Hi, The answer would be to replace labs by the correct C++ function abs() (as for floating point numbers). Matthieu 2008/11/17 Kristian Hans Sandberg <Kristian.Sandberg@colorado.edu>:
That's exactly the problem I wrote about a couple of days ago (with topic "weave/blitz problem"). It's listed as Ticket # 739 in the scipy trac system:
http://www.scipy.org/scipy/scipy/ticket/739
This seems to happen with g++ version 4.3. As a temporary fix, I installed g++ version 4.2, and then it worked.
I believe this problem will be more common as more people update to newer compilers.
Kristian
Kristian Sandberg, Ph.D.
Dept. of Applied Mathematics and The Boulder Laboratory for 3-D Electron Microscopy of Cells University of Colorado at Boulder Campus Box 526 Boulder, CO 80309-0526, USA
Phone: (303) 492 0593 (work) (303) 499 4404 (home) (303) 547 6290 (cell)
Home page: http://amath.colorado.edu/faculty/sandberg
---- Original message ----
Date: Mon, 17 Nov 2008 11:18:30 -0500 From: "Bobby H. Braswell" <rob.braswell@unh.edu> Subject: Re: [SciPy-user] weave problem on ubuntu 8.10 To: SciPy Users List <scipy-user@scipy.org>
Hi, thanks for the reply. Here are the first lines:
<weave: compiling> In file included from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/applics.h:400, from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/vecexpr.h:32, 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:293, from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/vector.h:449, from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/tinyvec.h:430, from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array-impl.h:44, from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array.h:32, from /home/braswell/.python25_compiled/sc_f935818f52299953943b3b48fe3685483.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:29, from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array/newet.h:29, from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array/et.h:27, from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array-impl.h:2515, from /usr/lib/python2.5/site-packages/scipy/weave/blitz/blitz/array.h:32, from /home/braswell/.python25_compiled/sc_f935818f52299953943b3b48fe3685483.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:509: error: call of overloaded `abs(int&)' is ambiguous /usr/include/c++/4.3/cmath:99: note: candidates are: double std::abs(double) /usr/include/c++/4.3/cmath:103: note: float std::abs(float) /usr/include/c++/4.3/cmath:107: 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:530: error: `labs' is not a member of `std' /home/braswell/.python25_compiled/sc_f935818f52299953943b3b48fe3685483.cpp: In function `char* find_type(PyObject*)': /home/braswell/.python25_compiled/sc_f935818f52299953943b3b48fe3685483.cpp:35: warning: deprecated conversion from string constant to `char*' ...
On Mon, 2008-11-17 at 17:08 +0100, So/ren Nielsen wrote:
Hi Rob,
What are the first lines of your error message?
I found the answer to my own question... I just had to add type_converters = converters.blitz under the ext_function.
On Mon, Nov 17, 2008 at 4:18 PM, Bobby H. Braswell <rob.braswell@unh.edu> wrote:
Hi-
By coincidence I am trying to get weave working on a new system, I had previously been using it successfully under OS X with the Fink version of SciPy. I don't want to distract from Soren's question but when I try his simple example (or any of my own) using converters.blitz, I get a very long error message, actually mostly warnings, but it ends like this:
>>> ravg = weave.inline(code, ['xlen', 'ylen', 'test'], type_converters=converters.blitz, compiler = 'gcc') ...hundreds of lines... Traceback (most recent call last): File "<stdin>", line 2, in <module> File "/usr/lib/python2.5/site-packages/scipy/weave/inline_tools.py", line 339, in inline **kw) File "/usr/lib/python2.5/site-packages/scipy/weave/inline_tools.py", line 447, 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 269, 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/braswell/.python25_compiled/sc_f8b4f30889557b51310ac43eda9472b30.cpp -o /tmp/braswell/python25_intermediate/compiler_a9bbef2f14d61f7aa8f0ba6e068e18c2/home/braswell/.python25_compiled/sc_f8b4f30889557b51310ac43eda9472b30.o" failed with exit status 1
Sorry if this is more of a compiler/Ubuntu problem, I'm not sure about that. I'd be grateful to hear from someone who has had or not had problems with Weave on Ubuntu 8.10.
Thanks very much, Rob
On Mon, 2008-11-17 at 15:40 +0100, So/ren Nielsen wrote:
Can anyone explain why this fails? This piece of code runs perfectly using weave.inline and type_converters = blitz..
Obviously it can't handle 2D arrays anymore. It's just a stupid example to illustrate that.
Thanks, Soren
CODE : ------------------------------------------------------------------------------------------------ mod = ext_tools.ext_module('ravg_ext')
test = zeros((5,5)) xlen = 5 ylen = 5
code = """ int x, y;
for( x = 0; x < xlen; x++) { for( y = 0; y < ylen; y++) { test(x,y) = 2; } }
"""
ravg = ext_tools.ext_function('ravg', code, ['xlen', 'ylen', 'test']) mod.add_function(ravg) mod.compile(compiler = 'gcc')
RESULT: ------------------------------------------------------------------------------------------------ C:\Temp\ravg_ext.cpp: In function `PyObject* ravg(PyObject*, PyObject*, PyObject*)': C:\Temp\ravg_ext.cpp:654: error: `test' cannot be used as a function C:\Temp\ravg_ext.cpp:641: warning: unused variable 'Ntest' C:\Temp\ravg_ext.cpp:642: warning: unused variable 'Stest' C:\Temp\ravg_ext.cpp:643: warning: unused variable 'Dtest'
Traceback (most recent call last): File "C:\Temp\ravg_extension.py", line 132, in ? build_ravg_extension() File "C:\Temp\ravg_extension.py", line 125, in build_ravg_extension mod.compile(compiler = 'gcc') File "C:\Python24\Lib\site-packages\scipy\weave\ext_tools.py", line 365, in compile verbose = verbose, **kw) File "C:\Python24\Lib\site-packages\scipy\weave\build_tools.py", line 269, in build_extension setup(name = module_name, ext_modules = [ext],verbose=verb) File "C:\Python24\Lib\site-packages\numpy\distutils\core.py", line 184, in setup return old_setup(**new_attr) File "C:\Python24\Lib\distutils\core.py", line 166, in setup raise SystemExit, "error: " + str(msg) CompileError: error: Command "g++ -mno-cygwin -O2 -Wall -IC:\Python24\lib\site-packages\scipy\weave -IC:\Python24\lib\site-packages\scipy\weave\scxx -IC:\Python24\lib\site-packages\numpy\core\include -IC:\Python24\include -IC:\Python24\PC -c C:\Temp\ravg_ext.cpp -o c:\docume~1\ssn\locals~1\temp\ssn\python24_intermediate\compiler_894ad5ed761bb51736c6d2b7872dc212\Releas
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