[SciPy-user] scipy install fails: numpy.ndarray
James K. Gruetzner
jkgruet at sandia.gov
Tue Feb 14 16:03:52 EST 2006
Any ideas how to correct this? I've just installed scipy 0.4.4, and am
having some problems with it. The key appears to be in the references
to numpy.ndarray.
When running scipy.test(level=0), numerous errors of:
AttributeError: 'numpy.ndarray' object has no attribute 'dtypechar'
Installation of scipy 0.4.4 does have many warnings, but appears to
complete OK.
- Many warnings that variables "might be used uninitialized" in
various functions.
- Many warnings that "ignoring return value of 'fscanf'"
- Several warnings that "POSIX_C_SOURCE" redefined.
- Many "unused variable" warnings
Information follows below.
Thanks in advance.
James
----------------------------
system/platform: posix linux2
Fedora Core 4
python 2.4.1
numpy 0.9.4
LAPACK
ATLAS 3.7.11 NOTE 1
gcc 4.0.2
fftw 3.0.1
1. Installed in the local tree. In ../scipy/Lib/linalg, the command
python setup_atlas_version.py build_ext --inplace --force
fails with the error message:
/usr/lib/python2.4/site-packages/numpy/distutils/misc_util.py:896:
UserWarning: Use Configuration('linalg','',top_path=None) instead of
deprecated default_config_dict('linalg','',None)
warnings.warn('Use Configuration(%s,%s,top_path=%s) instead of '\
Traceback (most recent call last):
File "setup_atlas_version.py", line 29, in ?
setup(**configuration())
File "setup_atlas_version.py", line 13, in configuration
del config['fortran_libraries']
KeyError: 'fortran_libraries'
-----------------
Output of python INSTALLDIR/numpy/distutils/system_info.py command:
_pkg_config_info:
NOT AVAILABLE
agg2_info:
( src_dirs = .:/usr/local/src )
NOT AVAILABLE
atlas_blas_info:
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/local/lib/atlas )
( paths: /usr/lib/sse2 )
( paths: /usr/local/lib/atlas/libf77blas.a )
( paths: /usr/local/lib/atlas/libcblas.a )
( paths: /usr/local/lib/atlas/libatlas.a )
( include_dirs = /usr/local/include:/usr/include )
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/local/lib/atlas )
( paths: /usr/lib/sse2 )
FOUND:
libraries = ['f77blas', 'cblas', 'atlas']
library_dirs = ['/usr/local/lib/atlas']
language = c
atlas_blas_threads_info:
Setting PTATLAS=ATLAS
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/local/lib/atlas )
( paths: /usr/lib/sse2 )
( paths: /usr/local/lib/atlas/libatlas.a )
NOT AVAILABLE
atlas_info:
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/local/lib/atlas )
( paths: /usr/lib/sse2 )
( paths: /usr/local/lib/atlas/libf77blas.a )
( paths: /usr/local/lib/atlas/libcblas.a )
( paths: /usr/local/lib/atlas/libatlas.a )
( paths: /usr/local/lib/atlas/liblapack.a )
system_info.atlas_info
( include_dirs = /usr/local/include:/usr/include )
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/local/lib/atlas )
( paths: /usr/lib/sse2 )
FOUND:
libraries = ['lapack', 'f77blas', 'cblas', 'atlas']
library_dirs = ['/usr/local/lib/atlas']
language = f77
atlas_threads_info:
Setting PTATLAS=ATLAS
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/local/lib/atlas )
( paths: /usr/lib/sse2 )
( paths: /usr/local/lib/atlas/libatlas.a )
system_info.atlas_threads_info
NOT AVAILABLE
blas_info:
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/local/lib/libblas.a )
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['blas']
library_dirs = ['/usr/local/lib']
language = f77
blas_mkl_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
NOT AVAILABLE
blas_opt_info:
running build_src
building extension "atlas_version" sources
adding 'build/src/atlas_version_-0x32261224.c' to sources.
running build_ext
customize UnixCCompiler
customize UnixCCompiler using build_ext
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['f77blas', 'cblas', 'atlas']
library_dirs = ['/usr/local/lib/atlas']
language = c
define_macros = [('ATLAS_INFO', '"\\"3.7.11\\""')]
blas_src_info:
( src_dirs = .:/usr/local/src )
NOT AVAILABLE
boost_python_info:
( src_dirs = .:/usr/local/src )
NOT AVAILABLE
dfftw_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
dfftw not found
NOT AVAILABLE
dfftw_threads_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
dfftw threads not found
NOT AVAILABLE
djbfft_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
NOT AVAILABLE
fft_opt_info:
fftw3_info:
FOUND:
libraries = ['fftw3']
library_dirs = ['/usr/local/lib']
define_macros = [('SCIPY_FFTW3_H', None)]
include_dirs = ['/usr/local/include']
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['fftw3']
library_dirs = ['/usr/local/lib']
define_macros = [('SCIPY_FFTW3_H', None)]
include_dirs = ['/usr/local/include']
fftw2_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
fftw2 not found
NOT AVAILABLE
fftw_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
( paths: /usr/local/lib/libfftw3.a )
( paths: /usr/local/include/fftw3.h )
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['fftw3']
library_dirs = ['/usr/local/lib']
define_macros = [('SCIPY_FFTW3_H', None)]
include_dirs = ['/usr/local/include']
fftw_threads_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
fftw threads not found
NOT AVAILABLE
freetype2_info:
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['freetype', 'z']
define_macros = [('FREETYPE2_INFO', '"\\"9.7.3\\""'),
('FREETYPE2_VERSION_9_7_3', None)]
include_dirs = ['/usr/include/freetype2']
gdk_2_info:
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['gdk-x11-2.0', 'gdk_pixbuf-2.0', 'm', 'pangoxft-1.0',
'pangox-1.0', 'pango-1.0', 'gobject-2.0', 'gmodule-2.0', 'dl', 'glib-2.0']
define_macros = [('GDK_2_INFO', '"\\"2.6.10\\""'),
('GDK_VERSION_2_6_10', None), ('XTHREADS', None), ('_REENTRANT', None),
('XUSE_MTSAFE_API', None)]
include_dirs = ['/usr/include/gtk-2.0', '/usr/lib/gtk-2.0/include',
'/usr/X11R6/include', '/usr/include/pango-1.0',
'/usr/include/freetype2', '/usr/include/freetype2/config',
'/usr/include/glib-2.0', '/usr/lib/glib-2.0/include']
gdk_info:
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['gdk', 'Xi', 'Xext', 'X11', 'm', 'glib']
library_dirs = ['/usr/X11R6/lib']
define_macros = [('GDK_INFO', '"\\"1.2.10\\""'),
('GDK_VERSION_1_2_10', None)]
include_dirs = ['/usr/include/gtk-1.2', '/usr/X11R6/include',
'/usr/include/glib-1.2', '/usr/lib/glib/include']
gdk_pixbuf_2_info:
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['gdk_pixbuf-2.0', 'm', 'gobject-2.0', 'gmodule-2.0',
'dl', 'glib-2.0']
define_macros = [('GDK_PIXBUF_2_INFO', '"\\"2.6.10\\""'),
('GDK_PIXBUF_VERSION_2_6_10', None)]
include_dirs = ['/usr/include/gtk-2.0', '/usr/include/glib-2.0',
'/usr/lib/glib-2.0/include']
gdk_pixbuf_xlib_2_info:
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['gdk_pixbuf_xlib-2.0', 'gdk_pixbuf-2.0', 'm',
'gobject-2.0', 'gmodule-2.0', 'dl', 'glib-2.0']
extra_link_args = ['-Wl,--export-dynamic']
define_macros = [('GDK_PIXBUF_XLIB_2_INFO', '"\\"2.6.10\\""'),
('GDK_PIXBUF_XLIB_VERSION_2_6_10', None)]
include_dirs = ['/usr/include/gtk-2.0', '/usr/include/glib-2.0',
'/usr/lib/glib-2.0/include']
gdk_x11_2_info:
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['gdk-x11-2.0', 'gdk_pixbuf-2.0', 'm', 'pangoxft-1.0',
'pangox-1.0', 'pango-1.0', 'gobject-2.0', 'gmodule-2.0', 'dl', 'glib-2.0']
define_macros = [('GDK_X11_2_INFO', '"\\"2.6.10\\""'),
('GDK_X11_VERSION_2_6_10', None), ('XTHREADS', None), ('_REENTRANT',
None), ('XUSE_MTSAFE_API', None)]
include_dirs = ['/usr/include/gtk-2.0', '/usr/lib/gtk-2.0/include',
'/usr/X11R6/include', '/usr/include/pango-1.0',
'/usr/include/freetype2', '/usr/include/freetype2/config',
'/usr/include/glib-2.0', '/usr/lib/glib-2.0/include']
gtkp_2_info:
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['gtk-x11-2.0', 'gdk-x11-2.0', 'atk-1.0',
'gdk_pixbuf-2.0', 'm', 'pangoxft-1.0', 'pangox-1.0', 'pango-1.0',
'gobject-2.0', 'gmodule-2.0', 'dl', 'glib-2.0']
define_macros = [('GTKP_2_INFO', '"\\"2.6.10\\""'),
('GTK_VERSION_2_6_10', None), ('XTHREADS', None), ('_REENTRANT', None),
('XUSE_MTSAFE_API', None)]
include_dirs = ['/usr/include/gtk-2.0', '/usr/lib/gtk-2.0/include',
'/usr/X11R6/include', '/usr/include/atk-1.0', '/usr/include/pango-1.0',
'/usr/include/freetype2', '/usr/include/freetype2/config',
'/usr/include/glib-2.0', '/usr/lib/glib-2.0/include']
gtkp_x11_2_info:
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['gtk-x11-2.0', 'gdk-x11-2.0', 'atk-1.0',
'gdk_pixbuf-2.0', 'm', 'pangoxft-1.0', 'pangox-1.0', 'pango-1.0',
'gobject-2.0', 'gmodule-2.0', 'dl', 'glib-2.0']
define_macros = [('GTKP_X11_2_INFO', '"\\"2.6.10\\""'),
('GTK_X11_VERSION_2_6_10', None), ('XTHREADS', None), ('_REENTRANT',
None), ('XUSE_MTSAFE_API', None)]
include_dirs = ['/usr/include/gtk-2.0', '/usr/lib/gtk-2.0/include',
'/usr/X11R6/include', '/usr/include/atk-1.0', '/usr/include/pango-1.0',
'/usr/include/freetype2', '/usr/include/freetype2/config',
'/usr/include/glib-2.0', '/usr/lib/glib-2.0/include']
lapack_atlas_info:
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/local/lib/atlas )
( paths: /usr/lib/sse2 )
( paths: /usr/local/lib/atlas/libf77blas.a )
( paths: /usr/local/lib/atlas/libcblas.a )
( paths: /usr/local/lib/atlas/libatlas.a )
system_info.lapack_atlas_info
NOT AVAILABLE
lapack_atlas_threads_info:
Setting PTATLAS=ATLAS
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/local/lib/atlas )
( paths: /usr/lib/sse2 )
( paths: /usr/local/lib/atlas/libatlas.a )
system_info.lapack_atlas_threads_info
NOT AVAILABLE
lapack_info:
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/local/lib/liblapack.a )
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['lapack']
library_dirs = ['/usr/local/lib']
language = f77
lapack_mkl_info:
mkl_info:
NOT AVAILABLE
NOT AVAILABLE
lapack_opt_info:
running build_src
building extension "atlas_version" sources
adding 'build/src/atlas_version_0x39ddef23.c' to sources.
running build_ext
customize UnixCCompiler
customize UnixCCompiler using build_ext
customize GnuFCompiler
customize GnuFCompiler
customize GnuFCompiler using build_ext
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['lapack', 'f77blas', 'cblas', 'atlas']
library_dirs = ['/usr/local/lib/atlas']
language = f77
define_macros = [('ATLAS_INFO', '"\\"3.7.11\\""')]
lapack_src_info:
( src_dirs = .:/usr/local/src )
( paths: /usr/local/src/LAPACK/SRC )
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
sources = ['/usr/local/src/LAPACK/SRC/sbdsdc.f',
'/usr/local/src/LAPAC ...
... /LAPACK/SRC/izmax1.f', '/usr/local/src/LAPACK/SRC/dzsum1.f']
language = f77
numarray_info:
( include_dirs = /usr/include/python2.4 )
( paths: /usr/include/python2.4/numarray/arrayobject.h )
( library_dirs = )
FOUND:
define_macros = [('NUMARRAY_VERSION', '"\\"1.5.1\\""'), ('NUMARRAY',
None)]
include_dirs = ['/usr/include/python2.4']
numpy_info:
( include_dirs = /usr/include/python2.4 )
( library_dirs = )
FOUND:
define_macros = [('NUMPY_VERSION', '"\\"0.9.4\\""'), ('NUMPY', None)]
sfftw_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
sfftw not found
NOT AVAILABLE
sfftw_threads_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
sfftw threads not found
NOT AVAILABLE
wx_info:
Could not locate executable wx-config
File not found: wx-config. Cannot determine wx info.
NOT AVAILABLE
x11_info:
( library_dirs = /usr/X11R6/lib:/usr/lib )
( include_dirs = /usr/X11R6/include:/usr/include )
( paths: /usr/X11R6/lib/libX11.so )
( paths: /usr/X11R6/include/X11/X.h )
( library_dirs = /usr/X11R6/lib:/usr/lib )
FOUND:
libraries = ['X11']
library_dirs = ['/usr/X11R6/lib']
include_dirs = ['/usr/X11R6/include']
xft_info:
( library_dirs = /usr/local/lib:/usr/lib )
FOUND:
libraries = ['Xft', 'X11', 'freetype', 'Xrender', 'fontconfig']
library_dirs = ['/usr/X11R6/lib']
define_macros = [('XFT_INFO', '"\\"2.1.2.2\\""'),
('XFT_VERSION_2_1_2_2', None)]
include_dirs = ['/usr/X11R6/include', '/usr/include/freetype2',
'/usr/include/freetype2/config']
More information about the SciPy-User
mailing list