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BioC 2.12: CHECK report for xps on petty

This page was generated on 2013-10-09 09:39:37 -0700 (Wed, 09 Oct 2013).

Package 669/671HostnameOS / ArchBUILDCHECKBUILD BIN
xps 1.20.3
Christian Stratowa
Snapshot Date: 2013-10-08 17:00:48 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/xps
Last Changed Rev: 79980 / Revision: 81334
Last Changed Date: 2013-08-31 11:59:57 -0700 (Sat, 31 Aug 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  WARNINGS  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK [ OK ] OK 

Summary

Package: xps
Version: 1.20.3
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch xps_1.20.3.tar.gz
StartedAt: 2013-10-09 00:10:27 -0700 (Wed, 09 Oct 2013)
EndedAt: 2013-10-09 00:14:55 -0700 (Wed, 09 Oct 2013)
EllapsedTime: 268.0 seconds
RetCode: 0
Status:  OK 
CheckDir: xps.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/xps.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'xps/DESCRIPTION' ... OK
* this is package 'xps' version '1.20.3'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... NOTE
Found the following hidden files and directories:
  .BBSoptions
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'xps' can be installed ... [145s/147s] OK
* checking installed package size ... NOTE
  installed size is 11.2Mb
  sub-directories of 1Mb or more:
    doc    2.8Mb
    libs   5.2Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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 namespace can be loaded with stated dependencies ... OK
* checking whether the namespace 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 compiled code ... NOTE
Note: information on .o files is not available
File '/Users/biocbuild/bbs-2.12-bioc/meat/xps.Rcheck/xps/libs/xps.so':
  Found '__ZSt4cerr', possibly from 'std::cerr' (C++)
  Found '__ZSt4cout', possibly from 'std::cout' (C++)
  Found '_printf', possibly from 'printf' (C)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console.  The detected symbols
are linked into the code but might come from libraries and not actually
be called.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... [25s/32s] 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

NOTE: There were 3 notes.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/xps.Rcheck/00check.log'
for details.

xps.Rcheck/00install.out:

* installing *source* package 'xps' ...
checking for gcc... llvm-gcc-4.2 -arch x86_64 -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 llvm-gcc-4.2 -arch x86_64 -std=gnu99 accepts -g... yes
checking for llvm-gcc-4.2 -arch x86_64 -std=gnu99 option to accept ANSI C... none needed
checking how to run the C preprocessor... llvm-gcc-4.2 -arch x86_64 -std=gnu99 -E
checking for gcc... (cached) llvm-gcc-4.2 -arch x86_64 -std=gnu99
checking whether we are using the GNU C compiler... (cached) yes
checking whether llvm-gcc-4.2 -arch x86_64 -std=gnu99 accepts -g... (cached) yes
checking for llvm-gcc-4.2 -arch x86_64 -std=gnu99 option to accept ANSI C... (cached) none needed
checking for root-config... yes
found ROOT version 5.34/05 in directory /usr/local/root
** libs
** arch - 
g++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -I/usr/local/root/include -c XPSSchemes.cxx
In file included from XPSSchemes.h:41,
                 from XPSSchemes.cxx:72:
/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:10094: warning: unused parameter 'index'
XPSSchemes.cxx:10105: warning: unused parameter 'index'
g++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -I/usr/local/root/include -c XPSDataTypes.cxx
g++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -I/usr/local/root/include -c XPSProjectHandler.cxx
In file included from XPSProjectHandler.cxx:47:
XPSProjectHandler.h:84: warning: unused parameter 'name'
g++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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'
g++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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'
g++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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:534: warning: unused parameter 'xout'
XPSNormalizer.cxx:611: warning: unused parameter 'xout'
XPSNormalizer.cxx:690: warning: unused parameter 'xout'
XPSNormalizer.cxx:1130: warning: unused parameter 'n'
XPSNormalizer.cxx:1161: warning: unused parameter 'n'
XPSNormalizer.cxx:1298: warning: unused parameter 'x'
XPSNormalizer.cxx:1298: warning: unused parameter 'msk'
g++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -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++ -I/include -O2 -pipe -Wall -W -Woverloaded-virtual -pthread -m64 -I/usr/local/root/include -c xpsDict.cxx
In file included from xpsDict.h:35,
                 from xpsDict.cxx:17:
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:17:
/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:17:
XPSProjectHandler.h:84: warning: unused parameter 'name'
In file included from xpsDict.h:42,
                 from xpsDict.cxx:17:
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:17:
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:17:
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:17:
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:17:
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-2.12-bioc/meat/xps.Rcheck/00_pkg_src/xps/src/xps.so -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 XPSFilter.o XPSAnalyzer.o XPSAnalysis.o rwrapper.o xpsDict.o -L/usr/local/root/lib -lGui -lCore -lCint -lRIO -lNet -lHist -lGraf -lGraf3d -lGpad -lTree -lRint -lPostscript -lMatrix -lPhysics -lMathCore -lThread -lpthread -Wl,-rpath,/usr/local/root/lib -lm -ldl  -lRIO -lGed -lTreePlayer -lTreeViewer -o  xps.so
installing to /Users/biocbuild/bbs-2.12-bioc/meat/xps.Rcheck/xps/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (xps)

xps.Rcheck/xps-Ex.timings:

nameusersystemelapsed
AffyRNAdeg0.0110.0000.011
AnalysisTreeSet-class0.0040.0010.005
CallTreeSet-class0.0070.0000.007
DataTreeSet-class0.0550.0000.057
ExprTreeSet-class0.0070.0000.008
Filter-class0.0030.0010.004
FilterTreeSet-class0.0040.0000.003
PreFilter-class0.0540.0040.058
PreFilter-constructor0.0470.0020.049
ProcesSet-class0.0050.0010.006
ProjectInfo-class0.0320.0010.034
ProjectInfo-constructor0.0740.0030.077
QualTreeSet-class0.0060.0000.008
SchemeTreeSet-class0.0610.0000.061
TreeSet-class0.0060.0000.006
UniFilter-class0.0230.0010.023
UniFilter-constructor0.0380.0010.039
addData-methods0.3040.0240.722
attachCall-methods0.3690.0130.433
attachDataXY-methods0.2020.0430.263
attachExpr-methods1.1670.0201.353
attachInten-methods0.3520.0510.419
attachMask-methods0.1520.0370.207
attachProbe-methods0.2110.0470.321
attachUnitNames-methods0.1180.0030.147
bgcorrect0.6290.0940.862
borderplot-methods0.0050.0000.005
boxplot-methods0.6460.0910.786
callFilter-methods0.0310.0010.033
coiplot-methods0.0030.0000.003
cvFilter-methods0.0170.0000.017
dabg.call1.3790.0101.534
dfw0.3220.0100.497
diffFilter-methods0.0160.0010.016
existsROOTFile0.0040.0000.004
exonLevel0.0050.0020.006
export0.5300.0620.902
export.root0.5160.0580.602
express1.0210.0181.096
exprs-methods0.0060.0010.005
extenPart0.0030.0000.003
farms0.3510.0120.406
fcFilter-methods0.0200.0010.020
firma0.0630.0030.066
firma.expr0.0050.0020.006
firma.score0.0040.0010.013
fitQC0.0060.0010.007
fitRLM0.0060.0030.009
gapFilter-methods0.0170.0020.019
getChipName0.0070.0010.009
getChipType0.0060.0010.008
getDatatype0.0020.0010.004
getNameType0.0070.0020.009
getNumberTrees0.0080.0020.010
getProbeInfo0.0040.0010.006
getTreeNames0.0120.0020.015
highFilter-methods0.0150.0000.015
hist-methods0.0320.0020.035
image-methods0.0060.0020.008
import.data0.2100.0120.310
import.exon.scheme0.0080.0010.008
import.expr.scheme0.0060.0020.007
import.genome.scheme0.0050.0010.007
indexUnits-methods0.6460.2101.090
ini.call0.4180.0150.503
intensity-methods0.0050.0020.006
intensity2GCplot-methods0.3890.0870.556
isROOTFile0.0040.0010.005
lowFilter-methods0.0150.0020.017
madFilter-methods0.0150.0020.017
mas40.5300.0182.185
mas50.5990.0190.913
mas5.call0.2280.0100.272
mboxplot-methods0.4960.0910.678
metaProbesets0.0040.0010.005
namePart0.0040.0010.005
normalize1.0790.0211.266
nuseplot-methods0.0430.0040.047
plotImage0.0060.0020.008
pm-methods0.5660.0960.686
pmplot-methods0.5480.0940.669
prefilter0.0060.0020.007
presCall-methods0.0050.0030.008
probeContentGC-methods0.3380.0870.475
probeSequence-methods0.2720.0470.354
probesetID2unitID-methods0.1370.0060.192
probesetplot-methods0.4100.0550.530
qualify0.0090.0030.013
quantileFilter-methods0.0150.0010.016
ratioFilter-methods0.0160.0000.017
rawCELName-methods0.0300.0030.033
rleplot-methods0.0470.0050.052
rma1.1190.0191.188
root.call0.2010.0110.245
root.data0.1600.0070.187
root.density0.0040.0010.005
root.expr1.0810.0191.589
root.graph1D0.0050.0000.006
root.graph2D0.0050.0000.005
root.hist1D0.0050.0020.006
root.hist2D0.0040.0020.006
root.hist3D0.0040.0020.006
root.image0.0040.0020.007
root.merge.data0.2000.0120.983
root.mvaplot0.0060.0020.007
root.profile0.0040.0020.005
root.scheme0.0300.0020.032
summarize1.0800.0201.875
symbol2unitID-methods0.1630.0110.184
treeInfo-methods0.0440.0050.050
trma1.0910.0161.128
type2Exten0.0060.0020.008
uniTest-methods0.0170.0020.020
unifilter0.0060.0020.009
unitestFilter-methods0.0190.0010.019
validTreetype0.0050.0000.005
varFilter-methods0.0180.0020.020
xpsQAReport0.0070.0020.009