[SciPy-user] CVS build + Livedocs

[Nikolai Hlubek]

Hi everyone,

I'm a bit lost when trying to use the livedocs with the latest cvs  
build.


1.) The building process seems to ignore my atlas packages and uses  
only
lapack. This is the error I get:

/scratch/hlubek/cvs/scipy/scipy_core/scipy_distutils/ 
system_info.py:653:
UserWarning:
*********************************************************************
   Could not find lapack library within the ATLAS installation.
*********************************************************************

 warnings.warn(message)
/scratch/hlubek/cvs/scipy/scipy_core/scipy_distutils/ 
system_info.py:865:
FutureWarning: hex()/oct() of negative int will return a signed string  
in
Python 2.4 and up
 magic = hex(hash(`config`))



I'm using debian sarge with the atlas2-sse2 packages but atlas3-sse2
is also installed due to some python-2.3 dependencies.
The output of system_info.py can be found below.


2.) When using the livedocs I don't get all of the help files.

I.e. scipy.xplt.histogram is displaying an empty help string in the  
livedocs,
although running
>> ??scipy.xplt.histogram
from ipython clearly shows that it is available.
scipy.xplt.legend isn't even available in the livedocs, as are
many other methods and all of the source files.


Could these two issues be related? Or has anyone another idea what I am  
doing wrong?


Thanks for your help,
Nikolai



_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/lib/atlas,/usr/lib/sse2 )
( paths: /usr/lib/sse2/libf77blas.so )
( paths: /usr/lib/sse2/libcblas.so )
( paths: /usr/lib/sse2/libatlas.so )
( include_dirs = /usr/local/include:/usr/include )
( paths: /usr/include/atlas_misc.h,/usr/include/atlas_enum.h,/usr/ 
include/atlas_aux.h,/usr/include/atlas_type.h
)
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/lib/atlas,/usr/lib/sse2 )
  FOUND:
    libraries = ['f77blas', 'cblas', 'atlas']
    library_dirs = ['/usr/lib/sse2']
    language = c

atlas_blas_threads_info:
Setting PTATLAS=ATLAS
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/lib/atlas,/usr/lib/sse2 )
( paths: /usr/lib/sse2/libatlas.so )
( paths: /usr/lib/sse2/libatlas.a )
  NOT AVAILABLE

atlas_info:
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/lib/atlas,/usr/lib/sse2 )
( paths: /usr/lib/sse2/libf77blas.so )
( paths: /usr/lib/sse2/libcblas.so )
( paths: /usr/lib/sse2/libatlas.so )
( paths: /usr/lib/sse2/liblapack_atlas.so )
system_info.atlas_info
( include_dirs = /usr/local/include:/usr/include )
( paths: /usr/include/atlas_misc.h,/usr/include/atlas_enum.h,/usr/ 
include/atlas_aux.h,/usr/include/atlas_type.h
)
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/lib/atlas,/usr/lib/sse2 )
  FOUND:
    libraries = ['f77blas', 'cblas', 'atlas']
    library_dirs = ['/usr/lib/sse2']
    language = c
    define_macros = [('ATLAS_WITHOUT_LAPACK', None)]

atlas_threads_info:
Setting PTATLAS=ATLAS
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/lib/atlas,/usr/lib/sse2 )
( paths: /usr/lib/sse2/libatlas.so )
( paths: /usr/lib/sse2/libatlas.a )
( paths: /usr/lib/sse2/liblapack_atlas.so )
system_info.atlas_threads_info
  NOT AVAILABLE

blas_info:
( library_dirs = /usr/local/lib:/usr/lib )
  NOT AVAILABLE

blas_opt_info:
running build_src
building extension "atlas_version" sources
creating build
creating build/src
  adding 'build/src/atlas_version_0xaa8955e5.c' to sources.
running build_ext
customize UnixCCompiler
customize UnixCCompiler using build_ext
building 'atlas_version' extension
compiling C sources
gcc options: '-pthread -fno-strict-aliasing -DNDEBUG -g -O3 -Wall
-Wstrict-prototypes -fPIC'
creating build/temp.linux-i686-2.3
creating build/temp.linux-i686-2.3/build
creating build/temp.linux-i686-2.3/build/src
compile options: '-I/usr/include/python2.3 -c'
gcc: build/src/atlas_version_0xaa8955e5.c
gcc -pthread -shared build/temp.linux-i686-2.3/build/src/ 
atlas_version_0xaa8955e5.o
-L/usr/lib/sse2 -lf77blas -lcblas -latlas -o
build/temp.linux-i686-2.3/atlas_version.so
Command: /usr/bin/python -c "import imp;imp.load_dynamic 
(\"atlas_version\",\"atlas_version.so\")"
Status: 1
Output: Traceback (most recent call last):
  File "<string>", line 1, in ?
ImportError: /usr/lib/sse2/libf77blas.so.2: undefined symbol: e_wsfe
( library_dirs = /usr/local/lib:/usr/lib )
  FOUND:
    libraries = ['f77blas', 'cblas', 'atlas']
    library_dirs = ['/usr/lib/sse2']
    language = c
    define_macros = [('NO_ATLAS_INFO', 2)]

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 )
  NOT AVAILABLE

dfftw_threads_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
  NOT AVAILABLE

djbfft_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
  NOT AVAILABLE

fftw_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
( paths: /usr/lib/librfftw.so )
( paths: /usr/lib/libfftw.so )
( paths: /usr/include/fftw.h,/usr/include/rfftw.h )
( library_dirs = /usr/local/lib:/usr/lib )
  FOUND:
    libraries = ['rfftw', 'fftw']
    library_dirs = ['/usr/lib']
    define_macros = [('SCIPY_FFTW_H', None)]
    include_dirs = ['/usr/include']

fftw_threads_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
( paths: /usr/lib/librfftw_threads.so )
( paths: /usr/lib/libfftw_threads.so )
( paths: /usr/include/fftw_threads.h,/usr/include/rfftw_threads.h )
( library_dirs = /usr/local/lib:/usr/lib )
  FOUND:
    libraries = ['rfftw_threads', 'fftw_threads']
    library_dirs = ['/usr/lib']
    define_macros = [('SCIPY_FFTW_THREADS_H', None)]
    include_dirs = ['/usr/include']

freetype2_info:
  NOT AVAILABLE

gdk_2_info:
  NOT AVAILABLE

gdk_info:
  NOT AVAILABLE

gdk_pixbuf_2_info:
  NOT AVAILABLE

gdk_pixbuf_xlib_2_info:
  NOT AVAILABLE

gdk_x11_2_info:
  NOT AVAILABLE

gtkp_2_info:
  NOT AVAILABLE

gtkp_x11_2_info:
  NOT AVAILABLE

lapack_atlas_info:
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/lib/atlas,/usr/lib/sse2 )
( paths: /usr/lib/sse2/liblapack_atlas.so )
( paths: /usr/lib/sse2/libf77blas.so )
( paths: /usr/lib/sse2/libcblas.so )
( paths: /usr/lib/sse2/libatlas.so )
( paths: /usr/lib/sse2/liblapack_atlas.so )
system_info.lapack_atlas_info
( include_dirs = /usr/local/include:/usr/include )
( paths: /usr/include/atlas_misc.h,/usr/include/atlas_enum.h,/usr/ 
include/atlas_aux.h,/usr/include/atlas_type.h
)
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/lib/atlas,/usr/lib/sse2 )
  FOUND:
    libraries = ['lapack_atlas', 'f77blas', 'cblas', 'atlas']
    library_dirs = ['/usr/lib/sse2']
    language = c
    define_macros = [('ATLAS_WITH_LAPACK_ATLAS', None)]

lapack_atlas_threads_info:
Setting PTATLAS=ATLAS
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/lib/atlas,/usr/lib/sse2 )
( paths: /usr/lib/sse2/liblapack_atlas.so )
( paths: /usr/lib/sse2/libatlas.so )
( paths: /usr/lib/sse2/liblapack_atlas.a )
( paths: /usr/lib/sse2/libatlas.a )
( paths: /usr/lib/sse2/liblapack_atlas.so )
system_info.lapack_atlas_threads_info
  NOT AVAILABLE

lapack_info:
( library_dirs = /usr/local/lib:/usr/lib )
( paths: /usr/lib/liblapack.a )
( library_dirs = /usr/local/lib:/usr/lib )
  FOUND:
    libraries = ['lapack']
    library_dirs = ['/usr/lib']
    language = f77

lapack_opt_info:
running build_src
building extension "atlas_version" sources
  adding 'build/src/atlas_version_0x31b82f3b.c' to sources.
running build_ext
customize UnixCCompiler
customize UnixCCompiler using build_ext
Command: /usr/bin/python -c "import imp;imp.load_dynamic 
(\"atlas_version\",\"atlas_version.so\")"
Status: 1
Output: Traceback (most recent call last):
  File "<string>", line 1, in ?
ImportError: /usr/lib/sse2/libf77blas.so.2: undefined symbol: e_wsfe
( library_dirs = /usr/local/lib:/usr/lib )
  FOUND:
    libraries = ['f77blas', 'cblas', 'atlas', 'lapack']
    library_dirs = ['/usr/lib/sse2', '/usr/lib']
    define_macros = [('ATLAS_WITHOUT_LAPACK', None), ('NO_ATLAS_INFO',  
2)]
    language = f77

lapack_src_info:
( src_dirs = .:/usr/local/src )
  NOT AVAILABLE

numarray_info:
( include_dirs = /usr/include/python2.3 )
( paths: /usr/include/python2.3/numarray/arrayobject.h )
( library_dirs =  )
  FOUND:
    define_macros = [('NUMARRAY_VERSION', '"\\"1.1.1\\""')]
    include_dirs = ['/usr/include/python2.3']

numpy_info:
( include_dirs = /usr/include/python2.3 )
( paths: /usr/include/python2.3/Numeric/arrayobject.h )
( library_dirs =  )
  FOUND:
    define_macros = [('NUMERIC_VERSION', '"\\"23.7\\""')]
    include_dirs = ['/usr/include/python2.3']

sfftw_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
  NOT AVAILABLE

sfftw_threads_info:
( library_dirs = /usr/local/lib:/usr/lib )
( include_dirs = /usr/local/include:/usr/include )
  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:
  NOT AVAILABLE