Re: going cython

17 Oct 2011 · *- Mode: Python -*


      On Fri, 2011-10-14 at 17:02 +0200, Robert Cimrman wrote:
...
On 10/14/11 17:00, Robert Cimrman wrote:
...
It's done and merged to master at [1]. Testing welcome!
Sorry, at [2] :)
r.
[2] https://github.com/rc/sfepy
...
r.
Hi Robert,
I am getting two errors during build:
osman@osman-AV019AA-ABA-p6228p:~/rc-sfepy-eccc564$ python setup.py
build_ext --inplace
You have version 0.10 of package "IPython" but we need version >= 0.10.0
['sfepy', '/home/osman/rc-sfepy-eccc564/sfepy',
'/home/osman/rc-sfepy-eccc564',
'/usr/lib64/python2.6/dist-packages/wx-2.8-gtk2-unicode',
'/home/osman/rc-sfepy-eccc564',
'/home/osman/local/lib/python2.6/site-packages/scikits.umfpack-5.1.0-py2.6-linux-x86_64.egg', '/usr/local/lib/python2.6/dist-packages/scikits.umfpack-5.1.0-py2.6-linux-x86_64.egg', '/usr/local/lib/python2.6/dist-packages/FiPy-2.1.1-py2.6.egg', '/usr/local/lib/python2.6/dist-packages/PyQuante-1.6.4-py2.6-linux-x86_64.egg', '/usr/local/lib/python2.6/dist-packages/Theano-0.4.0-py2.6.egg', '/usr/local/lib/python2.6/dist-packages/mpmath-0.17-py2.6.egg', '/usr/local/lib/python2.6/dist-packages/Cheetah-2.4.4-py2.6-linux-x86_64.egg', '/usr/local/lib/python2.6/dist-packages/Markdown-2.0.3-py2.6.egg', '/usr/lib/pymodules/python2.6', '/home/osman/Downloads/xmds2.0', '/usr/local/lib/python2.6/dist-packages/distribute-0.6.19-py2.6.egg', '/usr/local/lib/python2.6/dist-packages/codepy-2011.1-py2.6.egg', '/home/osman/Work/FEniCS/lib/python2.6/site-packages', '/home/osman/local/lib/python2.6/site-packages', '/usr/local/lib/python2.6', '/home/osman/LMGC90v2/rev_2011/src/lmgc90-builds/LMGC90v2_dev/lib', '/home/osman/LMGC90v2/rev_2011/src/lmgc90-builds/LMGC90v2_dev/Pre', '/usr/lib/python2.6', '/usr/lib/python2.6/plat-linux2', '/usr/lib/python2.6/lib-tk', '/usr/lib/python2.6/lib-old', '/usr/lib/python2.6/lib-dynload', '/usr/local/lib/python2.6/dist-packages', '/usr/lib/python2.6/dist-packages', '/usr/lib/python2.6/dist-packages/PIL', '/usr/lib/python2.6/dist-packages/omniORB/COS', '/usr/lib/python2.6/dist-packages/openturns', '/usr/lib/python2.6/dist-packages/gst-0.10', '/usr/lib/python2.6/dist-packages/gtk-2.0', '/usr/lib/pymodules/python2.6/gtk-2.0', '/usr/lib/pymodules/python2.6/IPython/Extensions']
/usr/lib/python2.6/dist-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 = [,
,
,
,
,
,
,
]
libraries = [('sfepy_common',
{'extra_compiler_args': ['-g', '-O2'],
'extra_link_args': [],
'include_dirs': ['sfepy/fem/extmods', '/usr/include/python2.6'],
'macros': [('__SDIR__', '\'"sfepy/fem/extmods"\''),
('SFEPY_PLATFORM', 0)],
'sources': ['sfepy/fem/extmods/fmfield.c',
'sfepy/fem/extmods/geometry.c',
'sfepy/fem/extmods/geommech.c',
'sfepy/fem/extmods/common_python.c']}),
('sfepy_terms',
{'depends': ['sfepy/fem/extmods/fmfield.c',
'sfepy/fem/extmods/geometry.c',
'sfepy/fem/extmods/geommech.c',
'sfepy/fem/extmods/common_python.c'],
'extra_compiler_args': ['-g', '-O2'],
'extra_link_args': [],
'include_dirs': ['sfepy/terms/extmods',
'sfepy/fem/extmods',
'/usr/include/python2.6'],
'macros': [('__SDIR__', '\'"sfepy/terms/extmods"\''),
('SFEPY_PLATFORM', 0)],
'sources': ['sfepy/terms/extmods/termsLaplace.c',
'sfepy/terms/extmods/termsLinElasticity.c',
'sfepy/terms/extmods/termsSurface.c',
'sfepy/terms/extmods/termsBasic.c',
'sfepy/terms/extmods/termsAcoustic.c',
'sfepy/terms/extmods/termsBiot.c',
'sfepy/terms/extmods/termsHyperElasticity.c',
'sfepy/terms/extmods/termsElectric.c',
'sfepy/terms/extmods/termsPiezo.c',
'sfepy/terms/extmods/termsMass.c',
'sfepy/terms/extmods/formSDCC.c',
'sfepy/terms/extmods/termsNavierStokes.c',
'sfepy/terms/extmods/termsVolume.c',
'sfepy/terms/extmods/termsAdjointNavierStokes.c']})]
name = 'sfepy'
package_dir = {'sfepy': 'sfepy',
'sfepy.applications': 'sfepy/applications',
'sfepy.base': 'sfepy/base',
'sfepy.fem': 'sfepy/fem',
'sfepy.fem.extmods': 'sfepy/fem/extmods',
'sfepy.geom': 'sfepy/geom',
'sfepy.homogenization': 'sfepy/homogenization',
'sfepy.interactive': 'sfepy/interactive',
'sfepy.linalg': 'sfepy/linalg',
'sfepy.linalg.extmods': 'sfepy/linalg/extmods',
'sfepy.mechanics': 'sfepy/mechanics',
'sfepy.optimize': 'sfepy/optimize',
'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.fem',
'sfepy.fem.extmods',
'sfepy.geom',
'sfepy.homogenization',
'sfepy.interactive',
'sfepy.linalg',
'sfepy.linalg.extmods',
'sfepy.mechanics',
'sfepy.optimize',
'sfepy.physics',
'sfepy.physics.extmods',
'sfepy.postprocess',
'sfepy.solvers',
'sfepy.terms',
'sfepy.terms.extmods']
py_modules = [('sfepy', '__config__', )]
----->
running build_ext
running build_src
building py_modules sources
building library "sfepy_common" sources
building library "sfepy_terms" sources
building extension "sfepy.fem.extmods._fmfield" sources
cythonc:> sfepy/fem/extmods/_fmfield.c
Error converting Pyrex file to C:
...
cdef int32 ele_extractNodalValuesDBD(FMField *out, FMField *_in,
                                     int32 *conn)
cdef void array2fmfield4(FMField *out,
np.ndarray[float64, mode='c', ndim=4] arr)
^
/home/osman/rc-sfepy-eccc564/sfepy/fem/extmods/_fmfield.pxd:142:49:
Expected ']'
Error converting Pyrex file to C:
...
# -*- Mode: Python -*-
cimport cython
@cython.boundscheck(False)
cdef inline void array2fmfield4(FMField *out,
np.ndarray[float64, mode='c', ndim=4]
arr):
^
/home/osman/rc-sfepy-eccc564/sfepy/fem/extmods/_fmfield.pyx:6:56:
Expected ']'
error: 2 errors while compiling 'sfepy/fem/extmods/_fmfield.pyx' with
Cython
I have ubuntu 10.14  64 bit.
Regards,
Osman

Re: going cython

osman

Error converting Pyrex file to C:

cdef void array2fmfield4(FMField *out, np.ndarray[float64, mode='c', ndim=4] arr) ^

Error converting Pyrex file to C:

@cython.boundscheck(False) cdef inline void array2fmfield4(FMField *out, np.ndarray[float64, mode='c', ndim=4] arr): ^