Subject: Re: weave
compilation fails
Package: python-scipy
Version: 0.7.0-2+b1
Severity: normal
*** Please type your report below this line ***
This bug is fixed in the package "libblitz0-dev".
So my solution is use this package to replace blitz++ in python-scipy:
cunzh...@debian:~$ sudo apt-get install libblitz0-dev
cunzh...@debian:~$ sudo rm -r
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz
cunzh...@debian:~$ sudo ln -s /usr/include/blitz
/usr/lib/python2.5/site-packages/scipy/weave/blitz
Another way is to fix python-scipy source with the patch from
http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=455661,
and recompile it.
Then weave works well.
Dear Maintainers, I have a question there. Is
the blitz++ library in the "python-scipy" package same as those
files in the package "libblitz0-dev"?
If so, why not doing a depend to libblitz0-dev for python-scipy ?
Thank you!
Cun Zhang
====Error message====
In file included from
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/applics.h:394,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/vecexpr.h:26,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/vecpick.cc:16,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/vecpick.h:287,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/vector.h:443,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/tinyvec.h:424,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array-impl.h:38,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array.h:26,
from /home/cunzhang/.python25_compiled/sc_9fa2bd3407c2f075f1c56212f3e784ad0.cpp:11:
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/mathfunc.h: In
static member function ‘static long int blitz::_bz_abs<long
int>::apply(long int)’:
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/mathfunc.h:45:
error: ‘labs’ is not a member of ‘std’
In file included from
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array/funcs.h:23,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array/newet.h:23,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array/et.h:21,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array-impl.h:2509,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array.h:26,
from /home/cunzhang/.python25_compiled/sc_9fa2bd3407c2f075f1c56212f3e784ad0.cpp:11:
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/funcs.h: In static
member function ‘static int blitz::Fn_abs<int>::apply(int)’:
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/funcs.h:503:
error: call of overloaded ‘abs(int&)’ is ambiguous
/usr/include/c++/4.4/cmath:94: note: candidates are: double
std::abs(double)
/usr/include/c++/4.4/cmath:98:
note: float std::abs(float)
/usr/include/c++/4.4/cmath:102:
note: long double std::abs(long double)
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/funcs.h: In static
member function ‘static long int blitz::Fn_abs<long int>::apply(long
int)’:
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/funcs.h:524:
error: ‘labs’ is not a member of ‘std’
In file included from
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/applics.h:394,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/vecexpr.h:26,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/vecpick.cc:16,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/vecpick.h:287,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/vector.h:443,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/tinyvec.h:424,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array-impl.h:38,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array.h:26,
from /home/cunzhang/.python25_compiled/sc_9fa2bd3407c2f075f1c56212f3e784ad0.cpp:11:
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/mathfunc.h: In
static member function ‘static long int blitz::_bz_abs<long
int>::apply(long int)’:
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/mathfunc.h:45:
error: ‘labs’ is not a member of ‘std’
In file included from
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array/funcs.h:23,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array/newet.h:23,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array/et.h:21,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array-impl.h:2509,
from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array.h:26,
from /home/cunzhang/.python25_compiled/sc_9fa2bd3407c2f075f1c56212f3e784ad0.cpp:11:
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/funcs.h: In static
member function ‘static int blitz::Fn_abs<int>::apply(int)’:
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/funcs.h:503:
error: call of overloaded ‘abs(int&)’ is ambiguous
/usr/include/c++/4.4/cmath:94: note: candidates are: double
std::abs(double)
/usr/include/c++/4.4/cmath:98:
note: float std::abs(float)
/usr/include/c++/4.4/cmath:102:
note: long double std::abs(long double)
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/funcs.h: In static
member function ‘static long int blitz::Fn_abs<long int>::apply(long
int)’:
/usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/funcs.h:524:
error: ‘labs’ is not a member of ‘std’
Traceback (most recent call last):
File "wtest.py", line 13, in <module>
weave.inline(code,['a'],type_converters=weave.converters.blitz)
File "/usr/lib/python2.5/site-packages/scipy/weave/inline_tools.py",
line 335, in inline
**kw)
File "/usr/lib/python2.5/site-packages/scipy/weave/inline_tools.py",
line 462, in compile_function
verbose=verbose, **kw)
File "/usr/lib/python2.5/site-packages/scipy/weave/ext_tools.py",
line 365, in compile
verbose = verbose, **kw)
File "/usr/lib/python2.5/site-packages/scipy/weave/build_tools.py",
line 272, in build_extension
setup(name = module_name, ext_modules =
[ext],verbose=verb)
File "/usr/lib/python2.5/site-packages/numpy/distutils/core.py",
line 184, in setup
return old_setup(**new_attr)
File "/usr/lib/python2.5/distutils/core.py", line 168, in setup
raise SystemExit, "error: " + str(msg)
scipy.weave.build_tools.CompileError: error: Command "g++ -pthread
-fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -fPIC
-I/usr/lib/python2.5/site-packages/scipy/weave
-I/usr/lib/python2.5/site-packages/scipy/weave/scxx
-I/usr/lib/python2.5/site-packages/scipy/weave/blitz
-I/usr/lib/python2.5/site-packages/numpy/core/include
-I/usr/include/python2.5 -c
/home/cunzhang/.python25_compiled/sc_9fa2bd3407c2f075f1c56212f3e784ad0.cpp
-o
/tmp/cunzhang/python25_intermediate/compiler_5d6a6990cef58488c417b53617f48c12/home/cunzhang/.python25_compiled/sc_9fa2bd3407c2f075f1c56212f3e784ad0.o" failed with exit status 1
========
Test
script:
#/usr/bin/python
from scipy import weave
from scipy import *
a=zeros((3,3))
code=r"""
int i,j;
for(i=0;i<3;i++){
for(j=0;j<3;j++){
a(i,j)=i+j;
}
}
"""
weave.inline(code,['a'],type_converters=weave.converters.blitz)
print a
========
-- System Information:
Debian Release: squeeze/sid
APT prefers unstable
APT policy: (500, 'unstable'), (500, 'testing'), (1,
'experimental')
Architecture: amd64 (x86_64)
Kernel: Linux 2.6.30-2-amd64 (SMP w/4 CPU cores)
Locale: LANG=zh_CN.UTF-8, LC_CTYPE=zh_CN.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Versions of packages python-scipy depends on:
ii
libamd2.2.0 1:3.4.0-1 approximate minimum degree orderin
ii libatlas3gf-base [liblapack 3.6.0-24
Automatically Tuned Linear Algebra
ii libblas3gf [libblas.so.3gf]
1.2-4 Basic Linear Algebra
Subroutines 3
ii
libc6 2.10.2-6 Embedded GNU C Library: Shared lib
ii
libgcc1 1:4.4.3-3 GCC support library
ii
libgfortran3 4.4.3-3 Runtime library for GNU Fortran ap
ii liblapack3gf [liblapack.so. 3.2.1-2
library of linear algebra routines
ii
libstdc++6 4.4.3-3 The GNU Standard C++ Library v3
ii
libumfpack5.4.0 1:3.4.0-1 sparse LU factorization library
ii
python 2.5.4-9 An interactive high-level object-o
ii
python-central 0.6.14+nmu2 register and build utility for Pyt
ii
python-numpy 1:1.3.0-3+b1 Numerical Python adds a fast array
Versions of packages python-scipy recommends:
ii g++
[c++-compiler] 4:4.4.3-1 The GNU C++ compiler
ii g++-4.3 [c++-compiler]
4.3.4-8 The GNU C++ compiler
ii g++-4.4 [c++-compiler]
4.4.3-3 The GNU C++ compiler
Versions of packages python-scipy suggests:
pn
python-profiler <none> (no description available)
-- no debconf information
