[Swig-user] problems with swig/distutils/numpy

[cthulhum <dav...@bu...>]

I'm currently trying to wrap a small C++ library with SWIG (though I only
need to access methods from one class), with the goal of accessing one class
and a few of its methods from python+numpy.  My Extension setup looks like
this :

os.environ['CC'] = 'g++'
_librf = Extension("_librf",
                   sources = ["src/librf.i", 
                    "src/librf/librf/random_forest.cc",
                    "src/librf/librf/tree.cc",
                    "src/librf/librf/tree_node.cc",
                    "src/librf/librf/weights.cc",
                    "src/librf/librf/instance_set.cc",
                    "src/librf/librf/discrete_dist.cc"],
                    swig_opts=['-c++'], language='c++',
                    include_dirs = [numpy_include])

And my SWIG config file is:

%module librf
%{
 #define SWIG_FILE_WITH_INIT
 #include "librf/librf/random_forest.h"
 #include "librf/librf/tree.h"
 #include "librf/librf/tree_node.h"
 #include "librf/librf/weights.h"
 #include "librf/librf/instance_set.h"
 #include "librf/librf/discrete_dist.h"
%}

%feature("autodoc", "1");

%include "numpy.i"

%init 
%{
 import_array();
%}

%apply (float* IN_ARRAY2, int DIM1, int DIM2) {(const float *data, int atts,
int insts)};
%apply (int* IN_ARRAY1, int DIM1) {(const int *labels, int insts2)};

#include "librf/librf/random_forest.h"


For the moment I'm just trying to get a single mapping to work (my
constructor in random_forest.cc: RandomForest(const float *data, int atts,
int insts, const int *labels,int insts2, int num_trees, int K, int
min_size)), and can add more once I get the basics down.  I'm not at all
sure that I've set up my interface file correctly for what I want to do, but
I'm equally unsure if that is the source of the errors I'm actually getting. 
Right now, when I run the setup script I get a stream of "undefined
reference" errors once the script tries to build the .so:

g++ build/temp.linux-x86_64-2.6/src/librf_wrap.o
build/temp.linux-x86_64-2.6/src/librf/librf/random_forest.o
build/temp.linux-x86_64-2.6/src/librf/librf/tree.o
build/temp.linux-x86_64-2.6/src/librf/librf/tree_node.o
build/temp.linux-x86_64-2.6/src/librf/librf/weights.o
build/temp.linux-x86_64-2.6/src/librf/librf/instance_set.o
build/temp.linux-x86_64-2.6/src/librf/librf/discrete_dist.o -o
/home/davidjoh/workspace/ace_repo/acepy/_librf.so
build/temp.linux-x86_64-2.6/src/librf_wrap.o: In function
`SwigPyObject_richcompare':
/home/davidjoh/workspace/ace_repo/acepy/src/librf_wrap.cpp:1536: undefined
reference to `_Py_NotImplementedStruct'
/home/davidjoh/workspace/ace_repo/acepy/src/librf_wrap.cpp:1540: undefined
reference to `_Py_TrueStruct'
/home/davidjoh/workspace/ace_repo/acepy/src/librf_wrap.cpp:1540: undefined
reference to `_Py_ZeroStruct'
build/temp.linux-x86_64-2.6/src/librf_wrap.o: In function `SWIG_Py_Void':
/home/davidjoh/workspace/ace_repo/acepy/src/librf_wrap.cpp:1326: undefined
reference to `_Py_NoneStruct'
/home/davidjoh/workspace/ace_repo/acepy/src/librf_wrap.cpp:1326: undefined
reference to `_Py_NoneStruct'
/home/davidjoh/workspace/ace_repo/acepy/src/librf_wrap.cpp:1326: undefined
reference to `_Py_NoneStruct'
build/temp.linux-x86_64-2.6/src/librf_wrap.o: In function
`_PySwigObject_type':
/home/davidjoh/workspace/ace_repo/acepy/src/librf_wrap.cpp:1847: undefined
reference to `PyObject_GenericGetAttr'
/home/davidjoh/workspace/ace_repo/acepy/src/librf_wrap.cpp:1850: undefined
reference to `PyType_Type'

And so on.

Any thoughts?  Even lacking an explanation of the distutils failure, some
hints as to whether I'm setting up my interface correctly would be handy.
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