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make for PndTools/MVA [message #14305]

Tue, 08 January 2013 12:21

donghee
Messages: 385
Registered: January 2009
Location: Germnay

first-grade participant

From: *dip.t-dialin.net

Happy new year to all PANDA family!

I'm trying to do MVA under PndTools and now have a trouble to build source for that.

trunk pandaroot was sucessfully installed with fairsoft sep12 version and bug free for example macros.
and then I am going to make for PndTools/MVA/, which is MVA repository in PANDAroot.

few source files are built without any errors.
but at the main function in build/classifyStdKnn.o the procedure is stopped by linking problem(?).

I tried it with two different library path like below, but doesn't help.
export LD_LIBRARY_PATH=${ROOTSYS}/lib${LD_LIBRARY_PATH:+:${LD_LIBRARY_PATH}}
export LD_LIBRARY_PATH=${ROOTSYS}/tools/root/lib:${LD_LIBRARY_PATH}}

Could you correct me the way to do make for MVA?

Thank you.

Quote:

kang@dkang-laptop:~/GSI/pandaroot_oct12/PndTools/MVA$ make
make: Entering directory `/home/kang/GSI/pandaroot_oct12/PndTools/MVA'
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -c PndMvaUtil.cpp -o ./build/PndMvaUtil.o
Done building: PndMvaUtil
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -c PndMvaTools.cpp -o ./build/PndMvaTools.o
Done building: PndMvaTools
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -c PndMvaVarPCATransform.cpp -o ./build/PndMvaVarPCATransform.o
Done building: PndMvaVarPCATransform
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -c PndMvaDataSet.cpp -o ./build/PndMvaDataSet.o
Done building: PndMvaDataSet
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -c PndMvaClassifier.cpp -o ./build/PndMvaClassifier.o
Done building: PndMvaClassifier
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -c PndMvaTrainer.cpp -o ./build/PndMvaTrainer.o
Done building: PndMvaTrainer
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -c CreateRandomDataSet.cpp -o ./build/CreateRandomDataSet.o
Done building: CreateRandomDataSet
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -c examplePCATransform.cpp -o ./build/examplePCATransform.o
Done building: examplePCATransform
make -C KNN;
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c PndStdKnnClassify.cpp -o ../build/PndStdKnnClassify.o
Done building: PndStdKnnClassify
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c classifyStdKnn.cpp -o ../build/classifyStdKnn.o
Done building: classifyStdKnn
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c PndPrzWindowClassify.cpp -o ../build/PndPrzWindowClassify.o
Done building: PndPrzWindowClassify
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c classifyPrzWin.cpp -o ../build/classifyPrzWin.o
Done building: classifyPrzWin
make -C LVQ;
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -I../Clusters/ -c PndLVQClassify.cpp -o ../build/PndLVQClassify.o
Done building: PndLVQClassify
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -I../Clusters/ -c PndLVQTrain.cpp -o ../build/PndLVQTrain.o
Done building: PndLVQTrain
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -I../Clusters/ -c LVQtrain.cpp -o ../build/LVQtrain.o
Done building: LVQtrain
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -I../Clusters/ -c LVQclassify.cpp -o ../build/LVQclassify.o
Done building: LVQclassify
make -C TMVAkd_KNN;
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c PndKnnTrain.cpp -o ../build/PndKnnTrain.o
Done building: PndKnnTrain
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c PndKnnClassify.cpp -o ../build/PndKnnClassify.o
Done building: PndKnnClassify
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c PndProjectedKNN.cpp -o ../build/PndProjectedKNN.o
Done building: PndProjectedKNN
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c KnnClassify.cpp -o ../build/KnnClassify.o
Done building: KnnClassify
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c KnnClassifyModified.cpp -o ../build/KnnClassifyModified.o
Done building: KnnClassifyModified
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c KnnTrain.cpp -o ../build/KnnTrain.o
Done building: KnnTrain
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c Prclassify.cpp -o ../build/Prclassify.o
Done building: Prclassify
make -C Clusters;
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c PndMvaCluster.cpp -o ../build/PndMvaCluster.o
Done building: PndMvaCluster
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c exampleCluster.cpp -o ../build/exampleCluster.o
Done building: exampleCluster
make -C TMVA_MCL;
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c PndMultiClassMlpTrain.cpp -o ../build/PndMultiClassMlpTrain.o
Done building: PndMultiClassMlpTrain
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c PndMultiClassMlpClassify.cpp -o ../build/PndMultiClassMlpClassify.o
Done building: PndMultiClassMlpClassify
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c PndMultiClassBdtTrain.cpp -o ../build/PndMultiClassBdtTrain.o
Done building: PndMultiClassBdtTrain
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c PndMultiClassBdtClassify.cpp -o ../build/PndMultiClassBdtClassify.o
Done building: PndMultiClassBdtClassify
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c mlpTrain.cpp -o ../build/mlpTrain.o
Done building: mlpTrain
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c mlpClassify.cpp -o ../build/mlpClassify.o
Done building: mlpClassify
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c bdtTrain.cpp -o ../build/bdtTrain.o
Done building: bdtTrain
g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -pthread -m64 -I/home/kang/GSI/fairsoft_sep12/include/root -I./ -I../ -c bdtClassify.cpp -o ../build/bdtClassify.o
Done building: bdtClassify

=++++++ Linking example applications. ++++++=

g++ -W -Wall -Wextra -Wshadow -Wredundant-decls -Wnormalized=nfc -Wdisabled-optimization -Woverlength-strings -Winvalid-pch -Wfloat-equal -Werror -fdiagnostics-show-option -fdiagnostics-show-location=every-line -O3 -fopenmp -funroll-loops -fsplit-ivs-in-unroller -fvariable-expansion-in-unroller -march=native -mtune=native -mfpmath=sse -msse3 -mstackrealign -L/home/kang/GSI/fairsoft_sep12/lib/root -lCore -lCint -lRIO -lNet -lHist -lGraf -lGraf3d -lGpad -lTree -lRint -lPostscript -lMatrix -lPhysics -lMathCore -lThread -pthread -lm -ldl -rdynamic -lTMVA -lTreePlayer -lMinuit -lMLP -lXMLIO -fopenmp build/classifyStdKnn.o build/PndStdKnnClassify.o build/PndMvaClassifier.o \
build/PndMvaUtil.o build/PndMvaDataSet.o build/PndMvaVarPCATransform.o build/PndMvaTools.o \
-o build/classifyStdKnn
build/classifyStdKnn.o: In function `main':
classifyStdKnn.cpp:(.text.startup+0x37e): undefined reference to `TStopwatch::TStopwatch()'
classifyStdKnn.cpp:(.text.startup+0x39d): undefined reference to `TStopwatch::Start(bool)'
classifyStdKnn.cpp:(.text.startup+0x96e): undefined reference to `TStopwatch::Stop()'
classifyStdKnn.cpp:(.text.startup+0x97b): undefined reference to `TStopwatch::Stop()'
classifyStdKnn.cpp:(.text.startup+0x988): undefined reference to `TStopwatch::RealTime()'
classifyStdKnn.cpp:(.text.startup+0x99a): undefined reference to `TStopwatch::CpuTime()'
classifyStdKnn.cpp:(.text.startup+0x13f3): undefined reference to `vtable for TStopwatch'
classifyStdKnn.cpp:(.text.startup+0x13f8): undefined reference to `TObject::~TObject()'
classifyStdKnn.cpp:(.text.startup+0x18f9): undefined reference to `vtable for TStopwatch'
classifyStdKnn.cpp:(.text.startup+0x18fe): undefined reference to `TObject::~TObject()'
build/classifyStdKnn.o: In function `_GLOBAL__sub_I_main':
classifyStdKnn.cpp:(.text.startup+0x1ea1): undefined reference to `TVersionCheck::TVersionCheck(int)'
build/PndStdKnnClassify.o: In function `_GLOBAL__sub_I__ZN17PndStdKnnClassifyC2ERKSsRKSt6vectorISsSaISsEES6_':
PndStdKnnClassify.cpp:(.text.startup+0x31): undefined reference to `TVersionCheck::TVersionCheck(int)'
build/PndMvaClassifier.o: In function `_GLOBAL__sub_I__ZN16PndMvaClassifierC2ERKSsRKSt6vectorISsSaISsEES6_':
PndMvaClassifier.cpp:(.text.startup+0x31): undefined reference to `TVersionCheck::TVersionCheck(int)'
build/PndMvaDataSet.o: In function `PndMvaDataSet::ValidateWeightFile()':
PndMvaDataSet.cpp:(.text+0x46d): undefined reference to `TFile::TFile(char const*, char const*, char const*, int)'
PndMvaDataSet.cpp:(.text+0x47f): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaDataSet.cpp:(.text+0x49d): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaDataSet.cpp:(.text+0x4bb): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaDataSet.cpp:(.text+0x4cf): undefined reference to `TObjArray::GetAbsLast() const'
PndMvaDataSet.cpp:(.text+0x4de): undefined reference to `TObjArray::GetAbsLast() const'
PndMvaDataSet.cpp:(.text+0x4f0): undefined reference to `TObjArray::GetAbsLast() const'
PndMvaDataSet.cpp:(.text+0x544): undefined reference to `TString::TString(TString const&)'
PndMvaDataSet.cpp:(.text+0x577): undefined reference to `TString::~TString()'
PndMvaDataSet.cpp:(.text+0x61b): undefined reference to `TString::TString(TString const&)'
PndMvaDataSet.cpp:(.text+0x671): undefined reference to `TString::~TString()'
PndMvaDataSet.cpp:(.text+0x6c9): undefined reference to `TString::~TString()'
PndMvaDataSet.cpp:(.text+0x6f8): undefined reference to `TString::TString(TString const&)'
PndMvaDataSet.cpp:(.text+0x74e): undefined reference to `TString::~TString()'
PndMvaDataSet.cpp:(.text+0x772): undefined reference to `TString::TString(TString const&)'
PndMvaDataSet.cpp:(.text+0x895): undefined reference to `TString::TString(TString const&)'
PndMvaDataSet.cpp:(.text+0x8b6): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaDataSet.cpp:(.text+0x8c6): undefined reference to `TString::~TString()'
PndMvaDataSet.cpp:(.text+0x920): undefined reference to `TString::TString(TString const&)'
PndMvaDataSet.cpp:(.text+0x941): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaDataSet.cpp:(.text+0x951): undefined reference to `TString::~TString()'
PndMvaDataSet.cpp:(.text+0x982): undefined reference to `TString::TString(TString const&)'
PndMvaDataSet.cpp:(.text+0x9a3): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaDataSet.cpp:(.text+0x9b3): undefined reference to `TString::~TString()'
PndMvaDataSet.cpp:(.text+0x9d9): undefined reference to `TFile::Close(char const*)'
PndMvaDataSet.cpp:(.text+0x9e6): undefined reference to `TFile::~TFile()'
PndMvaDataSet.cpp:(.text+0xa41): undefined reference to `TString::TString(TString const&)'
PndMvaDataSet.cpp:(.text+0xa76): undefined reference to `TString::~TString()'
PndMvaDataSet.cpp:(.text+0xb83): undefined reference to `TFile::~TFile()'
PndMvaDataSet.cpp:(.text+0xe41): undefined reference to `TString::~TString()'
PndMvaDataSet.cpp:(.text+0xe6d): undefined reference to `TString::~TString()'
PndMvaDataSet.cpp:(.text+0xe87): undefined reference to `TString::~TString()'
PndMvaDataSet.cpp:(.text+0xe9c): undefined reference to `TString::~TString()'
build/PndMvaDataSet.o: In function `PndMvaDataSet::WriteDataSet(std::string const&)':
PndMvaDataSet.cpp:(.text+0x1812): undefined reference to `TFile::TFile(char const*, char const*, char const*, int)'
PndMvaDataSet.cpp:(.text+0x1c78): undefined reference to `TTree::TTree(char const*, char const*, int)'
PndMvaDataSet.cpp:(.text+0x1cf5): undefined reference to `TTree::Branch(char const*, void*, char const*, int)'
PndMvaDataSet.cpp:(.text+0x2033): undefined reference to `TTree::Fill()'
PndMvaDataSet.cpp:(.text+0x205f): undefined reference to `TTree::Write(char const*, int, int)'
PndMvaDataSet.cpp:(.text+0x206c): undefined reference to `TTree::~TTree()'
PndMvaDataSet.cpp:(.text+0x24ef): undefined reference to `TTree::TTree(char const*, char const*, int)'
PndMvaDataSet.cpp:(.text+0x256b): undefined reference to `TTree::Branch(char const*, void*, char const*, int)'
PndMvaDataSet.cpp:(.text+0x2736): undefined reference to `TTree::Fill()'
PndMvaDataSet.cpp:(.text+0x2749): undefined reference to `TTree::Write(char const*, int, int)'
PndMvaDataSet.cpp:(.text+0x27e1): undefined reference to `TTree::TTree(char const*, char const*, int)'
PndMvaDataSet.cpp:(.text+0x2863): undefined reference to `TTree::Branch(char const*, void*, char const*, int)'
PndMvaDataSet.cpp:(.text+0x2a2e): undefined reference to `TTree::Fill()'
PndMvaDataSet.cpp:(.text+0x2a41): undefined reference to `TTree::Write(char const*, int, int)'
PndMvaDataSet.cpp:(.text+0x2a53): undefined reference to `TFile::Close(char const*)'
PndMvaDataSet.cpp:(.text+0x2a60): undefined reference to `TTree::~TTree()'
PndMvaDataSet.cpp:(.text+0x2a6d): undefined reference to `TTree::~TTree()'
PndMvaDataSet.cpp:(.text+0x2ab5): undefined reference to `TFile::~TFile()'
PndMvaDataSet.cpp:(.text+0x2b09): undefined reference to `TTree::~TTree()'
PndMvaDataSet.cpp:(.text+0x2b37): undefined reference to `TFile::~TFile()'
PndMvaDataSet.cpp:(.text+0x2c1f): undefined reference to `TTree::~TTree()'
PndMvaDataSet.cpp:(.text+0x2c2c): undefined reference to `TTree::~TTree()'
build/PndMvaDataSet.o: In function `PndMvaDataSet::Trim()':
PndMvaDataSet.cpp:(.text+0x521f): undefined reference to `TRandom3::TRandom3(unsigned int)'
PndMvaDataSet.cpp:(.text+0x54e5): undefined reference to `TRandom::Uniform(double, double)'
PndMvaDataSet.cpp:(.text+0x6368): undefined reference to `TRandom3::~TRandom3()'
PndMvaDataSet.cpp:(.text+0x648c): undefined reference to `TRandom3::~TRandom3()'
build/PndMvaDataSet.o: In function `PndMvaDataSet::ReadInput()':
PndMvaDataSet.cpp:(.text+0x67d1): undefined reference to `TFile::TFile(char const*, char const*, char const*, int)'
PndMvaDataSet.cpp:(.text+0x6876): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaDataSet.cpp:(.text+0x6cce): undefined reference to `TClass::GetClass(std::type_info const&, bool, bool)'
PndMvaDataSet.cpp:(.text+0x6ce6): undefined reference to `TDataType::GetType(std::type_info const&)'
PndMvaDataSet.cpp:(.text+0x7054): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaDataSet.cpp:(.text+0x746f): undefined reference to `TClass::GetClass(std::type_info const&, bool, bool)'
PndMvaDataSet.cpp:(.text+0x7487): undefined reference to `TDataType::GetType(std::type_info const&)'
PndMvaDataSet.cpp:(.text+0x756c): undefined reference to `TFile::~TFile()'
PndMvaDataSet.cpp:(.text+0x774a): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaDataSet.cpp:(.text+0x7b83): undefined reference to `TClass::GetClass(std::type_info const&, bool, bool)'
PndMvaDataSet.cpp:(.text+0x7b9b): undefined reference to `TDataType::GetType(std::type_info const&)'
PndMvaDataSet.cpp:(.text+0x7daa): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaDataSet.cpp:(.text+0x7dc5): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaDataSet.cpp:(.text+0x7df4): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaDataSet.cpp:(.text+0x7e41): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaDataSet.cpp:(.text+0x7ea5): undefined reference to `TFile::Close(char const*)'
PndMvaDataSet.cpp:(.text+0x7eb2): undefined reference to `TFile::~TFile()'
build/PndMvaDataSet.o: In function `_GLOBAL__sub_I__ZN13PndMvaDataSetC2ERKSt6vectorISt4pairISsPS0_IfSaIfEEE SaIS5_EERKS0_ISsSaISsEESD_7AppType':
PndMvaDataSet.cpp:(.text.startup+0x31): undefined reference to `TVersionCheck::TVersionCheck(int)'
build/PndMvaTools.o: In function `readEvents(char const*, std::vector<std::string, std::allocator<std::string> > const&, std::vector<std::string, std::allocator<std::string> > const&, std::vector<std::pair<std::string, std::vector<float, std::allocator<float> >*>, std::allocator<std::pair<std::string, std::vector<float, std::allocator<float> >*> > >&)':
PndMvaTools.cpp:(.text+0xa10): undefined reference to `TFile::TFile(char const*, char const*, char const*, int)'
PndMvaTools.cpp:(.text+0xa93): undefined reference to `TDirectoryFile::Get(char const*)'
PndMvaTools.cpp:(.text+0xfde): undefined reference to `TClass::GetClass(std::type_info const&, bool, bool)'
PndMvaTools.cpp:(.text+0xff6): undefined reference to `TDataType::GetType(std::type_info const&)'
PndMvaTools.cpp:(.text+0x1305): undefined reference to `TFile::Close(char const*)'
PndMvaTools.cpp:(.text+0x1312): undefined reference to `TFile::~TFile()'
PndMvaTools.cpp:(.text+0x135d): undefined reference to `TFile::~TFile()'
build/PndMvaTools.o: In function `_GLOBAL__sub_I__Z8printRocRKSt6vectorI9ROCPointsSaIS0_EE':
PndMvaTools.cpp:(.text.startup+0x31): undefined reference to `TVersionCheck::TVersionCheck(int)'
build/PndMvaVarPCATransform.o: In function `PndMvaVarPCATransform::Transform(std::vector<float, std::allocator<float> > const&) const':
PndMvaVarPCATransform.cpp:(.text+0x59e): undefined reference to `kAssertMsg'
PndMvaVarPCATransform.cpp:(.text+0x5bf): undefined reference to `Fatal(char const*, char const*, ...)'
build/PndMvaVarPCATransform.o: In function `PndMvaVarPCATransform::ComputePrincipalComponents(std::vector<std::pair <std::string, std::vector<float, std::allocator<float> >*>, std::allocator<std::pair<std::string, std::vector<float, std::allocator<float> >*> > > const&)':
PndMvaVarPCATransform.cpp:(.text+0x742): undefined reference to `TPrincipal::TPrincipal(int, char const*)'
PndMvaVarPCATransform.cpp:(.text+0x911): undefined reference to `TPrincipal::AddRow(double const*)'
PndMvaVarPCATransform.cpp:(.text+0x936): undefined reference to `TPrincipal::MakePrincipals()'
PndMvaVarPCATransform.cpp:(.text+0x940): undefined reference to `TStorage::ObjectAlloc(unsigned long)'
PndMvaVarPCATransform.cpp:(.text+0x950): undefined reference to `TVectorT<double>::TVectorT(TVectorT<double> const&)'
PndMvaVarPCATransform.cpp:(.text+0x95e): undefined reference to `TStorage::ObjectAlloc(unsigned long)'
PndMvaVarPCATransform.cpp:(.text+0x971): undefined reference to `TMatrixT<double>::TMatrixT(TMatrixT<double> const&)'
PndMvaVarPCATransform.cpp:(.text+0xa08): undefined reference to `TPrincipal::~TPrincipal()'
PndMvaVarPCATransform.cpp:(.text+0xa5b): undefined reference to `TPrincipal::~TPrincipal()'
PndMvaVarPCATransform.cpp:(.text+0xa6e): undefined reference to `TObject::operator delete(void*)'
PndMvaVarPCATransform.cpp:(.text+0xa7b): undefined reference to `TObject::operator delete(void*)'
build/PndMvaVarPCATransform.o: In function `PndMvaVarPCATransform::SetMeanVector(TVectorT<double> const&)':
PndMvaVarPCATransform.cpp:(.text+0xb4f): undefined reference to `TStorage::ObjectAlloc(unsigned long)'
PndMvaVarPCATransform.cpp:(.text+0xb5d): undefined reference to `TVectorT<double>::TVectorT(TVectorT<double> const&)'
PndMvaVarPCATransform.cpp:(.text+0xb7f): undefined reference to `TObject::operator delete(void*)'
build/PndMvaVarPCATransform.o: In function `PndMvaVarPCATransform::SetEigenVectors(TMatrixT<double> const&)':
PndMvaVarPCATransform.cpp:(.text+0xbaf): undefined reference to `TStorage::ObjectAlloc(unsigned long)'
PndMvaVarPCATransform.cpp:(.text+0xbbd): undefined reference to `TMatrixT<double>::TMatrixT(TMatrixT<double> const&)'
PndMvaVarPCATransform.cpp:(.text+0xbdf): undefined reference to `TObject::operator delete(void*)'
build/PndMvaVarPCATransform.o: In function `_GLOBAL__sub_I__ZN21PndMvaVarPCATransformC2Ev':
PndMvaVarPCATransform.cpp:(.text.startup+0x31): undefined reference to `TVersionCheck::TVersionCheck(int)'
collect2: error: ld returned 1 exit status
make: *** [examples] Error 1
make: Target `all' not remade because of errors.
make: Leaving directory `/home/kang/GSI/pandaroot_oct12/PndTools/MVA'

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Re: make for PndTools/MVA [message #14309 is a reply to message #14305]

Tue, 08 January 2013 18:37

StefanoSpataro
Messages: 2736
Registered: June 2005
Location: Torino

first-grade participant

From: *to.infn.it

Why are you compiling MVA from such folder? MVA is already compiled in the general PandaRoot build, with the standard make.

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Re: make for PndTools/MVA [message #14310 is a reply to message #14309]

Tue, 08 January 2013 22:17

donghee
Messages: 385
Registered: January 2009
Location: Germnay

first-grade participant

From: *dip.t-dialin.net

Hi Stefano,

If I do not need to have any trained data then I should just
play with the macro's, since the classification functions are build as a library in PANDARoot and loaded as standard place as you mentioned.

But I don't have trained data and have to do myself for my data sample in my understanding.
I learned that in PndTools/MVA/build one can find some classifing tools as a binary executable to prepare such training. Therefore I tried to make this part.
Is there some way to get trained data from standard build location? If yes, it would be really great.

Best wishes,
Donghee

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Re: make for PndTools/MVA [message #14311 is a reply to message #14309]

Tue, 08 January 2013 22:20

donghee
Messages: 385
Registered: January 2009
Location: Germnay

first-grade participant

From: *dip.t-dialin.net

Hi Stefano,

If I do not need to have any trained data then I should just
play with the macro's, since the classification functions are built as a library in PANDARoot and can load from standard place (under buildpanda), as you mentioned.

But I don't have trained data and have to do myself for my data sample in my understanding.
I learned that in PndTools/MVA/build one can find some classifing tools as a binary executable to prepare such training. Therefore I tried to make this part.

Is there some way to get trained data from standard build location? If yes, it would be really great and will try with them.

Best wishes,
Donghee

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Re: make for PndTools/MVA [message #14312 is a reply to message #14311]

Tue, 08 January 2013 22:28

StefanoSpataro
Messages: 2736
Registered: June 2005
Location: Torino

first-grade participant

From: 2.235.190*

Ask Mohammad Babai, but I believe you can do whatever with pandaroot MVa classes, such build is only if you want to run MVa standalone. Just send Mohammad a mail.

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Re: make for PndTools/MVA [message #14313 is a reply to message #14310]

Tue, 08 January 2013 22:30

StefanoSpataro
Messages: 2736
Registered: June 2005
Location: Torino

first-grade participant

From: 2.235.190*

Ask Mohammad Babai, but I believe you can do whatever with pandaroot MVa classes, such build is only if you want to run MVa standalone. Just send Mohammad a mail.

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Re: make for PndTools/MVA [message #14314 is a reply to message #14311]

Wed, 09 January 2013 09:49

Malgorzata Gumberidze
Messages: 98
Registered: June 2005

continuous participant

From: 134.158.196*

Dear Donghee,

So maybe i can help you a little bit since i was using MVA. In principle for the training
i was using standard TMVA macro which you can find in any root distribution. And for this you do not need to compile PndTools/MVA. This macro you can find in the following directory inside external package:

1. macro in you want to consider only signal/background case:
tools/root/tmva/test/TMVAClassification.C

2. this is if you want to make training on more than just signal/background
tools/root/tmva/test/TMVAMulticlass.C

In attachment i also add my Makefile from PndTools/MVA and with that i can compile it on with my local installation on mac.

If you have any other question i can try to help.

greetings,
gosia

Attachment: Makefile
(Size: 6.60KB, Downloaded 227 times)

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Re: make for PndTools/MVA [message #14315 is a reply to message #14314]

Wed, 09 January 2013 12:58

donghee
Messages: 385
Registered: January 2009
Location: Germnay

first-grade participant

From: *kph.uni-mainz.de

Dear Malgorzata,

Thank you for your kind advice.
Using directly ROOT, that is a nice option to me.

I tried to make with new Makefile what you gave me, but it does not help.
I can have 33 object files (below) from both making, but still same trouble at linking, where executable binaries will be created.
My OS is ubuntu 12.10 64bit, I think my library connection of root via fairsoft might have some problem.

Best wishes,
Donghee

Quote:

bdtClassify.o
bdtTrain.o
classifyPrzWin.o
classifyStdKnn.o
CreateRandomDataSet.o
exampleCluster.o
examplePCATransform.o
KnnClassifyModified.o
KnnClassify.o
KnnTrain.o
LVQclassify.o
LVQtrain.o
mlpClassify.o
mlpTrain.o
PndKnnClassify.o
PndKnnTrain.o
PndLVQClassify.o
PndLVQTrain.o
PndMultiClassBdtClassify.o
PndMultiClassBdtTrain.o
PndMultiClassMlpClassify.o
PndMultiClassMlpTrain.o
PndMvaClassifier.o
PndMvaCluster.o
PndMvaDataSet.o
PndMvaTools.o
PndMvaTrainer.o
PndMvaUtil.o
PndMvaVarPCATransform.o
PndProjectedKNN.o
PndPrzWindowClassify.o
PndStdKnnClassify.o
Prclassify.o

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Re: make for PndTools/MVA [message #14317 is a reply to message #14315]

Wed, 09 January 2013 21:18

M.Babai
Messages: 46
Registered: January 2008
Location: Netherlands

continuous participant

From: *cm-4-2b.dynamic.ziggo.nl

Dear Donghee,

According the listing you have mailed me and posted here, the compiler can find the header files. This way compilation goes fine; you see that the object files are created correctly. During the linking, the compiler can not find the libraries. That is the reason for the error; at least as far as I can see; I can merely not reproduce this error.
Furthermore, in your setting of the lib paths I see you are using "{}+" characters. In bash you don't need them for this purpose, as they have another meaning.

export LD_LIBRARY_PATH=${ROOTSYS}/lib${LD_LIBRARY_PATH:+:${LD_LIBRARY_PATH}}
export LD_LIBRARY_PATH=${ROOTSYS}/tools/root/lib:${LD_LIBRARY_PATH}}

This way if the paths are correct on your PC, then you can change the exports as following:

export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$ROOTSYS/tools/root/lib

One other option is just to call the "/buildPandaDir/config.sh" script. This one also should set the paths correctly.

A third option is to add following lines to your .bashrc:

export SIMPATH=PATH_TO_FAIRROOT_INSTALLATION_DIR
export PATH=$PATH:$SIMPATH/bin
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$SIMPATH/lib:$SIMPATH/lib/root

I hope this will solve your problem.

Regards,
MB

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Re: make for PndTools/MVA [message #14352 is a reply to message #14317]

Tue, 15 January 2013 14:53

donghee
Messages: 385
Registered: January 2009
Location: Germnay

first-grade participant

From: *kph.uni-mainz.de

Dear Mohammad,

I have tested my machine, then I realized that root in Fairsoft under ubuntu12.10 has a problem, and is related to newest version of ubuntu OS.

In other machine with older ubuntu, I don't have such problems.
After new installation of Fairsoft under ubuntu 12.10, I cannot even merge some histograms, but during configuraiton of fairsoft I didn't see any trouble in the log file after installation.

*** Package root is OK ***
*** End installation of external packages without Errors***

Anyhow, thank you for your help for this problem during last couple of weeks.

Best wishes,
Donghee

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