xps 1.2.10
Christian Stratowa
| Bioconductor Changelog | | Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/xps | | Last Changed Rev: 38744 / Revision: 38965 | | Last Changed Date: 2009-04-12 10:22:40 -0700 (Sun, 12 Apr 2009) |
| wilson2 | Linux (openSUSE 11.1) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | OK | OK |
| pitt | Mac OS X Tiger (10.4.11) / i386 | OK | WARNINGS | ERROR |
| pelham | Mac OS X Leopard (10.5.6) / i386 | OK | WARNINGS | [ OK ] |
INSTALLATION WITH 'R CMD INSTALL --library=xps.buildbin-libdir xps_1.2.10.tar.gz'
* 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
checking for root-config... yes
found ROOT version 5.22/00 in directory /usr/local
** libs
** arch - i386
Generating dictionary xpsDict.cxx...
c++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -I/usr/local/include/root -c xpsDict.cxx
In file included from xpsDict.h:40,
from xpsDict.cxx:16:
XPSProjectHandler.h:84: warning: unused parameter 'name'
In file included from xpsDict.h:41,
from xpsDict.cxx:16:
XPSData.h:677: warning: unused parameter 'min'
XPSData.h:677: warning: unused parameter 'max'
XPSData.h:677: warning: unused parameter 'var2sort'
XPSData.h:677: warning: unused parameter 'down'
In file included from xpsDict.h:46,
from xpsDict.cxx:16:
XPSProcessing.h:282: warning: 'virtual const char* XProcesSet::GetTranscriptID(XTransAnnotation*)' was hidden
XPSPreProcessing.h:371: warning: by 'virtual const char* XExonProcesSet::GetTranscriptID(XUnit*, XTransAnnotation*, Int_t)'
In file included from xpsDict.h:47,
from xpsDict.cxx:16:
XPSProcessing.h:282: warning: 'virtual const char* XProcesSet::GetTranscriptID(XTransAnnotation*)' was hidden
XPSNormation.h:215: warning: by 'virtual const char* XNormedExonSet::GetTranscriptID(XUnit*, XTransAnnotation*, Int_t)'
In file included from xpsDict.h:48,
from xpsDict.cxx:16:
XPSFilter.h:118: warning: 'virtual Int_t XFilter::Calculate(TTree*, const char*, TTree*, const char*)' was hidden
XPSBase.h:427: warning: by 'XAlgorithm::Calculate'
XPSFilter.h:118: warning: 'virtual Int_t XFilter::Calculate(TTree*, const char*, TTree*, const char*)' was hidden
XPSBase.h:427: 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:427: warning: by 'XAlgorithm::Calculate'
MACOSX_DEPLOYMENT_TARGET=10.5 c++ -dynamiclib -single_module -undefined dynamic_lookup 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/lib/root -lCore -lCint -lRIO -lNet -lHist -lGraf -lGraf3d -lGpad -lTree -lRint -lPostscript -lMatrix -lPhysics -lMathCore -lThread -lfreetype -lGui -pthread -lm -ldl -lRIO -lGed -lTreePlayer -lTreeViewer -o xps.dylib
ln -sf xps.dylib xps.so
** R
** inst
** preparing package for lazy loading
** help
>>> Building/Updating help pages for package 'xps'
Formats: text html latex example
AnalysisTreeSet-class text html latex example
CallTreeSet-class text html latex example
DataTreeSet-class text html latex example
ExprTreeSet-class text html latex example
Filter-class text html latex example
FilterTreeSet-class text html latex example
PreFilter-class text html latex example
PreFilter-constructor text html latex example
ProcesSet-class text html latex example
ProjectInfo-class text html latex example
ProjectInfo-constructor text html latex example
ROOT text html latex
SchemeTreeSet-class text html latex example
TreeSet-class text html latex example
UniFilter-class text html latex example
UniFilter-constructor text html latex example
addData-methods text html latex example
attachBgrd-methods text html latex
attachCall-methods text html latex example
attachExpr-methods text html latex example
attachInten-methods text html latex example
attachMask-methods text html latex example
bgcorrect text html latex example
boxplot-methods text html latex example
boxplot.dev text html latex
callFilter-methods text html latex example
callplot-methods text html latex
cvFilter-methods text html latex example
dabg.call text html latex example
dfw text html latex example
diffFilter-methods text html latex example
existsROOTFile text html latex example
exonLevel text html latex example
export text html latex example
export.filter text html latex
export.root text html latex example
express text html latex example
exprs-methods text html latex example
farms text html latex example
fcFilter-methods text html latex example
gapFilter-methods text html latex example
getChipName text html latex example
getChipType text html latex example
getDatatype text html latex example
getNameType text html latex example
getNumberTrees text html latex example
getProbeInfo text html latex example
getTreeData-methods text html latex
getTreeNames text html latex example
highFilter-methods text html latex example
hist-methods text html latex example
image-methods text html latex
image.dev text html latex example
import.data text html latex example
import.exon.scheme text html latex example
import.expr.scheme text html latex example
import.genome.scheme text html latex example
ini.call text html latex example
initialize-methods text html latex
isROOTFile text html latex example
lowFilter-methods text html latex example
madFilter-methods text html latex example
mas4 text html latex example
mas5 text html latex example
mas5.call text html latex example
mboxplot-methods text html latex example
metaProbesets text html latex example
mvaplot-methods text html latex
mvaplot.dev text html latex
normalize text html latex example
pm-methods text html latex example
pmplot-methods text html latex example
prefilter text html latex example
presCall-methods text html latex example
quantileFilter-methods text html latex example
ratioFilter-methods text html latex example
rawCELName-methods text html latex example
rma text html latex example
root.browser-methods text html latex
root.call text html latex example
root.data text html latex example
root.density text html latex example
root.expr text html latex example
root.graph1D text html latex example
root.graph2D text html latex example
root.hist1D text html latex example
root.hist2D text html latex example
root.hist3D text html latex example
root.image text html latex example
root.mvaplot text html latex example
root.profile text html latex example
root.scheme text html latex example
summarize text html latex example
type2Exten text html latex example
uniTest-methods text html latex example
unifilter text html latex example
unitestFilter-methods text html latex example
validData-methods text html latex
validTreetype text html latex example
varFilter-methods text html latex example
volcanoplot-methods text html latex
xps-package text html latex
xpsOptions text html latex
** building package indices ...
* DONE (xps)
INSTALLATION OF ppc LIBS WITH 'R_ARCH=/ppc R CMD INSTALL --library=xps.buildbin-libdir --libs-only xps_1.2.10.tar.gz'
* Installing *source* package 'xps' ...
checking for gcc... gcc-4.2 -arch ppc -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 ppc -std=gnu99 accepts -g... yes
checking for gcc-4.2 -arch ppc -std=gnu99 option to accept ANSI C... none needed
checking how to run the C preprocessor... gcc-4.2 -arch ppc -std=gnu99 -E
checking for gcc... (cached) gcc-4.2 -arch ppc -std=gnu99
checking whether we are using the GNU C compiler... (cached) yes
checking whether gcc-4.2 -arch ppc -std=gnu99 accepts -g... (cached) yes
checking for gcc-4.2 -arch ppc -std=gnu99 option to accept ANSI C... (cached) none needed
checking for root-config... yes
found ROOT version 5.22/00 in directory /usr/local
** libs
** arch - ppc
Generating dictionary xpsDict.cxx...
c++ -O2 -pipe -Wall -W -Woverloaded-virtual -D_REENTRANT -pthread -I/usr/local/include/root -c xpsDict.cxx
In file included from xpsDict.h:40,
from xpsDict.cxx:16:
XPSProjectHandler.h:84: warning: unused parameter 'name'
In file included from xpsDict.h:41,
from xpsDict.cxx:16:
XPSData.h:677: warning: unused parameter 'min'
XPSData.h:677: warning: unused parameter 'max'
XPSData.h:677: warning: unused parameter 'var2sort'
XPSData.h:677: warning: unused parameter 'down'
In file included from xpsDict.h:46,
from xpsDict.cxx:16:
XPSProcessing.h:282: warning: 'virtual const char* XProcesSet::GetTranscriptID(XTransAnnotation*)' was hidden
XPSPreProcessing.h:371: warning: by 'virtual const char* XExonProcesSet::GetTranscriptID(XUnit*, XTransAnnotation*, Int_t)'
In file included from xpsDict.h:47,
from xpsDict.cxx:16:
XPSProcessing.h:282: warning: 'virtual const char* XProcesSet::GetTranscriptID(XTransAnnotation*)' was hidden
XPSNormation.h:215: warning: by 'virtual const char* XNormedExonSet::GetTranscriptID(XUnit*, XTransAnnotation*, Int_t)'
In file included from xpsDict.h:48,
from xpsDict.cxx:16:
XPSFilter.h:118: warning: 'virtual Int_t XFilter::Calculate(TTree*, const char*, TTree*, const char*)' was hidden
XPSBase.h:427: warning: by 'XAlgorithm::Calculate'
XPSFilter.h:118: warning: 'virtual Int_t XFilter::Calculate(TTree*, const char*, TTree*, const char*)' was hidden
XPSBase.h:427: 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:427: warning: by 'XAlgorithm::Calculate'
MACOSX_DEPLOYMENT_TARGET=10.5 c++ -dynamiclib -single_module -undefined dynamic_lookup 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/lib/root -lCore -lCint -lRIO -lNet -lHist -lGraf -lGraf3d -lGpad -lTree -lRint -lPostscript -lMatrix -lPhysics -lMathCore -lThread -lfreetype -lGui -pthread -lm -ldl -lRIO -lGed -lTreePlayer -lTreeViewer -o xps.dylib
ln -sf xps.dylib xps.so
* DONE (xps)
INSTALLATION OF x86_64 LIBS WITH 'R_ARCH=/x86_64 R CMD INSTALL --library=xps.buildbin-libdir --libs-only xps_1.2.10.tar.gz'
* Installing *source* package 'xps' ...
checking for gcc... 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 gcc-4.2 -arch x86_64 -std=gnu99 accepts -g... yes
checking for gcc-4.2 -arch x86_64 -std=gnu99 option to accept ANSI C... none needed
checking how to run the C preprocessor... gcc-4.2 -arch x86_64 -std=gnu99 -E
checking for gcc... (cached) gcc-4.2 -arch x86_64 -std=gnu99
checking whether we are using the GNU C compiler... (cached) yes
checking whether gcc-4.2 -arch x86_64 -std=gnu99 accepts -g... (cached) yes
checking for gcc-4.2 -arch x86_64 -std=gnu99 option to accept ANSI C... (cached) none needed
checking for root-config... yes
found ROOT version 5.22/00 in directory /usr/local
** libs
** arch - x86_64
make: Nothing to be done for `all'.
* DONE (xps)