAnalysis.cxx:1709: warning: unused parameter ‘n’
XPSAnalysis.cxx:1709: warning: unused parameter ‘names’
XPSAnalysis.cxx:1709: warning: unused parameter ‘varlist’
XPSAnalysis.cxx:1709: warning: unused parameter ‘output’
XPSAnalysis.cxx:1709: warning: unused parameter ‘sep’
XPSAnalysis.cxx:2001: warning: unused parameter ‘exten’
XPSAnalysis.cxx:2001: warning: unused parameter ‘n’
XPSAnalysis.cxx:2001: warning: unused parameter ‘names’
XPSAnalysis.cxx:2001: warning: unused parameter ‘varlist’
XPSAnalysis.cxx:2001: warning: unused parameter ‘output’
XPSAnalysis.cxx:2001: warning: unused parameter ‘sep’
XPSAnalysis.cxx:2654: warning: unused parameter ‘n’
XPSAnalysis.cxx:2654: warning: unused parameter ‘tree’
XPSAnalysis.cxx:2791: warning: unused parameter ‘leafname’
XPSAnalysis.cxx:2791: warning: unused parameter ‘outtree’
XPSAnalysis.cxx:2791: warning: unused parameter ‘varlist’
XPSAnalysis.cxx:2819: warning: unused parameter ‘exten’
XPSAnalysis.cxx:2819: warning: unused parameter ‘n’
XPSAnalysis.cxx:2819: warning: unused parameter ‘names’
XPSAnalysis.cxx:2819: warning: unused parameter ‘varlist’
XPSAnalysis.cxx:2819: warning: unused parameter ‘output’
XPSAnalysis.cxx:2819: warning: unused parameter ‘sep’
XPSAnalysis.cxx:2867: warning: unused parameter ‘n’
XPSAnalysis.cxx:2867: warning: unused parameter ‘names’
XPSAnalysis.cxx:2867: warning: unused parameter ‘varlist’
XPSAnalysis.cxx:2867: warning: unused parameter ‘output’
XPSAnalysis.cxx:2867: warning: unused parameter ‘sep’
XPSAnalysis.cxx:2936: warning: unused parameter ‘leafname’
XPSAnalysis.cxx:2936: warning: unused parameter ‘outtree’
XPSAnalysis.cxx:2936: warning: unused parameter ‘varlist’
XPSAnalysis.cxx:2964: warning: unused parameter ‘exten’
XPSAnalysis.cxx:2964: warning: unused parameter ‘n’
XPSAnalysis.cxx:2964: warning: unused parameter ‘names’
XPSAnalysis.cxx:2964: warning: unused parameter ‘varlist’
XPSAnalysis.cxx:2964: warning: unused parameter ‘output’
XPSAnalysis.cxx:2964: warning: unused parameter ‘sep’
XPSAnalysis.cxx:3006: warning: unused parameter ‘n’
XPSAnalysis.cxx:3006: warning: unused parameter ‘names’
XPSAnalysis.cxx:3006: warning: unused parameter ‘varlist’
XPSAnalysis.cxx:3006: warning: unused parameter ‘output’
XPSAnalysis.cxx:3006: warning: unused parameter ‘sep’
XPSAnalysis.cxx:3075: warning: unused parameter ‘leafname’
XPSAnalysis.cxx:3075: warning: unused parameter ‘outtree’
XPSAnalysis.cxx:3075: warning: unused parameter ‘varlist’
XPSAnalysis.cxx:3103: warning: unused parameter ‘exten’
XPSAnalysis.cxx:3103: warning: unused parameter ‘n’
XPSAnalysis.cxx:3103: warning: unused parameter ‘names’
XPSAnalysis.cxx:3103: warning: unused parameter ‘varlist’
XPSAnalysis.cxx:3103: warning: unused parameter ‘output’
XPSAnalysis.cxx:3103: warning: unused parameter ‘sep’
XPSAnalysis.cxx:3145: warning: unused parameter ‘n’
XPSAnalysis.cxx:3145: warning: unused parameter ‘names’
XPSAnalysis.cxx:3145: warning: unused parameter ‘varlist’
XPSAnalysis.cxx:3145: warning: unused parameter ‘output’
XPSAnalysis.cxx:3145: warning: unused parameter ‘sep’
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c rwrapper.cxx
In file included from rwrapper.cxx:42:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
In file included from XPSData.h:47,
                 from rwrapper.cxx:45:
XPSProjectHandler.h:84: warning: unused parameter ‘name’
In file included from rwrapper.cxx:45:
XPSData.h:700: warning: unused parameter ‘min’
XPSData.h:700: warning: unused parameter ‘max’
XPSData.h:700: warning: unused parameter ‘var2sort’
XPSData.h:700: warning: unused parameter ‘down’
In file included from rwrapper.cxx:46:
XPSPreProcessing.h:324: warning: ‘virtual Int_t XPreProcesSet::QualityControl(Int_t, TTree**, Int_t&, TTree**)’ was hidden
XPSPreProcessing.h:395: warning:   by ‘virtual Int_t XGCProcesSet::QualityControl(Int_t, TTree**, Int_t, TTree**, const char*)’
rwrapper.cxx:1557: warning: unused parameter ‘level’
Generating dictionary xpsDict.cxx...
g++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -m32 -I/usr/local/root/include -c xpsDict.cxx
In file included from xpsDict.h:35,
                 from xpsDict.cxx:16:
TStat.h:332: warning: unused parameter ‘x’
TStat.h:333: warning: unused parameter ‘x’
TStat.h:334: warning: unused parameter ‘x’
TStat.h:335: warning: unused parameter ‘x’
In file included from xpsDict.h:37,
                 from xpsDict.cxx:16:
/usr/local/root/include/TObject.h:127: warning: ‘virtual const Option_t* TObject::GetOption() const’ was hidden
XPSBase.h:208: warning:   by ‘virtual const Option_t* XTreeInfo::GetOption()’
In file included from xpsDict.h:41,
                 from xpsDict.cxx:16:
XPSProjectHandler.h:84: warning: unused parameter ‘name’
In file included from xpsDict.h:42,
                 from xpsDict.cxx:16:
XPSData.h:700: warning: unused parameter ‘min’
XPSData.h:700: warning: unused parameter ‘max’
XPSData.h:700: warning: unused parameter ‘var2sort’
XPSData.h:700: warning: unused parameter ‘down’
In file included from xpsDict.h:44,
                 from xpsDict.cxx:16:
XPSHybridizer.h:178: warning: unused parameter ‘n’
XPSHybridizer.h:178: warning: unused parameter ‘x’
XPSHybridizer.h:178: warning: unused parameter ‘y’
XPSHybridizer.h:178: warning: unused parameter ‘z’
XPSHybridizer.h:178: warning: unused parameter ‘dx’
XPSHybridizer.h:178: warning: unused parameter ‘dy’
XPSHybridizer.h:178: warning: unused parameter ‘idx’
XPSHybridizer.h:178: warning: unused parameter ‘nsub’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:438: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:438: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:438: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSHybridizer.h:178: warning: ‘virtual Int_t XExpressor::Calculate(Int_t, Double_t*, Double_t*, Double_t*, Double_t*, Double_t*, Int_t*, Int_t)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
In file included from xpsDict.h:45,
                 from xpsDict.cxx:16:
XPSSelector.h:152: warning: ‘virtual Int_t XProbeSelector::Calculate(Int_t, Double_t*, Double_t*, Int_t*)’ was hidden
XPSSelector.h:209: warning:   by ‘XUnitSelector::Calculate’
In file included from xpsDict.h:47,
                 from xpsDict.cxx:16:
XPSPreProcessing.h:324: warning: ‘virtual Int_t XPreProcesSet::QualityControl(Int_t, TTree**, Int_t&, TTree**)’ was hidden
XPSPreProcessing.h:395: warning:   by ‘virtual Int_t XGCProcesSet::QualityControl(Int_t, TTree**, Int_t, TTree**, const char*)’
In file included from xpsDict.h:49,
                 from xpsDict.cxx:16:
XPSFilter.h:118: warning: ‘virtual Int_t XFilter::Calculate(TTree*, const char*, TTree*, const char*)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSFilter.h:118: warning: ‘virtual Int_t XFilter::Calculate(TTree*, const char*, TTree*, const char*)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
XPSFilter.h:120: warning: ‘virtual Int_t XFilter::Calculate(Int_t, TTree**, const char*, TTree*, const char*)’ was hidden
XPSBase.h:437: warning:   by ‘XAlgorithm::Calculate’
g++ -dynamiclib -single_module -undefined dynamic_lookup -install_name /Users/biocbuild/bbs-2.9-bioc/meat/xps.Rcheck/00_pkg_src/xps/src/xps.so -O2 -m32 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 XPSFilter.o XPSAnalyzer.o XPSAnalysis.o rwrapper.o xpsDict.o -L/usr/local/root/lib -lCore -lCint -lRIO -lNet -lHist -lGraf -lGraf3d -lGpad -lTree -lRint -lPostscript -lMatrix -lPhysics -lMathCore -lThread -lz -lGui -pthread -Wl,-rpath,/usr/local/root/lib -lm -ldl  -lRIO -lGed -lTreePlayer -lTreeViewer -o  xps.so
installing to /Users/biocbuild/bbs-2.9-bioc/meat/xps.Rcheck/xps/libs/i386
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘APTvsXPS.Rnw’ 
   ‘xps.Rnw’ 
   ‘xpsClasses.Rnw’ 
   ‘xpsPreprocess.Rnw’ 
** testing if installed package can be loaded

Welcome to xps version 1.13.1 
    an R wrapper for XPS - eXpression Profiling System
    (c) Copyright 2001-2011 by Christian Stratowa
    

* DONE (xps)

name	user	system	elapsed
AffyRNAdeg	0.001	0.000	0.001
AnalysisTreeSet-class	0.002	0.001	0.003
CallTreeSet-class	0.002	0.000	0.003
DataTreeSet-class	0.002	0.001	0.003
ExprTreeSet-class	0.002	0.001	0.002
Filter-class	0.001	0.000	0.001
FilterTreeSet-class	0.002	0.001	0.002
PreFilter-class	0.064	0.004	0.067
PreFilter-constructor	0.055	0.002	0.058
ProcesSet-class	0.002	0.001	0.002
ProjectInfo-class	0.016	0.000	0.016
ProjectInfo-constructor	0.084	0.003	0.088
QualTreeSet-class	0.002	0.001	0.003
SchemeTreeSet-class	0.002	0.000	0.002
TreeSet-class	0.002	0.000	0.002
UniFilter-class	0.027	0.001	0.028
UniFilter-constructor	0.044	0.002	0.045
addData-methods	0.822	0.063	1.366
attachCall-methods	0.591	0.028	0.639
attachExpr-methods	2.511	0.172	2.694
attachInten-methods	0.488	0.107	0.597
attachMask-methods	0.209	0.082	0.292
bgcorrect	1.254	0.259	1.526
borderplot-methods	0.000	0.000	0.001
boxplot-methods	0.756	0.186	0.945
callFilter-methods	0.037	0.002	0.039
coiplot-methods	0.000	0.001	0.001
cvFilter-methods	0.017	0.001	0.017
dabg.call	1.852	0.038	1.896
dfw	0.799	0.054	0.859
diffFilter-methods	0.016	0.001	0.016
existsROOTFile	0.001	0.000	0.001
exonLevel	0.002	0.000	0.002
export	0.608	0.115	0.730
export.root	0.559	0.114	0.679
express	2.377	0.159	2.549
exprs-methods	0.001	0.000	0.000
extenPart	0.002	0.001	0.002
farms	0.876	0.061	0.945
fcFilter-methods	0.019	0.001	0.020
firma	0.001	0.000	0.001
firma.expr	0.001	0.000	0.000
firma.score	0	0	0
fitQC	0.001	0.001	0.000
fitRLM	0	0	0
gapFilter-methods	0.017	0.000	0.017
getChipName	0.005	0.001	0.006
getChipType	0.005	0.001	0.005
getDatatype	0.001	0.000	0.001
getNameType	0.005	0.001	0.006
getNumberTrees	0.005	0.001	0.006
getProbeInfo	0.003	0.000	0.003
getTreeNames	0.015	0.002	0.016
highFilter-methods	0.017	0.001	0.017
hist-methods	0.711	0.188	0.901
image-methods	0.001	0.000	0.001
import.data	0.441	0.045	0.499
import.exon.scheme	0.001	0.001	0.001
import.expr.scheme	0.000	0.000	0.001
import.genome.scheme	0.000	0.000	0.001
ini.call	0.934	0.066	1.011
intensity-methods	0	0	0
isROOTFile	0.001	0.000	0.001
lowFilter-methods	0.015	0.001	0.015
madFilter-methods	0.015	0.001	0.015
mas4	1.210	0.080	1.338
mas5	1.319	0.111	1.468
mas5.call	0.431	0.021	0.456
mboxplot-methods	0.635	0.175	0.818
metaProbesets	0.000	0.000	0.001
namePart	0.001	0.000	0.001
normalize	2.438	0.153	2.630
nuseplot-methods	0.061	0.005	0.067
plotImage	0	0	0
pm-methods	0.757	0.194	0.954
pmplot-methods	0.645	0.180	0.830
prefilter	0.000	0.001	0.000
presCall-methods	0.001	0.000	0.001
qualify	0.001	0.001	0.001
quantileFilter-methods	0.015	0.001	0.016
ratioFilter-methods	0.013	0.001	0.014
rawCELName-methods	0.046	0.002	0.049
rleplot-methods	0.062	0.005	0.068
rma	2.416	0.151	2.577
root.call	0.449	0.032	0.485
root.data	0.320	0.032	0.357
root.density	0	0	0
root.expr	2.441	0.155	2.605
root.graph1D	0.001	0.000	0.000
root.graph2D	0	0	0
root.hist1D	0	0	0
root.hist2D	0.001	0.000	0.000
root.hist3D	0	0	0
root.image	0	0	0
root.merge.data	0.385	0.042	0.437
root.mvaplot	0.000	0.000	0.001
root.profile	0.000	0.001	0.000
root.scheme	0.036	0.002	0.038
summarize	2.493	0.167	2.691
treeInfo-methods	0.066	0.005	0.070
trma	2.457	0.146	2.614
type2Exten	0.000	0.001	0.001
uniTest-methods	0.018	0.001	0.018
unifilter	0.001	0.000	0.001
unitestFilter-methods	0.019	0.001	0.020
validTreetype	0.001	0.001	0.001
varFilter-methods	0.016	0.001	0.017