Configuring module compatibility version SVN.r14111
Configuring module base version SVN.r14111 with Boost.FileSystem
Configuring module benchmark version SVN.r14111 with Boost.ProgramOptions
Module RMF disabled due to missing dependency HDF5
Module cgal disabled due to missing dependency CGAL
Configuring module algebra version SVN.r14111
Configuring module kernel version SVN.r14111 with Boost.FileSystem
Configuring module display version SVN.r14111
Configuring module core version SVN.r14111
Configuring module container version SVN.r14111
Configuring module atom version SVN.r14111 with Boost.FileSystem
Configuring module statistics version SVN.r14111
Module rmf disabled due to disabled module IMP.RMF
Module domino disabled due to missing dependency Boost.Graph
Configuring module em version SVN.r14111
Configuring module saxs version SVN.r14111
Configuring module gsl version SVN.r14111
Configuring module modeller version SVN.r14111
Configuring module restrainer version SVN.r14111
Module multifit disabled due to disabled module IMP.domino
Module em2d disabled due to missing dependency OpenCV
Configuring module misc version SVN.r14111
Configuring module system version SVN.r14111
Configuring module isd version SVN.r14111
Module example disabled due to disabled module IMP.domino
Configuring module kmeans version SVN.r14111
Configuring module parallel version SVN.r14111
Module pepdock disabled due to disabled module IMP.domino
Configuring module scratch version SVN.r14111
Application EModel2D disabled due to disabled module IMP.domino
Configuring application foxs version SVN.r14111
Configuring application integrative_docking version SVN.r14111
Configuring application saxs_tools version SVN.r14111
Configuring application saxs_merge version SVN.r14111
Configuring application em_tools version SVN.r14111
Configuring application ligand_score version SVN.r14111
Application multifit_tools disabled due to disabled module IMP.multifit
Application rmf_tools disabled due to disabled module IMP.rmf
Configuring application pdb_tools version SVN.r14111
Configuring application example_app version SVN.r14111
Configuring system Groel version SVN.r14111
System rnapii disabled due to disabled module IMP.rmf
System nup84 disabled due to disabled module IMP.em2d
Configuring module example_system_local version SVN
System example_system disabled due to disabled module IMP.rmf
modules/atom/src/MolecularDynamics.cpp: In member function 'virtual void IMP::atom::MolecularDynamics::assign_velocities(IMP::Float)':
modules/atom/src/MolecularDynamics.cpp:190: warning: 'sampler.boost::variate_generator >::_dist.boost::normal_distribution::_cached_rho' may be used uninitialized in this function
modules/atom/src/MolecularDynamics.cpp:190: warning: 'sampler.boost::variate_generator >::_dist.boost::normal_distribution::_r1' may be used uninitialized in this function
modules/atom/src/MolecularDynamics.cpp: In member function 'virtual void IMP::atom::MolecularDynamics::assign_velocities(IMP::Float)':
modules/atom/src/MolecularDynamics.cpp:190: warning: 'sampler.boost::variate_generator >::_dist.boost::normal_distribution::_cached_rho' may be used uninitialized in this function
modules/atom/src/MolecularDynamics.cpp:190: warning: 'sampler.boost::variate_generator >::_dist.boost::normal_distribution::_r1' may be used uninitialized in this function
/scratch/nightly-build-418/imp-SVN.r14111/build/include/IMP/em/DensityMap.h:587: Warning(314): 'from' is a python keyword, renaming to '_from'
/scratch/nightly-build-418/imp-SVN.r14111/build/include/IMP/em/DensityMap.h:587: Warning(314): 'from' is a python keyword, renaming to '_from'
/scratch/nightly-build-418/imp-SVN.r14111/build/include/IMP/em/DensityMap.h:675: Warning(314): 'in' is a python keyword, renaming to '_in'
/scratch/nightly-build-418/imp-SVN.r14111/build/include/IMP/em/DensityMap.h:675: Warning(314): 'in' is a python keyword, renaming to '_in'
modules/isd/src/MolecularDynamics.cpp: In member function 'virtual void IMP::isd::MolecularDynamics::assign_velocities(IMP::Float)':
modules/isd/src/MolecularDynamics.cpp:188: warning: 'sampler.boost::variate_generator >::_dist.boost::normal_distribution::_cached_rho' may be used uninitialized in this function
modules/isd/src/MolecularDynamics.cpp:188: warning: 'sampler.boost::variate_generator >::_dist.boost::normal_distribution::_r1' may be used uninitialized in this function
modules/isd/src/MolecularDynamics.cpp: In member function 'virtual void IMP::isd::MolecularDynamics::assign_velocities(IMP::Float)':
modules/isd/src/MolecularDynamics.cpp:188: warning: 'sampler.boost::variate_generator >::_dist.boost::normal_distribution::_cached_rho' may be used uninitialized in this function
modules/isd/src/MolecularDynamics.cpp:188: warning: 'sampler.boost::variate_generator >::_dist.boost::normal_distribution::_r1' may be used uninitialized in this function
/scratch/nightly-build-418/imp-SVN.r14111/build/swig/IMP_isd.i:120: Warning(303): %extend defined for an undeclared class IMP::isd::GaussianProcessInterpolationSparse.
/scratch/nightly-build-418/imp-SVN.r14111/build/swig/IMP_isd.i:122: Warning(303): %extend defined for an undeclared class IMP::isd::GaussianProcessInterpolationRestraintSparse.
/scratch/nightly-build-418/imp-SVN.r14111/build/include/IMP/isd/bivariate_functions.h:129: Warning(314): 'lambda' is a python keyword, renaming to '_lambda'
/scratch/nightly-build-418/imp-SVN.r14111/build/include/IMP/isd/bivariate_functions.h:129: Warning(314): 'lambda' is a python keyword, renaming to '_lambda'
/scratch/nightly-build-418/imp-SVN.r14111/build/include/IMP/isd/bivariate_functions.h:129: Warning(314): 'lambda' is a python keyword, renaming to '_lambda'
/scratch/nightly-build-418/imp-SVN.r14111/build/include/IMP/isd/bivariate_functions.h:129: Warning(314): 'lambda' is a python keyword, renaming to '_lambda'
/scratch/nightly-build-418/imp-SVN.r14111/build/include/IMP/isd/bivariate_functions.h:129: Warning(314): 'lambda' is a python keyword, renaming to '_lambda'
/scratch/nightly-build-418/imp-SVN.r14111/build/include/IMP/isd/bivariate_functions.h:129: Warning(314): 'lambda' is a python keyword, renaming to '_lambda'
/scratch/nightly-build-418/imp-SVN.r14111/build/include/IMP/isd/bivariate_functions.h:129: Warning(314): 'lambda' is a python keyword, renaming to '_lambda'
/scratch/nightly-build-418/imp-SVN.r14111/build/include/IMP/isd/bivariate_functions.h:129: Warning(314): 'lambda' is a python keyword, renaming to '_lambda'
modules/kmeans/src/internal/KCtree.cpp:413: warning: unused parameter 'bnd_box'
modules/kmeans/src/internal/KCtree.cpp:824: warning: unused parameter 'p'
modules/kmeans/src/internal/KMdata.cpp:47: warning: unused parameter 'p'
modules/kmeans/src/internal/KMdata.cpp:54: warning: unused parameter 'p'
modules/kmeans/src/internal/KMfilterCenters.cpp:244: warning: unused parameter 'fancy'
modules/kmeans/src/internal/KCtree.cpp:413: warning: unused parameter 'bnd_box'
modules/kmeans/src/internal/KCtree.cpp:824: warning: unused parameter 'p'
modules/kmeans/src/internal/KMdata.cpp:47: warning: unused parameter 'p'
modules/kmeans/src/internal/KMdata.cpp:54: warning: unused parameter 'p'
modules/kmeans/src/internal/KMfilterCenters.cpp:244: warning: unused parameter 'fancy'
build/include/IMP/Key.h: In function 'void get_residue_solvent_accessibility(const IMP::Particles&, const IMP::Particles&, const std::vector >&, std::vector >&)':
build/include/IMP/Key.h:120: warning: dereferencing pointer '' does break strict-aliasing rules
/usr/lib/gcc/x86_64-redhat-linux/4.4.6/../../../../include/c++/4.4.6/bits/stl_tree.h:175: note: initialized from here
IMP configuration:
boost ='yes'
boostlibs =''
boostversion ='104100'
boostlibsuffix ='-mt'
endian ='little'
boost_filesystem ='yes'
boost_filesystemlibs='boost_filesystem-mt:boost_system-mt:boost_filesystem-mt:boost_system-mt'
google_perftools_profile='no'
boost_programoptions='yes'
boost_programoptionslibs='boost_program_options-mt:boost_program_options-mt'
hdf5 ='no'
boost_thread ='no'
protobuf ='no'
cgal ='no'
ann ='no'
boost_graph ='no'
gsl ='yes'
gsllibs ='gsl:gslcblas:m'
fftw3 ='yes'
fftw3libs ='fftw3:m'
opencv21 ='no'
opencv22 ='no'
eigen3 ='yes'
eigen3libs =''
eigen3includepath ='/usr/include/eigen3'
cholmod ='no'
build ='release'
modeller ='/salilab/diva1/home/modeller/9.10'
prefix ='/usr'
local ='True'
pythonpath ='/scratch/nightly-build-418/imp-SVN.r14111'
libpath ='/scratch/nightly-build-418/imp-SVN.r14111'
ldlibpath ='/scratch/nightly-build-418/imp-SVN.r14111'
swigpath ='/scratch/nightly-build-418/imp-SVN.r14111'
datapath ='/scratch/nightly-build-418/imp-SVN.r14111'
cxxcompiler ='g++'
cxxflags='-isystem /scratch/nightly-build-418/imp-SVN.r14111 -pipe -Wp,-D_FORTIFY_SOURCE=2 -fexceptions --param=ssp-buffer-size=4 -m64 -mtune=generic -D_GNU_SOURCE -fPIC -Wall -Wextra -Wno-deprecated -Winit-self -Wstrict-aliasing=2 -Wcast-align -fno-operator-names -Wmissing-declarations -Wundef -Woverloaded-virtual -O2 -g'
pythoncxxflags='-isystem /scratch/nightly-build-418/imp-SVN.r14111 -pipe -Wp,-D_FORTIFY_SOURCE=2 -fexceptions --param=ssp-buffer-size=4 -m64 -mtune=generic -D_GNU_SOURCE -fPIC -Wno-deprecated -Winit-self -Wcast-align -fno-operator-names -Wundef -Woverloaded-virtual -g'
bincxxflags='-isystem /scratch/nightly-build-418/imp-SVN.r14111 -pipe -Wp,-D_FORTIFY_SOURCE=2 -fexceptions --param=ssp-buffer-size=4 -m64 -mtune=generic -D_GNU_SOURCE -fPIC -Wall -Wextra -Wno-deprecated -Winit-self -Wstrict-aliasing=2 -Wcast-align -fno-operator-names -Wundef -Woverloaded-virtual -O2 -g'
shliblinkflags =' -shared'
arliblinkflags =''
binlinkflags =' -static'
pythonlinkflags =' -shared'
rpath ='False'
static ='True'
pythonsosuffix ='.so'
pkgconfig ='True'
path ="/usr/bin:/bin"
python ="python"
Enabled dependencies: Boost.FileSystem, modeller, eigen3, Boost.ProgramOptions, FFTW3, Boost, GSL
Disabled dependencies: CGAL, ProtoBuf, HDF5, OpenCV21, Boost.Thread, ANN, CHOLMOD, google_perftools_profile, Boost.Graph, OpenCV22
Enabled modules: em, kernel, scratch, misc, kmeans, statistics, container, saxs, system, parallel, benchmark, core, algebra, restrainer, example_system_local, base, atom, compatibility, gsl, modeller, display, isd
Disabled modules: domino, rmf, RMF, example, cgal, multifit, pepdock, em2d
Enabled applications: pdb_tools, saxs_merge, saxs_tools, example_app, em_tools, integrative_docking, ligand_score, foxs
Disabled applications: rmf_tools, multifit_tools, nup84, example_system, EModel2D, rnapii
Enabled systems: Groel
BUILD COMPLETED