Reply To: test/run.py errors

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May 1, 2011 at 7:49 am #5521
Anonymous

    Hi,smlewis,when I input “python scons.py -j8 cat=test mode=release”,it showed me that:
    al.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/UnfoldedStatePotential.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/VirtualResidues.cxxtest.cpp test/core/scoring/VirtualResidues.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/VirtualResidues.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/VirtualResidues.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/carbon_hbonds/CarbonHBondEnergy.cxxtest.cpp test/core/scoring/carbon_hbonds/CarbonHBondEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/carbon_hbonds/CarbonHBondEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/carbon_hbonds/CarbonHBondEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/AngleConstraint.cxxtest.cpp test/core/scoring/constraints/AngleConstraint.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/AngleConstraint.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/AngleConstraint.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/AtomPairConstraint.cxxtest.cpp test/core/scoring/constraints/AtomPairConstraint.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/AtomPairConstraint.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/AtomPairConstraint.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/BigBinConstraint.cxxtest.cpp test/core/scoring/constraints/BigBinConstraint.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/BigBinConstraint.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/BigBinConstraint.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/ConstraintSetRemapping.cxxtest.cpp test/core/scoring/constraints/ConstraintSetRemapping.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/ConstraintSetRemapping.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/ConstraintSetRemapping.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/ConstraintsEnergy.cxxtest.cpp test/core/scoring/constraints/ConstraintsEnergy.cxxtest.hh
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/DihedralConstraint.cxxtest.cpp test/core/scoring/constraints/DihedralConstraint.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/ConstraintsEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/ConstraintsEnergy.cxxtest.cpp
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/DihedralConstraint.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/DihedralConstraint.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/GaussianFunc.cxxtest.cpp test/core/scoring/constraints/GaussianFunc.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/GaussianFunc.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/GaussianFunc.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/HarmonicFunc.cxxtest.cpp test/core/scoring/constraints/HarmonicFunc.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/HarmonicFunc.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/HarmonicFunc.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/SplineFunc.cxxtest.cpp test/core/scoring/constraints/SplineFunc.cxxtest.hh
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/util.cxxtest.cpp test/core/scoring/constraints/util.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/SplineFunc.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/SplineFunc.cxxtest.cpp
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/util.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/constraints/util.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/custom_pair_distance/FullatomCustomPairDistanceEnergy.cxxtest.cpp test/core/scoring/custom_pair_distance/FullatomCustomPairDistanceEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/custom_pair_distance/FullatomCustomPairDistanceEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/custom_pair_distance/FullatomCustomPairDistanceEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/disulfides/FullatomDisulfideEnergy.cxxtest.cpp test/core/scoring/disulfides/FullatomDisulfideEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/disulfides/FullatomDisulfideEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/disulfides/FullatomDisulfideEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/dunbrack/Dunbrack.cxxtest.cpp test/core/scoring/dunbrack/Dunbrack.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/dunbrack/Dunbrack.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/dunbrack/Dunbrack.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/etable/EtableEnergy.cxxtest.cpp test/core/scoring/etable/EtableEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/etable/EtableEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/etable/EtableEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/geometric_solvation/GeometricSolEnergy.cxxtest.cpp test/core/scoring/geometric_solvation/GeometricSolEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/geometric_solvation/GeometricSolEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/geometric_solvation/GeometricSolEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hackelec/HackElecEnergy.cxxtest.cpp test/core/scoring/hackelec/HackElecEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hackelec/HackElecEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hackelec/HackElecEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondDatabaseTest.cxxtest.cpp test/core/scoring/hbonds/HBondDatabaseTest.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondDatabaseTest.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondDatabaseTest.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondDerivTest.cxxtest.cpp test/core/scoring/hbonds/HBondDerivTest.cxxtest.hh

    scons: warning: Ignoring corrupt sconsign entry : src/numeric/deriv ((‘object.__new__(X): X is not a type object (classobj)’, , (, , None)))

    File “scons.py”, line 162, in
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondDerivTest.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondDerivTest.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondEnergy.cxxtest.cpp test/core/scoring/hbonds/HBondEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondFadeIntervalTest.cxxtest.cpp test/core/scoring/hbonds/HBondFadeIntervalTest.cxxtest.hh

    scons: warning: Ignoring corrupt sconsign entry : external/boost_1_38_0/boost/iterator/detail ((‘object.__new__(X): X is not a type object (classobj)’, , (, , None)))

    File “scons.py”, line 162, in

    scons: warning: Ignoring corrupt sconsign entry : external/boost_1_38_0/boost/iterator ((‘object.__new__(X): X is not a type object (classobj)’, , (, , None)))

    File “scons.py”, line 162, in

    scons: warning: Ignoring corrupt sconsign entry : external/boost_1_38_0/boost/preprocessor/seq ((‘object.__new__(X): X is not a type object (classobj)’, , (, , None)))

    File “scons.py”, line 162, in

    scons: warning: Ignoring corrupt sconsign entry : external/boost_1_38_0/boost/preprocessor/seq/detail ((‘object.__new__(X): X is not a type object (classobj)’, , (, , None)))

    File “scons.py”, line 162, in
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondFadeIntervalTest.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBondFadeIntervalTest.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBonds.cxxtest.cpp test/core/scoring/hbonds/HBonds.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBonds.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/HBonds.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/polynomial.cxxtest.cpp test/core/scoring/hbonds/polynomial.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/polynomial.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/hbonds/polynomial.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ChainbreakEnergy.cxxtest.cpp test/core/scoring/methods/ChainbreakEnergy.cxxtest.hh
    ./test/core/scoring/hbonds/HBondFadeIntervalTest.cxxtest.hh: In member function ‘void HBondFadeIntervalTest::doubleprint(std::ostream&, double)’:
    ./test/core/scoring/hbonds/HBondFadeIntervalTest.cxxtest.hh:381: warning: dereferencing type-punned pointer will break strict-aliasing rules
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ChainbreakEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ChainbreakEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ContactOrderEnergy.cxxtest.cpp test/core/scoring/methods/ContactOrderEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ContactOrderEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ContactOrderEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/LinearChainbreakEnergy.cxxtest.cpp test/core/scoring/methods/LinearChainbreakEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/LinearChainbreakEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/LinearChainbreakEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/MMBondAngleEnergy.cxxtest.cpp test/core/scoring/methods/MMBondAngleEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/MMBondAngleEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/MMBondAngleEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/MMTorsionEnergy.cxxtest.cpp test/core/scoring/methods/MMTorsionEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/MMTorsionEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/MMTorsionEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/P_AA_Energy.cxxtest.cpp test/core/scoring/methods/P_AA_Energy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/P_AA_Energy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/P_AA_Energy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/P_AA_pp_Energy.cxxtest.cpp test/core/scoring/methods/P_AA_pp_Energy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/P_AA_pp_Energy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/P_AA_pp_Energy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/PairEnergy.cxxtest.cpp test/core/scoring/methods/PairEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/PairEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/PairEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ProClosureEnergy.cxxtest.cpp test/core/scoring/methods/ProClosureEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ProClosureEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/ProClosureEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/RG_Energy.cxxtest.cpp test/core/scoring/methods/RG_Energy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/RG_Energy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/RG_Energy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/RamachandranEnergy.cxxtest.cpp test/core/scoring/methods/RamachandranEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/RamachandranEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/RamachandranEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/UnfoldedStateEnergy.cxxtest.cpp test/core/scoring/methods/UnfoldedStateEnergy.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/UnfoldedStateEnergy.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/methods/UnfoldedStateEnergy.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/rms_util.cxxtest.cpp test/core/scoring/rms_util.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/rms_util.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/rms_util.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/sasa.cxxtest.cpp test/core/scoring/sasa.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/sasa.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/sasa.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/symmetry/SymmetricScoreTest.cxxtest.cpp test/core/scoring/symmetry/SymmetricScoreTest.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/scoring/symmetry/SymmetricScoreTest.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/scoring/symmetry/SymmetricScoreTest.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/ScoringSchemes.cxxtest.cpp test/core/sequence/ScoringSchemes.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/ScoringSchemes.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/sequence/ScoringSchemes.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceAlignment.cxxtest.cpp test/core/sequence/SequenceAlignment.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceAlignment.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceAlignment.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceMapping.cxxtest.cpp test/core/sequence/SequenceMapping.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceMapping.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceMapping.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceUtil.cxxtest.cpp test/core/sequence/SequenceUtil.cxxtest.hh
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceUtil.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/sequence/SequenceUtil.cxxtest.cpp
    external/cxxtest/cxxtestgen.py –have-std –part -o build/test/release/linux/2.6/64/x86/gcc/core/util/MetricValueIO.cxxtest.cpp test/core/util/MetricValueIO.cxxtest.hh

    scons: warning: Ignoring corrupt sconsign entry : src/utility/tools ((‘object.__new__(X): X is not a type object (classobj)’, , (, , None)))

    File “scons.py”, line 162, in
    g++ -o build/test/release/linux/2.6/64/x86/gcc/core/util/MetricValueIO.cxxtest.o -c -std=c++98 -pipe -ffor-scope -W -Wall -pedantic -Wno-long-long -O3 -ffast-math -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -DNDEBUG -Iexternal/cxxtest -I. -Itest -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux -Iexternal/boost_1_38_0 -I/usr/local/include -I/usr/include build/test/release/linux/2.6/64/x86/gcc/core/util/MetricValueIO.cxxtest.cpp
    scons: *** Source `test/devel/devel.cxxtest.hh’ not found, needed by target `build/test/release/linux/2.6/64/x86/gcc/devel/devel.cxxtest.cpp’. Stop.
    scons: building terminated because of errors.