Hello,
I am very new to this. I am trying to compile/install dolfin on fedora 19. I
have install all the dependencies that I'm aware of but cmake still fails. Can
anyone help? Thanks. The cmake log is below:
-- Could NOT find MPI_C (missing: MPI_C_LIBRARIES MPI_C_INCLUDE_PATH)
-- Could NOT find MPI_CXX (missing: MPI_CXX_LIBRARIES MPI_CXX_INCLUDE_PATH)
-- Could NOT find MPI_Fortran (missing: MPI_Fortran_LIBRARIES
MPI_Fortran_INCLUDE_PATH)
-- Boost version: 1.53.0
-- Found the following Boost libraries:
-- filesystem
-- program_options
-- system
-- thread
-- iostreams
-- timer
-- chrono
-- UFC version: 2.2.0+
-- Checking for package 'PETSc'
-- PETSC_DIR is PETSC_DIR-NOTFOUND
-- PETSC_ARCH is empty
-- Unable to find petscconf.h
-- PETSc could not be found. Be sure to set PETSC_DIR and PETSC_ARCH. (missing:
PETSC_LIBRARIES PETSC_DIR PETSC_INCLUDE_DIRS PETSC_TEST_RUNS PETSC_VERSION
PETSC_VERSION_OK) (Required is at least version "3.2")
-- Checking for package 'AMD'
-- Checking for package 'UMFPACK'
-- Checking for package 'AMD'
-- Checking for package 'CHOLMOD'
-- Checking for package 'AMD'
-- A library with BLAS API found.
-- Checking for package 'CHOLMOD'
-- Checking for package 'AMD'
-- A library with BLAS API found.
-- Could NOT find HDF5 (missing: HDF5_LIBRARIES HDF5_INCLUDE_DIRS)
-- PASTIX_LIBRARIES PASTIX_LIBRARY-NOTFOUND;/lib64/librt.so;/lib64/libm.so
-- A library with BLAS API found.
-- PaStiX could not be found. Be sure to set PASTIX_DIR. (missing:
PASTIX_INCLUDE_DIRS PASTIX_TEST_RUNS PASTIX_VERSION PASTIX_VERSION_OK)
-- Checking for Trilinos
-- Unable to find Trilinos (>= 11.0.0)
-- Trilinos could not be found
-- Checking for package 'CGAL'
-- Checking for package 'Sphinx'
-- Found VTK: /usr/lib64/vtk (found version "5.10")
--
-- The following optional packages were found:
-- -------------------------------------------
-- (OK) OPENMP
-- (OK) CGAL
-- (OK) ZLIB
-- (OK) PYTHON
-- (OK) SPHINX
-- (OK) VTK
-- (OK) QT
--
-- The following optional packages were not found:
-- -----------------------------------------------
-- (**) MPI
-- (**) PETSC
-- (**) PETSC4PY
-- (**) SLEPC
-- (**) TAO
-- (**) TRILINOS
-- (**) UMFPACK
-- (**) CHOLMOD
-- (**) PASTIX
-- (**) SCOTCH
-- (**) PARMETIS
-- (**) HDF5
--
--
-- Generating SWIG interface.
-- --------------------------
Traceback (most recent call last):
File
"/tmp/dolfin-install/fenics-project-dolfin-cf8154680e01/cmake/scripts/generate-swig-interface",
line 36, in <module>
from dolfin_utils.cppparser import *
File
"/tmp/dolfin-install/fenics-project-dolfin-cf8154680e01/site-packages/dolfin_utils/cppparser/__init__.py",
line 1, in <module>
from CppHeaderParser import CppHeader
File
"/tmp/dolfin-install/fenics-project-dolfin-cf8154680e01/site-packages/dolfin_utils/cppparser/CppHeaderParser.py",
line 51, in <module>
import ply.lex as lex
ImportError: No module named ply.lex
--
-- Generating form files in demo, test, bench and dolfin directories. May take
some time...
--
----------------------------------------------------------------------------------------
CMake Error at CMakeLists.txt:709 (message):
Generation of form files failed:
Traceback (most recent call last):
File "/usr/bin/ffc", line 197, in <module>
sys.exit(main(sys.argv[1:]))
File "/usr/bin/ffc", line 178, in main
compile_form(ufd.forms, ufd.object_names, prefix, parameters)
File "build/bdist.linux-x86_64/egg/ffc/compiler.py", line 171, in
compile_form
File "build/bdist.linux-x86_64/egg/ffc/wrappers.py", line 44, in
generate_wrapper_code
File "<string>", line 1, in <lambda>
File "build/bdist.linux-x86_64/egg/ufl/log.py", line 154, in error
Exception: Unable to generate new DOLFIN wrappers, missing module
dolfin_utils.wrappers.
Traceback (most recent call last):
File
"/tmp/dolfin-install/fenics-project-dolfin-cf8154680e01/cmake/scripts/generate-form-files",
line 63, in <module>
raise RuntimeError, "Unable to compile form: %s/%s" % (root, f)
RuntimeError: Unable to compile form: dolfin/ale/Poisson3D.ufl
-- Configuring incomplete, errors occurred!
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