logan@quantumdot:~/projects/sfepy_doc2$ python setup.py build_ext --inplace ['sfepy', '/home/logan/projects/sfepy_doc2/sfepy', '/home/logan/projects/sfepy_doc2', '/home/logan/projects/sfepy_doc2', '/usr/lib/python2.5/site-packages/numpydoc-0.2-py2.5.egg', '/usr/lib/python2.5', '/usr/lib/python2.5/plat-linux2', '/usr/lib/python2.5/lib-tk', '/usr/lib/python2.5/lib-dynload', '/usr/local/lib/python2.5/site-packages', '/usr/lib/python2.5/site-packages', '/usr/lib/python2.5/site-packages/Numeric', '/usr/lib/python2.5/site-packages/PIL', '/usr/lib/python2.5/site-packages/gst-0.10', '/usr/lib/pymodules/python2.5', '/usr/lib/pymodules/python2.5/gtk-2.0', '/usr/lib/python2.5/site-packages/wx-2.8-gtk2-unicode'] /usr/lib/python2.5/site-packages/numpy/distutils/misc_util.pyc <----- Configuration of sfepy: data_files = [('sfepy/fem/extmods/sfepy/fem/extmods', ['sfepy/fem/extmods/version.h.in'])] ext_modules = [, , , , ] name = 'sfepy' package_dir = {'sfepy': 'sfepy', 'sfepy.applications': 'sfepy/applications', 'sfepy.base': 'sfepy/base', 'sfepy.eldesc': 'sfepy/eldesc', 'sfepy.fem': 'sfepy/fem', 'sfepy.fem.extmods': 'sfepy/fem/extmods', 'sfepy.geom': 'sfepy/geom', 'sfepy.homogenization': 'sfepy/homogenization', 'sfepy.interactive': 'sfepy/interactive', 'sfepy.mechanics': 'sfepy/mechanics', 'sfepy.physics': 'sfepy/physics', 'sfepy.physics.extmods': 'sfepy/physics/extmods', 'sfepy.postprocess': 'sfepy/postprocess', 'sfepy.solvers': 'sfepy/solvers', 'sfepy.terms': 'sfepy/terms', 'sfepy.terms.extmods': 'sfepy/terms/extmods'} packages = ['sfepy', 'sfepy.applications', 'sfepy.base', 'sfepy.eldesc', 'sfepy.fem', 'sfepy.fem.extmods', 'sfepy.geom', 'sfepy.homogenization', 'sfepy.interactive', 'sfepy.mechanics', 'sfepy.physics', 'sfepy.physics.extmods', 'sfepy.postprocess', 'sfepy.solvers', 'sfepy.terms', 'sfepy.terms.extmods'] py_modules = [('sfepy', '__config__', )] -----> <----- Configuration of : data_files = [('sfepy/fem/extmods/sfepy/fem/extmods', ['sfepy/fem/extmods/version.h.in']), ('sfepy', ['VERSION']), ('sfepy', ['INSTALL']), ('sfepy', ['README']), ('sfepy', ['LICENSE']), ('sfepy', ['RELEASE_NOTES.txt']), ('sfepy', ['site_cfg_template.py']), ('../../../share/sfepy/script', ['script/blockgen.py']), ('../../../share/sfepy/script', ['script/config.py']), ('../../../share/sfepy/script', ['script/convert.py']), ('../../../share/sfepy/script', ['script/convert_doc.py']), ('../../../share/sfepy/script', ['script/convert_mesh.py']), ('../../../share/sfepy/script', ['script/edit_identifiers.py']), ('../../../share/sfepy/script', ['script/edit_neu.py']), ('../../../share/sfepy/script', ['script/evalForms.py']), ('../../../share/sfepy/script', ['script/eval_tl_forms.py']), ('../../../share/sfepy/script', ['script/genDocsXML.py']), ('../../../share/sfepy/script', ['script/hfm3_mesh.py']), ('../../../share/sfepy/script', ['script/mesh_to_vtk.py']), ('../../../share/sfepy/script', ['script/neu_mesh.py']), ('../../../share/sfepy/script', ['script/sfepyconverter.py']), ('../../../share/sfepy/script', ['script/spymatrix.py']), ('../../../share/sfepy/examples', ['examples/MANIFEST']), ('../../../share/sfepy/examples', ['examples/osteonT1_11.mesh']), ('../../../share/sfepy/examples', ['examples/Makefile.dist']), ('../../../share/sfepy/examples', ['examples/el3.mesh']), ('../../../share/sfepy/examples', ['examples/rs_correctors.py']), ('../../../share/sfepy/examples', ['examples/Makefile.inc']), ('../../../share/sfepy/examples', ['examples/live_plot.py']), ('../../../share/sfepy/examples', ['examples/compare_elastic_materials.py']), ('../../../share/sfepy/database/micro', ['database/micro/MANIFEST', 'database/micro/perf_symm944t.mesh', 'database/micro/Makefile.dist']), ('../../../share/sfepy/database/quantum', ['database/quantum/square.geo', 'database/quantum/MANIFEST', 'database/quantum/well.geo', 'database/quantum/Makefile.dist', 'database/quantum/hydrogen.geo', 'database/quantum/oscillator.geo']), ('../../../share/sfepy/database/phono', ['database/phono/Makefile.dist', 'database/phono/cube_cylinder.mesh', 'database/phono/cube_sphere.mesh', 'database/phono/mesh_circ.geo', 'database/phono/mesh_circ21.mesh', 'database/phono/mesh_circ21_small.mesh']), ('../../../share/sfepy/database/tests', ['database/tests/triquad.mesh', 'database/tests/tetra8.mesh3d', 'database/tests/cube.bdf', 'database/tests/hex4.mesh3d', 'database/tests/Makefile.dist', 'database/tests/plane.mesh', 'database/tests/circle_sym.mesh', 'database/tests/small2d.vtk', 'database/tests/small2d.mesh', 'database/tests/abaqus_tet.inp', 'database/tests/small3d.mesh', 'database/tests/abaqus_hex.inp']), ('../../../share/sfepy/database/', ['database/square_circ.vtk', 'database/octahedron.ele', 'database/octahedron.node', 'database/MANIFEST', 'database/pul_klikatak.mesh', 'database/Makefile.dist', 'database/kostka_medium_tetra.mesh', 'database/t.1.node', 'database/triplackaquad.mesh', 'database/t1.geo.sphere-struct', 'database/t.1.ele', 'database/simple.mesh', 'database/acoustics.mesh', 'database/pul_klikatak2.mesh', 'database/plackaplacata.mesh', 'database/triplacka.mesh', 'database/maillage.txt', 'database/kostka_medium.mesh', 'database/tristverec2.mesh', 'database/tristverec.mesh', 'database/triplackasmooth.mesh', 'database/box.geo', 'database/kostka_big.mesh', 'database/simple.vtk', 'database/t1.geo.sphere-tri']), ('../../../share/sfepy/input/quantum', ['input/quantum/boron3d.py', 'input/quantum/dft.py', 'input/quantum/boron2d.py', 'input/quantum/Makefile.dist', 'input/quantum/oscillator3d.py', 'input/quantum/hydrogen2d.py', 'input/quantum/Makefile.inc', 'input/quantum/hydrogen3d.py', 'input/quantum/dft2d.py', 'input/quantum/oscillator2d.py', 'input/quantum/well3d.py', 'input/quantum/well2d.py', 'input/quantum/hydrogen.py', 'input/quantum/dft3d.py']), ('../../../share/sfepy/input/phono', ['input/phono/parametric.py', 'input/phono/plot_gaps.py', 'input/phono/Makefile.dist', 'input/phono/gen_mesh.py', 'input/phono/band_gaps_rigid.py', 'input/phono/Makefile.inc', 'input/phono/coef_conf_elastic.py', 'input/phono/band_gaps.py']), ('../../../share/sfepy/input/', ['input/biot.py', 'input/MANIFEST', 'input/biot_npbc.py', 'input/poisson.py', 'input/stabilized_navier_stokes.py', 'input/acoustics.py', 'input/piezo.py', 'input/octahedron.py', 'input/valec.py', 'input/Makefile.dist', 'input/subdomains.py', 'input/linear_elastic.py', 'input/kostka.py', 'input/Makefile.inc', 'input/le.py', 'input/poisson_parametric_study.py', 'input/hyperelastic.py', 'input/sinbc.py', 'input/navier_stokes.py', 'input/time_poisson.py', 'input/linear_elastic_dynamic.py', 'input/pfdpm_permeability.py']), ('../../../share/sfepy/doc/src', []), ('../../../share/sfepy/doc/pages', ['doc/pages/Makefile.dist', 'doc/pages/intro.tex', 'doc/pages/intro.xml', 'doc/pages/title_sfepy.tex', 'doc/pages/notation.xml']), ('../../../share/sfepy/doc/txt', ['doc/txt/mpi.txt', 'doc/txt/Makefile.dist', 'doc/txt/term_args.txt', 'doc/txt/notes.txt']), ('../../../share/sfepy/doc/tex', ['doc/tex/Makefile.dist', 'doc/tex/introduction_slides.tex']), ('../../../share/sfepy/doc/logo', ['doc/logo/MANIFEST', 'doc/logo/Makefile.dist', 'doc/logo/sfepy_logo.pvsm', 'doc/logo/sfepy_logo_title.xcf']), ('../../../share/sfepy/doc/src/sfepy', []), ('../../../share/sfepy/doc/src/sfepy/physics', ['doc/src/sfepy/physics/module_sfepy_physics_extmods_dft.rst']), ('../../../share/sfepy/doc/src/sfepy/postprocess', ['doc/src/sfepy/postprocess/module_sfepy_postprocess_viewer.rst', 'doc/src/sfepy/postprocess/module_sfepy_postprocess_sources.rst', 'doc/src/sfepy/postprocess/module_sfepy_postprocess_dataset_manager.rst', 'doc/src/sfepy/postprocess/module_sfepy_postprocess_utils.rst']), ('../../../share/sfepy/doc/src/sfepy/applications', ['doc/src/sfepy/applications/module_sfepy_applications_application.rst', 'doc/src/sfepy/applications/module_sfepy_applications_simple_app.rst', 'doc/src/sfepy/applications/module_sfepy_applications_top_level.rst']), ('../../../share/sfepy/doc/src/sfepy/homogenization', ['doc/src/sfepy/homogenization/module_sfepy_homogenization_engine.rst', 'doc/src/sfepy/homogenization/module_sfepy_homogenization_coefs_elastic.rst', 'doc/src/sfepy/homogenization/module_sfepy_homogenization_pfdpm.rst', 'doc/src/sfepy/homogenization/module_sfepy_homogenization_coefficients.rst', 'doc/src/sfepy/homogenization/module_sfepy_homogenization_coefs_base.rst', 'doc/src/sfepy/homogenization/module_sfepy_homogenization_recovery.rst', 'doc/src/sfepy/homogenization/module_sfepy_homogenization_prolong.rst', 'doc/src/sfepy/homogenization/module_sfepy_homogenization_coefs_piezo.rst', 'doc/src/sfepy/homogenization/module_sfepy_homogenization_utils.rst', 'doc/src/sfepy/homogenization/module_sfepy_homogenization_phono.rst']), ('../../../share/sfepy/doc/src/sfepy/mechanics', ['doc/src/sfepy/mechanics/module_sfepy_mechanics_matcoefs.rst']), ('../../../share/sfepy/doc/src/sfepy/solvers', ['doc/src/sfepy/solvers/module_sfepy_solvers_nls.rst', 'doc/src/sfepy/solvers/module_sfepy_solvers_eigen.rst', 'doc/src/sfepy/solvers/module_sfepy_solvers_generic.rst', 'doc/src/sfepy/solvers/module_sfepy_solvers_solvers.rst', 'doc/src/sfepy/solvers/module_sfepy_solvers_oseen.rst', 'doc/src/sfepy/solvers/module_sfepy_solvers_ls.rst', 'doc/src/sfepy/solvers/module_sfepy_solvers_optimize.rst', 'doc/src/sfepy/solvers/module_sfepy_solvers_ts.rst']), ('../../../share/sfepy/doc/src/sfepy/base', ['doc/src/sfepy/base/module_sfepy_base_getch.rst', 'doc/src/sfepy/base/module_sfepy_base_conf.rst', 'doc/src/sfepy/base/module_sfepy_base_log.rst', 'doc/src/sfepy/base/module_sfepy_base_ioutils.rst', 'doc/src/sfepy/base/module_sfepy_base_tasks.rst', 'doc/src/sfepy/base/module_sfepy_base_testing.rst', 'doc/src/sfepy/base/module_sfepy_base_reader.rst', 'doc/src/sfepy/base/module_sfepy_base_plotutils.rst', 'doc/src/sfepy/base/module_sfepy_base_base.rst', 'doc/src/sfepy/base/module_sfepy_base_setup.rst', 'doc/src/sfepy/base/module_sfepy_base_progressbar.rst', 'doc/src/sfepy/base/module_sfepy_base_la.rst']), ('../../../share/sfepy/doc/src/sfepy/geom', ['doc/src/sfepy/geom/module_sfepy_geom_geometry.rst', 'doc/src/sfepy/geom/module_sfepy_geom_tetgen.rst', 'doc/src/sfepy/geom/module_sfepy_geom_meshutils.rst', 'doc/src/sfepy/geom/module_sfepy_geom_femlab.rst', 'doc/src/sfepy/geom/module_sfepy_geom_gmsh.rst']), ('../../../share/sfepy/doc/tex/figures', ['doc/tex/figures/logo_fav_en.pdf', 'doc/tex/figures/zcu.pdf', 'doc/tex/figures/logoen_bw.eps', 'doc/tex/figures/Makefile.dist', 'doc/tex/figures/znak_zcu.pdf', 'doc/tex/figures/logoen_bw.pdf']), ('../../../share/sfepy/doc/', ['doc/tutorial.rst', 'doc/index.rst', 'doc/doxygen.config', 'doc/Makefile.dist', 'doc/developer_guide.rst', 'doc/Makefile', 'doc/introduction.rst', 'doc/conf.py']), ('../../../share/sfepy/tests/', ['tests/test_input_biot_npbc.py', 'tests/test_input_linear_elastic.py', 'tests/MANIFEST', 'tests/test_input_kostka.py', 'tests/test_input_octahedron.py', 'tests/test_meshio.py', 'tests/test_laplace_unit_square.py', 'tests/test_functions.py', 'tests/test_lcbc_2d.py', 'tests/test_base.py', 'tests/Makefile.dist', 'tests/test_input_le.py', 'tests/test_periodic_bc_3d.py', 'tests/test_term_consistency.py', 'tests/test_input_biot.py', 'tests/Makefile.inc', 'tests/test_parsing.py', 'tests/test_elasticity_small_strain.py', 'tests/test_input_navier_stokes.py', 'tests/test_input_linear_elastic_dynamic.py', 'tests/test_assembling.py', 'tests/test_linear_solvers.py', 'tests/test_laplace_unit_disk.py', 'tests/test_periodic_bc_2d.py', 'tests/test_volume.py', 'tests/test_lcbc_3d.py', 'tests/test_input_pfdpm_permeability.py', 'tests/test_input_hyperelastic.py', 'tests/test_msm_laplace.py', 'tests/test_quadratures.py', 'tests/test_io.py', 'tests/test_input_time_poisson.py', 'tests/test_input_stabilized_navier_stokes.py', 'tests/testsBasic.py', 'tests/test_input_poisson.py', 'tests/test_input_subdomains.py', 'tests/test_input_acoustics.py', 'tests/sympy_operators.py', 'tests/test_input_sinbc.py', 'tests/test_input_piezo.py', 'tests/test_msm_symbolic.py'])] ext_modules = [, , , , ] package_dir = {'sfepy': 'sfepy', 'sfepy.applications': 'sfepy/applications', 'sfepy.base': 'sfepy/base', 'sfepy.eldesc': 'sfepy/eldesc', 'sfepy.fem': 'sfepy/fem', 'sfepy.fem.extmods': 'sfepy/fem/extmods', 'sfepy.geom': 'sfepy/geom', 'sfepy.homogenization': 'sfepy/homogenization', 'sfepy.interactive': 'sfepy/interactive', 'sfepy.mechanics': 'sfepy/mechanics', 'sfepy.physics': 'sfepy/physics', 'sfepy.physics.extmods': 'sfepy/physics/extmods', 'sfepy.postprocess': 'sfepy/postprocess', 'sfepy.solvers': 'sfepy/solvers', 'sfepy.terms': 'sfepy/terms', 'sfepy.terms.extmods': 'sfepy/terms/extmods'} packages = ['sfepy', 'sfepy.applications', 'sfepy.base', 'sfepy.eldesc', 'sfepy.fem', 'sfepy.fem.extmods', 'sfepy.geom', 'sfepy.homogenization', 'sfepy.interactive', 'sfepy.mechanics', 'sfepy.physics', 'sfepy.physics.extmods', 'sfepy.postprocess', 'sfepy.solvers', 'sfepy.terms', 'sfepy.terms.extmods'] py_modules = [('sfepy', '__config__', )] version = '2009.3-release (db767f354eb80c23ef3be9ca15ea7eae072f98cd)' -----> running build_ext running build_src building py_modules sources building extension "sfepy.fem.extmods._fem" sources swig: sfepy/fem/extmods/fem.i swig -python -Isfepy/fem/extmods -o sfepy/fem/extmods/fem_wrap.c -outdir sfepy/fem/extmods sfepy/fem/extmods/fem.i building extension "sfepy.fem.extmods._meshutils" sources swig: sfepy/fem/extmods/meshutils.i swig -python -Isfepy/fem/extmods -o sfepy/fem/extmods/meshutils_wrap.c -outdir sfepy/fem/extmods sfepy/fem/extmods/meshutils.i building extension "sfepy.fem.extmods._geometry" sources swig: sfepy/fem/extmods/geometry.i swig -python -Isfepy/fem/extmods -o sfepy/fem/extmods/geometry_wrap.c -outdir sfepy/fem/extmods sfepy/fem/extmods/geometry.i sfepy/fem/extmods/geometry.i:138: Warning(314): 'in' is a python keyword, renaming to '_in' sfepy/fem/extmods/geometry.i:138: Warning(314): 'in' is a python keyword, renaming to '_in' sfepy/fem/extmods/geometry.i:145: Warning(314): 'in' is a python keyword, renaming to '_in' sfepy/fem/extmods/geometry.i:145: Warning(314): 'in' is a python keyword, renaming to '_in' sfepy/fem/extmods/geometry.i:306: Warning(314): 'in' is a python keyword, renaming to '_in' sfepy/fem/extmods/geometry.i:306: Warning(314): 'in' is a python keyword, renaming to '_in' sfepy/fem/extmods/geometry.i:313: Warning(314): 'in' is a python keyword, renaming to '_in' sfepy/fem/extmods/geometry.i:313: Warning(314): 'in' is a python keyword, renaming to '_in' building extension "sfepy.physics.extmods._dft" sources swig: sfepy/physics/extmods/dft.i swig -python -Isfepy/physics/extmods -Isfepy/fem/extmods -o sfepy/physics/extmods/dft_wrap.c -outdir sfepy/physics/extmods sfepy/physics/extmods/dft.i building extension "sfepy.terms.extmods._terms" sources swig: sfepy/terms/extmods/terms.i swig -python -Isfepy/terms/extmods -Isfepy/fem/extmods -o sfepy/terms/extmods/terms_wrap.c -outdir sfepy/terms/extmods sfepy/terms/extmods/terms.i sfepy/terms/extmods/terms.i:109: Warning(314): 'in' is a python keyword, renaming to '_in' sfepy/terms/extmods/terms.i:109: Warning(314): 'in' is a python keyword, renaming to '_in' building data_files sources customize UnixCCompiler customize UnixCCompiler using build_ext building 'sfepy.fem.extmods._fem' extension compiling C sources C compiler: gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC creating build creating build/temp.linux-i686-2.5 creating build/temp.linux-i686-2.5/sfepy creating build/temp.linux-i686-2.5/sfepy/fem creating build/temp.linux-i686-2.5/sfepy/fem/extmods compile options: '-D__SDIR__='"sfepy/fem/extmods"' -DDEBUGFMF -DSFEPY_PLATFORM=0 -Isfepy/fem/extmods -I/usr/lib/python2.5/site-packages/numpy/core/include -I/usr/include/python2.5 -c' extra options: '-O2' gcc: sfepy/fem/extmods/fem_wrap.c sfepy/fem/extmods/fem_wrap.c:3010: warning: function declaration isn’t a prototype sfepy/fem/extmods/fem_wrap.c:3013: warning: function declaration isn’t a prototype gcc: sfepy/fem/extmods/fmfield.c gcc: sfepy/fem/extmods/common_python.c In file included from /usr/include/python2.5/Python.h:8, from sfepy/fem/extmods/common_python.c:4: /usr/include/python2.5/pyconfig.h:967:1: warning: "_POSIX_C_SOURCE" redefined In file included from /usr/include/math.h:28, from sfepy/fem/extmods/common.h:8, from sfepy/fem/extmods/common_python.c:3: /usr/include/features.h:210:1: warning: this is the location of the previous definition sfepy/fem/extmods/common_python.c: In function ‘mem_print’: sfepy/fem/extmods/common_python.c:313: warning: format ‘%d’ expects type ‘int’, but argument 7 has type ‘long unsigned int’ sfepy/fem/extmods/common_python.c: In function ‘mem_printSome’: sfepy/fem/extmods/common_python.c:367: warning: format ‘%d’ expects type ‘int’, but argument 7 has type ‘long unsigned int’ gcc: sfepy/fem/extmods/fem.c gcc: sfepy/fem/extmods/sort.c sfepy/fem/extmods/sort.c: In function ‘int32_sort_rows’: sfepy/fem/extmods/sort.c:80: warning: pointer targets in passing argument 6 of ‘int32_mtx_aquicksort’ differ in signedness gcc: sfepy/fem/extmods/geommech.c gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-i686-2.5/sfepy/fem/extmods/fmfield.o build/temp.linux-i686-2.5/sfepy/fem/extmods/fem.o build/temp.linux-i686-2.5/sfepy/fem/extmods/fem_wrap.o build/temp.linux-i686-2.5/sfepy/fem/extmods/geommech.o build/temp.linux-i686-2.5/sfepy/fem/extmods/sort.o build/temp.linux-i686-2.5/sfepy/fem/extmods/common_python.o -o sfepy/fem/extmods/_fem.so building 'sfepy.fem.extmods._meshutils' extension compiling C sources C compiler: gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC compile options: '-D__SDIR__='"sfepy/fem/extmods"' -DDEBUGFMF -DSFEPY_PLATFORM=0 -Isfepy/fem/extmods -I/usr/lib/python2.5/site-packages/numpy/core/include -I/usr/include/python2.5 -c' extra options: '-O2' gcc: sfepy/fem/extmods/geomtrans.c gcc: sfepy/fem/extmods/meshutils_wrap.c sfepy/fem/extmods/meshutils_wrap.c:3009: warning: function declaration isn’t a prototype sfepy/fem/extmods/meshutils_wrap.c:3012: warning: function declaration isn’t a prototype gcc: sfepy/fem/extmods/meshutils.c gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-i686-2.5/sfepy/fem/extmods/geomtrans.o build/temp.linux-i686-2.5/sfepy/fem/extmods/meshutils.o build/temp.linux-i686-2.5/sfepy/fem/extmods/meshutils_wrap.o build/temp.linux-i686-2.5/sfepy/fem/extmods/common_python.o build/temp.linux-i686-2.5/sfepy/fem/extmods/sort.o -o sfepy/fem/extmods/_meshutils.so building 'sfepy.fem.extmods._geometry' extension compiling C sources C compiler: gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC compile options: '-D__SDIR__='"sfepy/fem/extmods"' -DDEBUGFMF -DSFEPY_PLATFORM=0 -Isfepy/fem/extmods -I/usr/lib/python2.5/site-packages/numpy/core/include -I/usr/include/python2.5 -c' extra options: '-O2' gcc: sfepy/fem/extmods/geometry_wrap.c sfepy/fem/extmods/geometry_wrap.c:3012: warning: function declaration isn’t a prototype sfepy/fem/extmods/geometry_wrap.c:3015: warning: function declaration isn’t a prototype gcc: sfepy/fem/extmods/geometry.c gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-i686-2.5/sfepy/fem/extmods/fmfield.o build/temp.linux-i686-2.5/sfepy/fem/extmods/geometry.o build/temp.linux-i686-2.5/sfepy/fem/extmods/geometry_wrap.o build/temp.linux-i686-2.5/sfepy/fem/extmods/geommech.o build/temp.linux-i686-2.5/sfepy/fem/extmods/common_python.o -o sfepy/fem/extmods/_geometry.so building 'sfepy.physics.extmods._dft' extension compiling C sources C compiler: gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC creating build/temp.linux-i686-2.5/sfepy/physics creating build/temp.linux-i686-2.5/sfepy/physics/extmods compile options: '-D__SDIR__='"sfepy/physics/extmods"' -DDEBUGFMF -Isfepy/physics/extmods -Isfepy/fem/extmods -I/usr/lib/python2.5/site-packages/numpy/core/include -I/usr/include/python2.5 -c' extra options: '-O2' gcc: sfepy/physics/extmods/dft.c gcc: sfepy/physics/extmods/dft_wrap.c gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-i686-2.5/sfepy/physics/extmods/dft.o build/temp.linux-i686-2.5/sfepy/physics/extmods/dft_wrap.o -o sfepy/physics/extmods/_dft.so building 'sfepy.terms.extmods._terms' extension compiling C sources C compiler: gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC creating build/temp.linux-i686-2.5/sfepy/terms creating build/temp.linux-i686-2.5/sfepy/terms/extmods compile options: '-D__SDIR__='"sfepy/terms/extmods"' -DDEBUGFMF -DSFEPY_PLATFORM=0 -Isfepy/terms/extmods -Isfepy/fem/extmods -I/usr/lib/python2.5/site-packages/numpy/core/include -I/usr/include/python2.5 -c' extra options: '-O2' gcc: sfepy/terms/extmods/termsBasic.c gcc: sfepy/terms/extmods/terms.c gcc: sfepy/terms/extmods/termsSurface.c gcc: sfepy/terms/extmods/termsPiezo.c gcc: sfepy/terms/extmods/termsLaplace.c gcc: sfepy/terms/extmods/termsVolume.c gcc: sfepy/terms/extmods/termsNavierStokes.c gcc: sfepy/terms/extmods/formSDCC.c gcc: sfepy/terms/extmods/termsHyperElasticity.c gcc: sfepy/terms/extmods/termsLinElasticity.c gcc: sfepy/terms/extmods/termsHDPM.c gcc: sfepy/terms/extmods/termsMass.c gcc: sfepy/terms/extmods/terms_wrap.c sfepy/terms/extmods/terms_wrap.c:3024: warning: function declaration isn’t a prototype sfepy/terms/extmods/terms_wrap.c:3027: warning: function declaration isn’t a prototype sfepy/terms/extmods/terms_wrap.c: In function ‘_wrap_d_hdpm_surfdvel’: sfepy/terms/extmods/terms_wrap.c:8853: warning: implicit declaration of function ‘d_hdpm_surfdvel’ gcc: sfepy/terms/extmods/termsBiot.c gcc: sfepy/terms/extmods/termsElectric.c gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-i686-2.5/sfepy/terms/extmods/termsHDPM.o build/temp.linux-i686-2.5/sfepy/terms/extmods/termsBasic.o build/temp.linux-i686-2.5/sfepy/terms/extmods/termsBiot.o build/temp.linux-i686-2.5/sfepy/terms/extmods/termsLaplace.o build/temp.linux-i686-2.5/sfepy/terms/extmods/termsLinElasticity.o build/temp.linux-i686-2.5/sfepy/terms/extmods/termsElectric.o build/temp.linux-i686-2.5/sfepy/terms/extmods/termsHyperElasticity.o build/temp.linux-i686-2.5/sfepy/terms/extmods/termsNavierStokes.o build/temp.linux-i686-2.5/sfepy/terms/extmods/formSDCC.o build/temp.linux-i686-2.5/sfepy/terms/extmods/termsMass.o build/temp.linux-i686-2.5/sfepy/terms/extmods/termsPiezo.o build/temp.linux-i686-2.5/sfepy/terms/extmods/terms.o build/temp.linux-i686-2.5/sfepy/terms/extmods/termsSurface.o build/temp.linux-i686-2.5/sfepy/terms/extmods/termsVolume.o build/temp.linux-i686-2.5/sfepy/terms/extmods/terms_wrap.o build/temp.linux-i686-2.5/sfepy/fem/extmods/common_python.o build/temp.linux-i686-2.5/sfepy/fem/extmods/fmfield.o build/temp.linux-i686-2.5/sfepy/fem/extmods/geommech.o -o sfepy/terms/extmods/_terms.so running scons logan@quantumdot:~/projects/sfepy_doc2$ cd doc logan@quantumdot:~/projects/sfepy_doc2/doc$ ls conf.py developer_guide.rst doxygen.config index.rst introduction.rst logo Makefile Makefile.dist pages src tex tutorial.rst txt logan@quantumdot:~/projects/sfepy_doc2/doc$ make html PYTHONPATH=.. sphinx-build -b html -d _build/doctrees . _build/html Making output directory... Running Sphinx v0.6.3 /usr/lib/pymodules/python2.5/sphinx/application.py:167: DeprecationWarning: The numpydoc.autosummary extension can also be found as sphinx.ext.autosummary in Sphinx >= 0.6, and the version in Sphinx >= 0.7 is superior to the one in numpydoc. This numpydoc version of autosummary is no longer maintained. mod = __import__(extension, None, None, ['setup']) loading pickled environment... not found building [html]: targets for 48 source files that are out of date updating environment: 48 added, 0 changed, 0 removed reading sources... [100%] tutorial /home/logan/projects/sfepy_doc2/doc/developer_guide.rst:106: (WARNING/2) toctree references unknown document u'src/sfepy/solvers/module_sfepy_solvers_setup' /home/logan/projects/sfepy_doc2/doc/index.rst:13: (WARNING/2) toctree references unknown document u'users_guide' /home/logan/projects/sfepy_doc2/doc/index.rst:13: (WARNING/2) toctree references unknown document u'examples' /home/logan/projects/sfepy_doc2/doc/index.rst:13: (WARNING/2) toctree references unknown document u'documentation_guide' /home/logan/projects/sfepy_doc2/doc/introduction.rst:23: (ERROR/3) Unexpected indentation. /home/logan/projects/sfepy_doc2/sfepy/base/conf.py:docstring of sfepy.base.conf.ProblemConf.from_file:18: (WARNING/2) Definition list ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/base/conf.py:docstring of sfepy.base.conf.ProblemConf:13: (ERROR/3) Unexpected indentation. /home/logan/projects/sfepy_doc2/sfepy/base/conf.py:docstring of sfepy.base.conf.ProblemConf.from_file:22: (WARNING/2) Block quote ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/base/la.py:docstring of sfepy.base.la.barycentric_coors:6: (WARNING/2) Definition list ends without a blank line; unexpected unindent. :0: (ERROR/3) Unexpected indentation. /home/logan/projects/sfepy_doc2/sfepy/base/log.py:docstring of sfepy.base.log.Log.from_conf:5: (WARNING/2) Definition list ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/base/progressbar.py:docstring of sfepy.base.progressbar:6: (ERROR/3) Unexpected indentation. /home/logan/projects/sfepy_doc2/sfepy/base/progressbar.py:docstring of sfepy.base.progressbar.progressbar:11: (WARNING/2) Block quote ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.readELE:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.readELE2:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.readNOD:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.readmsh:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.readmsh2:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.readpmd:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.readstr2STR:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.readstr3STR:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.readxt2sSTR:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.writeELE:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.writeNOD:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.writemsh:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.writemsh2:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.writepmd:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.writescalarspos:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.writescalarspos2:3: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/geom/meshutils.py:docstring of sfepy.geom.meshutils.mesh.writexda:3: (WARNING/2) Inline emphasis start-string without end-string. :0: (ERROR/3) Unexpected indentation. /home/logan/projects/sfepy_doc2/sfepy/homogenization/coefs_base.py:docstring of sfepy.homogenization.coefs_base.CorrNN:9: (WARNING/2) Block quote ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/doc/src/sfepy/homogenization/module_sfepy_homogenization_pfdpm.rst:4: (WARNING/2) autodoc can't import/find module 'sfepy.homogenization.pfdpm', it reported error: "cannot import name eig", please check your spelling and sys.path /home/logan/projects/sfepy_doc2/sfepy/homogenization/phono.py:docstring of sfepy.homogenization.phono.compute_cat:7: (WARNING/2) Bullet list ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/homogenization/phono.py:docstring of sfepy.homogenization.phono.compute_cat:10: (WARNING/2) Bullet list ends without a blank line; unexpected unindent. :0: (ERROR/3) Unexpected indentation. /home/logan/projects/sfepy_doc2/sfepy/homogenization/recovery.py:docstring of sfepy.homogenization.recovery.compute_u_corr_steady:4: (WARNING/2) Block quote ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/homogenization/recovery.py:docstring of sfepy.homogenization.recovery.compute_u_corr_steady:5: (WARNING/2) Inline emphasis start-string without end-string. /home/logan/projects/sfepy_doc2/sfepy/homogenization/recovery.py:docstring of sfepy.homogenization.recovery.compute_u_corr_time:5: (WARNING/2) Block quote ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/homogenization/recovery.py:docstring of sfepy.homogenization.recovery.compute_u_corr_time:7: (WARNING/2) Definition list ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/solvers/eigen.py:docstring of sfepy.solvers.eigen.LOBPCGEigenvalueSolver.process_conf:17: (WARNING/2) Definition list ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/solvers/eigen.py:docstring of sfepy.solvers.eigen.PysparseEigenvalueSolver.process_conf:17: (WARNING/2) Definition list ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/solvers/eigen.py:docstring of sfepy.solvers.eigen.ScipySGEigenvalueSolver.process_conf:12: (WARNING/2) Block quote ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/solvers/ls.py:docstring of sfepy.solvers.ls.PETScKrylovSolver.process_conf:16: (WARNING/2) Definition list ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/solvers/ls.py:docstring of sfepy.solvers.ls.PyAMGSolver.process_conf:13: (WARNING/2) Definition list ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/solvers/ls.py:docstring of sfepy.solvers.ls.ScipyDirect.process_conf:14: (WARNING/2) Definition list ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/solvers/ls.py:docstring of sfepy.solvers.ls.ScipyIterative.process_conf:14: (WARNING/2) Definition list ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/solvers/nls.py:docstring of sfepy.solvers.nls.Newton.process_conf:24: (WARNING/2) Definition list ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/solvers/nls.py:docstring of sfepy.solvers.nls.ScipyBroyden.process_conf:17: (WARNING/2) Definition list ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/solvers/optimize.py:docstring of sfepy.solvers.optimize.FMinSteepestDescent.process_conf:28: (WARNING/2) Definition list ends without a blank line; unexpected unindent. /home/logan/projects/sfepy_doc2/sfepy/solvers/oseen.py:docstring of sfepy.solvers.oseen.Oseen.process_conf:25: (WARNING/2) Definition list ends without a blank line; unexpected unindent. looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done writing output... [100%] tutorial writing additional files... genindex modindex search copying static files... WARNING: static directory '/home/logan/projects/sfepy_doc2/doc/_static' does not exist done dumping search index... done dumping object inventory... done build succeeded, 52 warnings. Build finished. The HTML pages are in _build/html.