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[Libmesh-users] Re: libmesh problem
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From: Benjamin S. K. <be...@cf...> - 2003-11-28 15:21:11
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It sounds like configure did not find PETSc... Did you put those directories in the Make.common file yourself? If so, then there are #define's in include/base/libmesh_config.h that are missing, so the PETSc code is not getting compiled. It is best if configure finds PETSc, that way everything else should work OK. From your email I see that you want to use the Intel icc compiler. In that case, the general configuration approach I would suggest is this: export CXX=icc export CC=icc export F77=ifc export PETSC_DIR=/usr/local/src/petsc-2.1.5 export PETSC_ARCH=linux_intel ./configure The ./configure script should find PETSc. For exampe, here is my setup: voyager(4)$ echo $PETSC_DIR /usr/local/petsc/petsc-2.1.6 voyager(5)$ echo $PETSC_ARCH linux voyager(6)$ CXX=icc CC=icc F77=ifc ./configure --------------------------------------------- ----------- Configuring libMesh ------------- --------------------------------------------- checking build system type... i686-pc-linux-gnu checking host system type... i686-pc-linux-gnu checking target system type... i686-pc-linux-gnu checking for C++ compiler default output... a.out checking whether the C++ compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C++ compiler... no checking whether icc accepts -g... yes checking for gcc... icc checking whether we are using the GNU C compiler... no checking whether icc accepts -g... yes checking for icc option to accept ANSI C... none needed <<< C++ compiler is Intel ICC >>> checking how to run the C++ preprocessor... icc -E checking for egrep... grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for short int... yes checking size of short int... 2 checking for int... yes checking size of int... 4 checking for long int... yes checking size of long int... 4 checking for float... yes checking size of float... 4 checking for double... yes checking size of double... 8 checking for void *... yes checking size of void *... 4 checking getopt.h usability... yes checking getopt.h presence... yes checking for getopt.h... yes checking whether the compiler implements namespaces... yes checking whether the compiler has locale... yes checking whether the compiler has stringstream... yes checking hash_map usability... yes checking hash_map presence... yes checking for hash_map... yes checking hash_set usability... yes checking hash_set presence... yes checking for hash_set... yes checking zlib.h usability... yes checking zlib.h presence... yes checking for zlib.h... yes <<< Configuring library with AMR support >>> <<< Configuring library with expensive data structures enabled >>> checking rpc/rpc.h usability... yes checking rpc/rpc.h presence... yes checking for rpc/rpc.h... yes <<< Configuring library with XDR support >>> <<< Configuring library with real number support >>> <<< Configuring library with reference counting support >>> checking for ./contrib/netcdf/lib/i686-pc-linux-gnu/libnetcdf.a... yes checking for ./contrib/netcdf/include/netcdf.h... yes <<< Configuring library with netCDF support >>> checking for ./contrib/exodus/lib/i686-pc-linux-gnu/libexoIIv2c.a... yes checking for ./contrib/exodus/include/exodusII.h... yes <<< Configuring library with Exodus API support >>> --------------------------------------------- ----- Configuring for optional packages ----- --------------------------------------------- checking for ./contrib/sfcurves/sfcurves.h... yes <<< Configuring library with SFC support >>> checking for ./contrib/gzstream/gzstream.h... yes <<< Configuring library with gzstreams support >>> checking for ./contrib/tecplot/lib/i686-pc-linux-gnu/tecio.a... yes checking for ./contrib/tecplot/include/TECIO.h... yes <<< Configuring library with Tecplot API support >>> checking for ./contrib/laspack/lastypes.h... yes <<< Configuring library with LASPACK version 1.12.3 support >>> checking for /usr/local/petsc/petsc-2.1.6/include/petsc.h... yes checking whether we are using the GNU Fortran 77 compiler... no checking whether ifc accepts -g... yes checking how to get verbose linking output from ifc... -v checking for Fortran 77 libraries... -L/usr/local/intel/compiler70/ia32/lib -L/usr/lib -lintrins -lIEPCF90 -lF90 -limf -lm -lirc -lcxa -lunwind <<< Configuring library with PETSc version 2.1.6 support >>> checking for ./contrib/metis/Lib/metis.h... yes <<< Configuring library with Metis support >>> checking for ./contrib/parmetis/Lib/parmetis.h... yes <<< Configuring library with Parmetis support >>> checking for doxygen... /usr/bin/doxygen checking for dot... /usr/local/graphviz/bin/dot ---------------------------------------------- --- Done configuring for optional packages --- ---------------------------------------------- checking for perl... /usr/bin/perl configure: creating ./config.status config.status: creating Make.common config.status: creating include/base/libmesh_config.h configure: creating ./config.status config.status: creating Make.common config.status: creating doc/Doxyfile config.status: creating include/base/libmesh_config.h config.status: include/base/libmesh_config.h is unchanged --------------------------------------------- --------- Done Configuring libMesh ---------- --------------------------------------------- Notice how PETSc was found in the "optional packages" section. Please let me know if you still have an issue. -Ben Patrick O. Lechner wrote: > Hello Steffen, > > thank you very much for your email and your help. > I've done the modifications, that you mentioned, but it still doesn't work so far. > The output from make echo, that I get, is: > > Source Files: > src/base/dof_map.C src/base/dof_map_constraints.C src/base/dof_object.C src/base/equation_systems.C src/base/equation_systems_io.C src/base/frequency_system.C src/base/libmesh_base.C src/base/libmesh.C src/base/newmark_system.C src/base/node.C src/base/reference_counted_object.C src/base/reference_counter.C src/base/steady_system.C src/base/system_base.C src/base/system_base_io.C src/base/system_base_projection.C src/base/transient_system.C src/fe/fe_base.C src/fe/fe_boundary.C src/fe/fe.C src/fe/fe_hierarchic.C src/fe/fe_hierarchic_shape_1D.C src/fe/fe_hierarchic_shape_2D.C src/fe/fe_hierarchic_shape_3D.C src/fe/fe_interface.C src/fe/fe_interface_inf_fe.C src/fe/fe_lagrange.C src/fe/fe_lagrange_shape_1D.C src/fe/fe_lagrange_shape_2D.C src/fe/fe_lagrange_shape_3D.C src/fe/fe_map.C src/fe/fe_monomial.C src/fe/fe_monomial_shape_1D.C src/fe/fe_monomial_shape_2D.C src/fe/fe_monomial_shape_3D.C src/fe/inf_fe_base_radial.C src/fe/inf_fe_boundary.C src/fe/inf_fe.C src/fe/inf_fe_j! acobi_20_00_eval.C src/fe/inf_fe_jacobi_30_00_eval.C src/fe/inf_fe_lagrange_eval.C src/fe/inf_fe_legendre_eval.C src/fe/inf_fe_map.C src/fe/inf_fe_map_eval.C src/fe/inf_fe_static.C src/geom/cell.C src/geom/cell_hex20.C src/geom/cell_hex27.C src/geom/cell_hex8.C src/geom/cell_hex.C src/geom/cell_inf.C src/geom/cell_inf_hex16.C src/geom/cell_inf_hex18.C src/geom/cell_inf_hex8.C src/geom/cell_inf_hex.C src/geom/cell_inf_prism12.C src/geom/cell_inf_prism6.C src/geom/cell_inf_prism.C src/geom/cell_prism15.C src/geom/cell_prism18.C src/geom/cell_prism6.C src/geom/cell_prism.C src/geom/cell_pyramid5.C src/geom/cell_pyramid.C src/geom/cell_tet10.C src/geom/cell_tet4.C src/geom/cell_tet.C src/geom/edge.C src/geom/edge_edge2.C src/geom/edge_edge3.C src/geom/edge_inf_edge2.C src/geom/elem.C src/geom/elem_quality.C src/geom/elem_refinement.C src/geom/elem_type.C src/geom/face.C src/geom/face_inf_quad4.C src/geom/face_inf_quad6.C src/geom/face_inf_quad.C src/geom/face_quad4.C src/geom/fa! ce_quad8.C src/geom/face_quad9.C src/geom/face_quad.C src/geo! m/face_tri3.C src/geom/face_tri6.C src/geom/face_tri.C src/geom/plane.C src/geom/point.C src/geom/sphere.C src/geom/surface.C src/mesh/boundary_info.C src/mesh/boundary_mesh.C src/mesh/mesh_base.C src/mesh/mesh_base_modification.C src/mesh/mesh.C src/mesh/mesh_communication.C src/mesh/mesh_data.C src/mesh/mesh_data_unv_support.C src/mesh/mesh_data_xdr_support.C src/mesh/mesh_diva_support.C src/mesh/mesh_exodus_support.C src/mesh/mesh_generation.C src/mesh/mesh_gmv_support.C src/mesh/mesh_misc_support.C src/mesh/mesh_modification.C src/mesh/mesh_refinement.C src/mesh/mesh_refinement_flagging.C src/mesh/mesh_refinement_smoothing.C src/mesh/mesh_smoother.C src/mesh/mesh_smoother_laplace.C src/mesh/mesh_tecplot_support.C src/mesh/mesh_ucd_support.C src/mesh/mesh_unv_support.C src/mesh/mesh_xdr_support.C src/numerics/analytic_function.C src/numerics/coupling_matrix.C src/numerics/dense_matrix_base.C src/numerics/dense_matrix.C src/numerics/dense_submatrix.C src/numerics/dense_sub! vector.C src/numerics/dense_vector_base.C src/numerics/dense_vector.C src/numerics/distributed_vector.C src/numerics/error_estimator.C src/numerics/function_base.C src/numerics/laspack_interface.C src/numerics/laspack_matrix.C src/numerics/laspack_vector.C src/numerics/linear_solver_interface.C src/numerics/mesh_function.C src/numerics/numeric_vector.C src/numerics/petsc_interface.C src/numerics/petsc_matrix.C src/numerics/petsc_vector.C src/numerics/sparse_matrix.C src/numerics/type_vector.C src/partitioning/centroid_partitioner.C src/partitioning/linear_partitioner.C src/partitioning/metis_partitioner.C src/partitioning/parmetis_partitioner.C src/partitioning/partitioner.C src/partitioning/sfc_partitioner.C src/quadrature/quadrature_build.C src/quadrature/quadrature.C src/quadrature/quadrature_gauss_1D.C src/quadrature/quadrature_gauss_2D.C src/quadrature/quadrature_gauss_3D.C src/quadrature/quadrature_gauss.C src/quadrature/quadrature_jacobi_1D.C src/quadrat |
