BornAgain-Debian-build-report.txt

ganeva, 19 Sep 2013 15:32

Download (6.69 KB)

 
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$ git clone git://apps.jcns.fz-juelich.de/BornAgain.git
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$ mkdir build
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$ cd build
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$ cmake ../BornAgain -DCMAKE_INSTALL_PREFIX=/home/mary/opt/BornAgain
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$ make
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[everything OK, skipped]
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[ 38%] Building CXX object Core/CMakeFiles/BornAgainCore.dir/Tools/src/SamplePrintVisitor.cpp.o
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In file included from /home/mary/source/bornagain/BornAgain/Core/Tools/inc/SamplePrintVisitor.h:4:0,
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                 from /home/mary/source/bornagain/BornAgain/Core/Tools/src/SamplePrintVisitor.cpp:1:
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/home/mary/source/bornagain/BornAgain/Core/Samples/inc/ISampleVisitor.h:65:18: warning: ‘virtual void ISampleVisitor::visit(const ParticleCoreShell*)’ was hidden [-Woverloaded-virtual]
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In file included from /home/mary/source/bornagain/BornAgain/Core/Tools/src/SamplePrintVisitor.cpp:1:0:
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/home/mary/source/bornagain/BornAgain/Core/Tools/inc/SamplePrintVisitor.h:29:10: warning:   by ‘SamplePrintVisitor::visit’ [-Woverloaded-virtual]
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[everything OK, skipped]
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[ 60%] Building CXX object Core/CMakeFiles/BornAgainCore.dir/PythonAPI/src/Layer.pypp.cpp.o
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In file included from /home/mary/source/bornagain/BornAgain/Core/PythonAPI/inc/PythonCoreList.h:55:0,
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                 from /home/mary/source/bornagain/BornAgain/Core/PythonAPI/src/Layer.pypp.cpp:14:
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/home/mary/source/bornagain/BornAgain/Core/Samples/inc/Layer.h:68:18: warning: ‘virtual void Layer::setDecoration(IDecoration*)’ was hidden [-Woverloaded-virtual]
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/home/mary/source/bornagain/BornAgain/Core/PythonAPI/src/Layer.pypp.cpp:133:18: warning:   by ‘virtual void Layer_wrapper::setDecoration(const IDecoration&)’ [-Woverloaded-virtual]
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[everything OK, skipped]
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[----------] 2 tests from BeamTest
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[ RUN      ] BeamTest.BeamInitialState
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TestCore: /home/mary/source/bornagain/BornAgain/ThirdParty/eigen3/Eigen/src/Core/DenseStorage.h:67: Eigen::internal::plain_array<T, Size, MatrixOrArrayOptions, 16>::plain_array() [with T = std::complex<double>; int Size = 4; int MatrixOrArrayOptions = 0]: Assertion `(reinterpret_cast<size_t>(eigen_unaligned_array_assert_workaround_gcc47(array)) & 0xf) == 0 && "this assertion is explained here: " "http://eigen.tuxfamily.org/dox-devel/group__TopicUnalignedArrayAssert.html" " **** READ THIS WEB PAGE !!! ****"' failed.
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Aborted
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make[2]: *** [Tests/UnitTests/TestCore/TestCore] Error 134
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make[1]: *** [Tests/UnitTests/TestCore/CMakeFiles/TestCore.dir/all] Error 2
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make: *** [all] Error 2
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$ make check
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[skipped, see file makecheck for more details]
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0% tests passed, 26 tests failed out of 26
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Total Test time (real) =   2.43 sec
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The following tests FAILED:
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	  1 - IsGISAXS01 (OTHER_FAULT)
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	  2 - IsGISAXS02 (OTHER_FAULT)
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	  3 - IsGISAXS03 (OTHER_FAULT)
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	  4 - IsGISAXS04 (OTHER_FAULT)
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	  5 - IsGISAXS06 (OTHER_FAULT)
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	  6 - IsGISAXS07 (OTHER_FAULT)
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	  7 - IsGISAXS08 (OTHER_FAULT)
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	  8 - IsGISAXS09 (OTHER_FAULT)
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	  9 - IsGISAXS10 (OTHER_FAULT)
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	 10 - IsGISAXS11 (OTHER_FAULT)
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	 11 - IsGISAXS15 (OTHER_FAULT)
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	 12 - isgisaxs01.py (OTHER_FAULT)
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	 13 - isgisaxs02.py (OTHER_FAULT)
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	 14 - isgisaxs03.py (OTHER_FAULT)
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	 15 - isgisaxs04.py (OTHER_FAULT)
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	 16 - isgisaxs06.py (OTHER_FAULT)
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	 17 - isgisaxs07.py (OTHER_FAULT)
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	 18 - isgisaxs08.py (OTHER_FAULT)
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	 19 - isgisaxs09.py (OTHER_FAULT)
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	 20 - isgisaxs10.py (OTHER_FAULT)
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	 21 - isgisaxs11.py (OTHER_FAULT)
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	 22 - isgisaxs15.py (OTHER_FAULT)
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	 23 - testfit01.py (OTHER_FAULT)
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	 24 - testfit02.py (OTHER_FAULT)
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	 25 - TestFit01 (OTHER_FAULT)
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	 26 - TestFit02 (OTHER_FAULT)
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Errors while running CTest
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make[3]: *** [Tests/FunctionalTests/CMakeFiles/check] Error 8
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make[2]: *** [Tests/FunctionalTests/CMakeFiles/check.dir/all] Error 2
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make[1]: *** [Tests/FunctionalTests/CMakeFiles/check.dir/rule] Error 2
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make: *** [check] Error 2
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------------------------------
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seems to be a problem this embedded eigen3-library; let's install native debian eigen3-library, clean everything and try again
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------------------------------
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$ sudo apt-get install libeigen3-dev libgtest-dev
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[OK]
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$ rm -rf build/*
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$ cmake ../BornAgain -DCMAKE_INSTALL_PREFIX=/home/mary/opt/BornAgain
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$ make
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[everthing OK, skipped]
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====================================================
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Although the native debian gtest library is installed, the thirdparty gtest-library is built:
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====================================================
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Scanning dependencies of target gtest
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[ 82%] Building CXX object ThirdParty/gtest/gtest-1.6.0/CMakeFiles/gtest.dir/src/gtest-all.cc.o
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Linking CXX static library libgtest.a
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[ 82%] Built target gtest
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[everthing OK, skipped]
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[----------] 4 tests from SimulationTest
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[ RUN      ] SimulationTest.SimulationInitialState
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*** glibc detected *** ./TestCore: double free or corruption (out): 0x087ec4c0 ***
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======= Backtrace: =========
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/lib/i386-linux-gnu/i686/cmov/libc.so.6(+0x70f01)[0x41736f01]
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/lib/i386-linux-gnu/i686/cmov/libc.so.6(+0x72768)[0x41738768]
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/lib/i386-linux-gnu/i686/cmov/libc.so.6(cfree+0x6d)[0x4173b81d]
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./TestCore(_ZN10OutputDataIN5Eigen6MatrixIdLi2ELi2ELi0ELi2ELi2EEEE5clearEv+0xaf)[0x80d283f]
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======= Memory map: ========
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[skipped, see makelog]
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make[2]: *** [Tests/UnitTests/TestCore/TestCore] Error 134
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make[1]: *** [Tests/UnitTests/TestCore/CMakeFiles/TestCore.dir/all] Error 2
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make: *** [all] Error 2
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$ make check
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[skipped, see file makecheck2 for a full log]
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77% tests passed, 6 tests failed out of 26
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Total Test time (real) = 199.18 sec
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The following tests FAILED:
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	  1 - IsGISAXS01 (OTHER_FAULT)
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	  2 - IsGISAXS02 (OTHER_FAULT)
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	  3 - IsGISAXS03 (OTHER_FAULT)
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	  4 - IsGISAXS04 (OTHER_FAULT)
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	  6 - IsGISAXS07 (OTHER_FAULT)
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	  8 - IsGISAXS09 (OTHER_FAULT)
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Errors while running CTest
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make[3]: *** [Tests/FunctionalTests/CMakeFiles/check] Error 8
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make[2]: *** [Tests/FunctionalTests/CMakeFiles/check.dir/all] Error 2
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make[1]: *** [Tests/FunctionalTests/CMakeFiles/check.dir/rule] Error 2
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make: *** [check] Error 2
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=============================================
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$ make VERBOSE=1
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[skip]
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[  1%] Building CXX object Core/CMakeFiles/BornAgainCore.dir/Algorithms/src/Detector.cpp.o
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cd /home/mary/source/bornagain/build/Core && /usr/bin/c++   -DBornAgainCore_EXPORTS -pipe -m32 -Wall -W -Woverloaded-virtual -fPIC -O2 -fPIC -I/usr/include/eigen3 -I/usr/include/python2.7 -I/usr/lib/pymodules/python2.7/numpy/core/include -I/usr/include/root -I/home/mary/source/bornagain/BornAgain/Core/Algorithms/inc -I/home/mary/source/bornagain/BornAgain/Core/FormFactors/inc -I/home/mary/source/bornagain/BornAgain/Core/Geometry/inc -I/home/mary/source/bornagain/BornAgain/Core/Samples/inc -I/home/mary/source/bornagain/BornAgain/Core/StandardSamples -I/home/mary/source/bornagain/BornAgain/Core/Tools/inc -I/home/mary/source/bornagain/BornAgain/Core/PythonAPI/inc    -o CMakeFiles/BornAgainCore.dir/Algorithms/src/Detector.cpp.o -c /home/mary/source/bornagain/BornAgain/Core/Algorithms/src/Detector.cpp
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/usr/bin/cmake -E cmake_progress_report /home/mary/source/bornagain/build/CMakeFiles 
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[skip]