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August 2013

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Disabling logs in IMP
by Dan Cohen 04 Aug '13

04 Aug '13

Hello all, I would like first to say that IMP has been a great help for me and I have been using it extensively in my current project. Thank you! I just pulled the latest IMP from the git and built it after doing : cmake ../imp-source/ -DCMAKE_BUILD_TYPE=Release Suddenly when running code using IMP (python bindings) I'm getting tons of logs (for each creation/destruction of a Model object for example) I thought I was building in release so why do I get all of those logs? Can I disable them? You can see below the output of the cmake command. I'm using cmake version 2.8.7 Thank you, Dany * * *Example for some logs : * Matched Atom N of residue 525 with [] and 1 end search begin search: Matched Atom CA of residue 525 with [] and 1 end search begin search: Matched Atom C of residue 525 with [] and 1 end search begin search: Matched Atom O of residue 525 with [] and 1 end search begin search: Matched Atom CB of residue 525 with [] and 1 end search begin search: Matched Atom CG of residue 525 with [] and 1 end search begin search: Matched Atom CD of residue 525 with [] and 1 end search Matched PRO with [4365, 4367, 4368, 4369, 4370, 4371, 4372] and 1 end search Matched Chain E with [0, 4, 5, 6, 7, 8, 10, 11, 12, 13, 14, ,...] and 1 end search Matched 1oel_E.pdb: with [0, 4, 5, 6, 7, 8, 10, 11, 12, 13, 14, ,...] and 1 end search * * *The cmake output : * $ cmake ../imp-source/ -DCMAKE_BUILD_TYPE=Release -- The C compiler identification is GNU -- The CXX compiler identification is GNU -- Check for working C compiler: /usr/bin/gcc -- Check for working C compiler: /usr/bin/gcc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Running check_common_problems -- Running setup_cmake -- Wrong doxygen version at /usr/bin/doxygen. Found 1.7.6.1, but needed 1.8.4 -- Will download doxygen from http://ftp.stack.nl/pub/users/dimitri/doxygen-1.8.4.linux.bin.tar.gz -- Running setup_doxygen -- Python version is 2.7 -- Found PythonLibs: /usr/lib/libpython2.7.so (found suitable exact version "2.7.3") -- Running setup -- Running setup_containers -- Running setup_all -- Running setup_module_alias for compatibility -- Setting up alias for module base as compatibility -- Running setup_module_alias for kernel -- Setting up alias for module kernel as -- Boost version: 1.46.1 -- Found the following Boost libraries: -- system -- filesystem -- thread -- program_options -- Performing Test IMP_COMPILER_HAS_AUTO -- Performing Test IMP_COMPILER_HAS_AUTO - Failed -- Performing Test IMP_COMPILER_HAS_DEBUG_VECTOR -- Performing Test IMP_COMPILER_HAS_DEBUG_VECTOR - Success -- checking for module 'gperftools' -- package 'gperftools' not found GPerfTools not found -- checking for module 'log4cxx' -- package 'log4cxx' not found -- Found LOG4CXX -- Performing Test Log4CXX_found -- Performing Test Log4CXX_found - Success -- Found Log4CXX -- checking for module 'tcmalloc_heapchecker' -- package 'tcmalloc_heapchecker' not found TCMalloc_HeapChecker not found -- checking for module 'tcmalloc_heapprofiler' -- package 'tcmalloc_heapprofiler' not found TCMalloc_HeapProfiler not found -- Running generate paths.cpp Configuring module base ... yes -- Running setup_swig_wrappers base Configuring module benchmark ... yes -- Running setup_swig_wrappers benchmark -- Build type: Release -- USING CXXFLAGS = ' -O3 -DNDEBUG' -- USING EXEFLAGS = ' ' -- Targetting Unix Makefiles -- Using /usr/bin/c++ compiler. -- Updating CMAKE_CXX_FLAGS Configuring module cgal ... yes -- Running setup_swig_wrappers cgal Configuring module kmeans ... yes -- Running setup_swig_wrappers kmeans -- Found MPI_C: /usr/local/lib/openmpi-1.4.1/lib/libmpi.so;/usr/local/lib/openmpi-1.4.1/lib/libopen-rte.so;/usr/local/lib/openmpi-1.4.1/lib/libopen-pal.so;/usr/lib/x86_64-linux-gnu/libdl.so;/usr/lib/x86_64-linux-gnu/libnsl.so;/usr/lib/x86_64-linux-gnu/libutil.so;/usr/lib/x86_64-linux-gnu/libm.so;/usr/lib/x86_64-linux-gnu/libdl.so -- Found MPI_CXX: /usr/local/lib/openmpi-1.4.1/lib/libmpi_cxx.so;/usr/local/lib/openmpi-1.4.1/lib/libmpi.so;/usr/local/lib/openmpi-1.4.1/lib/libopen-rte.so;/usr/local/lib/openmpi-1.4.1/lib/libopen-pal.so;/usr/lib/x86_64-linux-gnu/libdl.so;/usr/lib/x86_64-linux-gnu/libnsl.so;/usr/lib/x86_64-linux-gnu/libutil.so;/usr/lib/x86_64-linux-gnu/libm.so;/usr/lib/x86_64-linux-gnu/libdl.so -- MPI found Configuring module mpi ... yes -- Running setup_swig_wrappers mpi Configuring module test ... yes -- Running setup_swig_wrappers test -- checking for module 'ann' -- package 'ann' not found ANN not found Configuring module algebra ... yes -- Running setup_swig_wrappers algebra Configuring module kernel ... yes -- Running setup_swig_wrappers kernel Configuring module display ... yes -- Running setup_swig_wrappers display -- checking for module 'gsl' -- found gsl, version 1.15 -- Found GSL -- Performing Test GSL_found -- Performing Test GSL_found - Success -- Found GSL Configuring module gsl ... yes -- Running setup_swig_wrappers gsl Configuring module parallel ... yes -- Running setup_swig_wrappers parallel Configuring module score_functor ... yes -- Running setup_swig_wrappers score_functor Configuring module statistics ... yes -- Running setup_swig_wrappers statistics Configuring module system ... yes -- Running setup_swig_wrappers system Configuring module core ... yes -- Running setup_swig_wrappers core Configuring module container ... yes -- Running setup_swig_wrappers container Configuring module modeller ... yes -- Running setup_swig_wrappers modeller Configuring module symmetry ... yes -- Running setup_swig_wrappers symmetry Configuring module atom ... yes -- Running setup_swig_wrappers atom Configuring module scratch ... yes -- Running setup_swig_wrappers scratch Configuring module em ... yes -- Running setup_swig_wrappers em Configuring module kinematics ... yes -- Running setup_swig_wrappers kinematics Configuring module misc ... yes -- Running setup_swig_wrappers misc -- Performing Test RMF_environment -- Performing Test RMF_environment - Failed -- checking for module 'RMF' -- package 'RMF' not found -- Building internal RMF -- checking for module 'log4cxx' -- package 'log4cxx' not found -- Found Log4CXX -- Logging enabled -- Found HDF5: debug;/usr/lib/libhdf5.so;optimized;/usr/lib/libhdf5.so -- Found SWIG: swig (found version "2.0.4") -- /usr/include/python2.7 -- benchmark_size -- benchmark_rmf -- Found Doxygen: /usr/bin/doxygen -- Updating paths for RMF <> Configuring module rmf ... yes -- Running setup_swig_wrappers rmf Configuring module rotamer ... yes -- Running setup_swig_wrappers rotamer Configuring module saxs ... yes -- Running setup_swig_wrappers saxs -- checking for module 'hdf5' -- package 'hdf5' not found -- Found HDF5 -- Performing Test HDF5_found -- Performing Test HDF5_found - Success -- Found HDF5 Configuring module domino ... yes -- Running setup_swig_wrappers domino -- checking for module 'cholmod' -- package 'cholmod' not found CHOLMOD not found -- checking for module 'eigen3' -- package 'eigen3' not found Eigen3 not found Configuring module isd ... Eigen3 not found Different data/build_info/sorted_modules -isd Module IMP.isd disabled Configuring module restrainer ... yes -- Running setup_swig_wrappers restrainer -- checking for module 'fftw3' -- found fftw3, version 3.3.3 -- Found FFTW3 -- Performing Test FFTW3_found -- Performing Test FFTW3_found - Success -- Found FFTW3 -- checking for module 'opencv21' -- package 'opencv21' not found OpenCV21 not found -- checking for module 'opencv22' -- package 'opencv22' not found OpenCV22 not found em2d is disabled Different data/build_info/sorted_modules -em2d Module IMP.em2d disabled -- checking for module 'exampledependency' -- package 'exampledependency' not found ExampleDependency not found Configuring module example ... yes -- Running setup_swig_wrappers example Configuring module multifit ... yes -- Running setup_swig_wrappers multifit Configuring module pepdock ... yes -- Running setup_swig_wrappers pepdock -- checking for module 'libtau' -- package 'libtau' not found libTau not found Configuring module cnmultifit ... libTau not found Different data/build_info/sorted_modules -cnmultifit Module IMP.cnmultifit disabled -- Running setup_swig_dependencies -- Creating thread pool with 16 Configuring application EMageFit ... no Different data/build_info/applications -EMageFit Application EMageFit disabled Configuring application cnmultifit_tools ... no Different data/build_info/applications -cnmultifit_tools Application cnmultifit_tools disabled Configuring application em_tools ... yes Configuring application example_app ... yes Configuring application foxs ... yes Configuring application integrative_docking ... yes Configuring application ligand_score ... yes Configuring application multifit_tools ... yes Configuring application pdb_tools ... yes Configuring application rmf_tools ... yes Configuring application saxs_merge ... no Different data/build_info/applications -saxs_merge Application saxs_merge disabled Configuring application saxs_tools ... yes -- Running setup_doxygen_config -- Running setup_imppy -- Configuring done

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