MAINT: Remove doc/cython and doc/pyrex files.

Pyrex is obsolete and cython does a good job with Numpy these days.
These directories are not packages, so I don't think they need
deprecation.

Closes #4373.

18 files changed, 0 insertions, 1797 deletions

diff --git a/doc/cython/MANIFEST b/doc/cython/MANIFEST
deleted file mode 100644
index feb3ec22a..000000000
--- a/doc/cython/MANIFEST
+++ /dev/null
@@ -1,2 +0,0 @@
-numpyx.pyx
-setup.py
diff --git a/doc/cython/Makefile b/doc/cython/Makefile
deleted file mode 100644
index 7c9c72981..000000000
--- a/doc/cython/Makefile
+++ /dev/null
@@ -1,37 +0,0 @@
-# Simple makefile to quickly access handy build commands for Cython extension
-# code generation.  Note that the actual code to produce the extension lives in
-# the setup.py file, this Makefile is just meant as a command
-# convenience/reminder while doing development.
-
-help:
-	@echo "Numpy/Cython tasks.  Available tasks:"
-	@echo "ext  -> build the Cython extension module."
-	@echo "html -> create annotated HTML from the .pyx sources"
-	@echo "test -> run a simple test demo."
-	@echo "all  -> Call ext, html and finally test."
-
-all: ext html test
-
-ext: numpyx.so
-
-test:   ext
-	python run_test.py
-
-html: numpyx.pyx.html
-
-numpyx.so: numpyx.pyx numpyx.c
-	python setup.py build_ext --inplace
-
-numpyx.pyx.html: numpyx.pyx
-	cython -a numpyx.pyx
-	@echo "Annotated HTML of the C code generated in numpyx.html"
-
-# Phony targets for cleanup and similar uses
-
-.PHONY: clean
-clean:
-	rm -rf *~ *.so *.c *.o *.html build
-
-# Suffix rules
-%.c : %.pyx
-	cython $<
diff --git a/doc/cython/README.txt b/doc/cython/README.txt
deleted file mode 100644
index f527e358b..000000000
--- a/doc/cython/README.txt
+++ /dev/null
@@ -1,20 +0,0 @@
-==================
- NumPy and Cython
-==================
-
-This directory contains a small example of how to use NumPy and Cython
-together.  While much work is planned for the Summer of 2008 as part of the
-Google Summer of Code project to improve integration between the two, even
-today Cython can be used effectively to write optimized code that accesses
-NumPy arrays.
-
-The example provided is just a stub showing how to build an extension and
-access the array objects; improvements to this to show more sophisticated tasks
-are welcome.
-
-To run it locally, simply type::
-
-  make help
-
-which shows you the currently available targets (these are just handy
-shorthands for common commands).
diff --git a/doc/cython/c_numpy.pxd b/doc/cython/c_numpy.pxd
deleted file mode 100644
index e178b8e33..000000000
--- a/doc/cython/c_numpy.pxd
+++ /dev/null
@@ -1,137 +0,0 @@
-# :Author:    Travis Oliphant
-
-# API declaration section.  This basically exposes the NumPy C API to
-# Pyrex/Cython programs.
-
-cdef extern from "numpy/arrayobject.h":
-
-    cdef enum NPY_TYPES:
-        NPY_BOOL
-        NPY_BYTE
-        NPY_UBYTE
-        NPY_SHORT
-        NPY_USHORT 
-        NPY_INT
-        NPY_UINT 
-        NPY_LONG
-        NPY_ULONG
-        NPY_LONGLONG
-        NPY_ULONGLONG
-        NPY_FLOAT
-        NPY_DOUBLE 
-        NPY_LONGDOUBLE
-        NPY_CFLOAT
-        NPY_CDOUBLE
-        NPY_CLONGDOUBLE
-        NPY_OBJECT
-        NPY_STRING
-        NPY_UNICODE
-        NPY_VOID
-        NPY_NTYPES
-        NPY_NOTYPE
-
-    cdef enum requirements:
-        NPY_CONTIGUOUS
-        NPY_FORTRAN
-        NPY_OWNDATA
-        NPY_FORCECAST
-        NPY_ENSURECOPY
-        NPY_ENSUREARRAY
-        NPY_ELEMENTSTRIDES
-        NPY_ALIGNED
-        NPY_NOTSWAPPED
-        NPY_WRITEABLE
-        NPY_UPDATEIFCOPY
-        NPY_ARR_HAS_DESCR
-
-        NPY_BEHAVED
-        NPY_BEHAVED_NS
-        NPY_CARRAY
-        NPY_CARRAY_RO
-        NPY_FARRAY
-        NPY_FARRAY_RO
-        NPY_DEFAULT
-
-        NPY_IN_ARRAY
-        NPY_OUT_ARRAY
-        NPY_INOUT_ARRAY
-        NPY_IN_FARRAY
-        NPY_OUT_FARRAY
-        NPY_INOUT_FARRAY
-
-        NPY_UPDATE_ALL 
-
-    cdef enum defines:
-        NPY_MAXDIMS
-
-    ctypedef struct npy_cdouble:
-        double real
-        double imag
-
-    ctypedef struct npy_cfloat:
-        double real
-        double imag
-
-    ctypedef int npy_intp 
-
-    ctypedef extern class numpy.dtype [object PyArray_Descr]:
-        cdef int type_num, elsize, alignment
-        cdef char type, kind, byteorder
-        cdef int flags
-        cdef object fields, typeobj
-
-    ctypedef extern class numpy.ndarray [object PyArrayObject]:
-        cdef char *data
-        cdef int nd
-        cdef npy_intp *dimensions
-        cdef npy_intp *strides
-        cdef object base
-        cdef dtype descr
-        cdef int flags
-
-    ctypedef extern class numpy.flatiter [object PyArrayIterObject]:
-        cdef int  nd_m1
-        cdef npy_intp index, size
-        cdef ndarray ao
-        cdef char *dataptr
-        
-    ctypedef extern class numpy.broadcast [object PyArrayMultiIterObject]:
-        cdef int numiter
-        cdef npy_intp size, index
-        cdef int nd
-        cdef npy_intp *dimensions
-        cdef void **iters
-
-    object PyArray_ZEROS(int ndims, npy_intp* dims, NPY_TYPES type_num, int fortran)
-    object PyArray_EMPTY(int ndims, npy_intp* dims, NPY_TYPES type_num, int fortran)
-    dtype PyArray_DescrFromTypeNum(NPY_TYPES type_num)
-    object PyArray_SimpleNew(int ndims, npy_intp* dims, NPY_TYPES type_num)
-    int PyArray_Check(object obj)
-    object PyArray_ContiguousFromAny(object obj, NPY_TYPES type, 
-        int mindim, int maxdim)
-    object PyArray_ContiguousFromObject(object obj, NPY_TYPES type, 
-        int mindim, int maxdim)
-    npy_intp PyArray_SIZE(ndarray arr)
-    npy_intp PyArray_NBYTES(ndarray arr)
-    void *PyArray_DATA(ndarray arr)
-    object PyArray_FromAny(object obj, dtype newtype, int mindim, int maxdim,
-		    int requirements, object context)
-    object PyArray_FROMANY(object obj, NPY_TYPES type_num, int min,
-                           int max, int requirements)
-    object PyArray_NewFromDescr(object subtype, dtype newtype, int nd,
-                                npy_intp* dims, npy_intp* strides, void* data,
-                                int flags, object parent)
-
-    object PyArray_FROM_OTF(object obj, NPY_TYPES type, int flags)
-    object PyArray_EnsureArray(object)
-
-    object PyArray_MultiIterNew(int n, ...)
-
-    char *PyArray_MultiIter_DATA(broadcast multi, int i)
-    void PyArray_MultiIter_NEXTi(broadcast multi, int i) 
-    void PyArray_MultiIter_NEXT(broadcast multi)
-
-    object PyArray_IterNew(object arr)
-    void PyArray_ITER_NEXT(flatiter it)
-
-    void import_array()
diff --git a/doc/cython/c_python.pxd b/doc/cython/c_python.pxd
deleted file mode 100644
index 46d2fd1a7..000000000
--- a/doc/cython/c_python.pxd
+++ /dev/null
@@ -1,62 +0,0 @@
-# :Author:    Robert Kern
-# :Copyright: 2004, Enthought, Inc.
-# :License:   BSD Style
-
-
-cdef extern from "Python.h":
-    # Not part of the Python API, but we might as well define it here.
-    # Note that the exact type doesn't actually matter for Pyrex.
-    ctypedef int size_t
-
-    # Some type declarations we need
-    ctypedef int Py_intptr_t
-
-
-    # String API
-    char* PyString_AsString(object string)
-    char* PyString_AS_STRING(object string)
-    object PyString_FromString(char* c_string)
-    object PyString_FromStringAndSize(char* c_string, int length)
-    object PyString_InternFromString(char *v)
-
-    # Float API
-    object PyFloat_FromDouble(double v)
-    double PyFloat_AsDouble(object ob)
-    long PyInt_AsLong(object ob)
-
-
-    # Memory API
-    void* PyMem_Malloc(size_t n)
-    void* PyMem_Realloc(void* buf, size_t n)
-    void PyMem_Free(void* buf)
-
-    void Py_DECREF(object obj)
-    void Py_XDECREF(object obj)
-    void Py_INCREF(object obj)
-    void Py_XINCREF(object obj)
-
-    # CObject API
-    ctypedef void (*destructor1)(void* cobj)
-    ctypedef void (*destructor2)(void* cobj, void* desc)
-    int PyCObject_Check(object p)
-    object PyCObject_FromVoidPtr(void* cobj, destructor1 destr)
-    object PyCObject_FromVoidPtrAndDesc(void* cobj, void* desc, 
-        destructor2 destr)
-    void* PyCObject_AsVoidPtr(object self)
-    void* PyCObject_GetDesc(object self)
-    int PyCObject_SetVoidPtr(object self, void* cobj)  
-
-    # TypeCheck API
-    int PyFloat_Check(object obj)
-    int PyInt_Check(object obj)
-
-    # Error API
-    int PyErr_Occurred()
-    void PyErr_Clear()
-    int  PyErr_CheckSignals()
-
-cdef extern from "string.h":
-    void *memcpy(void *s1, void *s2, int n)
-
-cdef extern from "math.h":
-    double fabs(double x)
diff --git a/doc/cython/numpyx.pyx b/doc/cython/numpyx.pyx
deleted file mode 100644
index cbc786ef0..000000000
--- a/doc/cython/numpyx.pyx
+++ /dev/null
@@ -1,127 +0,0 @@
-# -*- Mode: Python -*-  Not really, but close enough
-"""Cython access to Numpy arrays - simple example.
-"""
-
-#############################################################################
-# Load C APIs declared in .pxd files via cimport
-# 
-# A 'cimport' is similar to a Python 'import' statement, but it provides access
-# to the C part of a library instead of its Python-visible API.  See the
-# Pyrex/Cython documentation for details.
-
-cimport c_python as py
-
-cimport c_numpy as cnp
-
-# NOTE: numpy MUST be initialized before any other code is executed.
-cnp.import_array()
-
-#############################################################################
-# Load Python modules via normal import statements
-
-import numpy as np
-
-#############################################################################
-# Regular code section begins
-
-# A 'def' function is visible in the Python-imported module
-def print_array_info(cnp.ndarray arr):
-    """Simple information printer about an array.
-
-    Code meant to illustrate Cython/NumPy integration only."""
-    
-    cdef int i
-
-    print '-='*10
-    # Note: the double cast here (void * first, then py.Py_intptr_t) is needed
-    # in Cython but not in Pyrex, since the casting behavior of cython is
-    # slightly different (and generally safer) than that of Pyrex.  In this
-    # case, we just want the memory address of the actual Array object, so we
-    # cast it to void before doing the py.Py_intptr_t cast:
-    print 'Printing array info for ndarray at 0x%0lx'% \
-          (<py.Py_intptr_t><void *>arr,)
-    print 'number of dimensions:',arr.nd
-    print 'address of strides: 0x%0lx'%(<py.Py_intptr_t>arr.strides,)
-    print 'strides:'
-    for i from 0<=i<arr.nd:
-        # print each stride
-        print '  stride %d:'%i,<py.Py_intptr_t>arr.strides[i]
-    print 'memory dump:'
-    print_elements( arr.data, arr.strides, arr.dimensions,
-                    arr.nd, sizeof(double), arr.dtype )
-    print '-='*10
-    print
-
-# A 'cdef' function is NOT visible to the python side, but it is accessible to
-# the rest of this Cython module
-cdef print_elements(char *data,
-                    py.Py_intptr_t* strides,
-                    py.Py_intptr_t* dimensions,
-                    int nd,
-                    int elsize,
-                    object dtype):
-    cdef py.Py_intptr_t i,j
-    cdef void* elptr
-
-    if dtype not in [np.dtype(np.object_),
-                     np.dtype(np.float64)]:
-        print '   print_elements() not (yet) implemented for dtype %s'%dtype.name
-        return
-
-    if nd ==0:
-        if dtype==np.dtype(np.object_):
-            elptr = (<void**>data)[0] #[0] dereferences pointer in Pyrex
-            print '  ',<object>elptr
-        elif dtype==np.dtype(np.float64):
-            print '  ',(<double*>data)[0]
-    elif nd == 1:
-        for i from 0<=i<dimensions[0]:
-            if dtype==np.dtype(np.object_):
-                elptr = (<void**>data)[0]
-                print '  ',<object>elptr
-            elif dtype==np.dtype(np.float64):
-                print '  ',(<double*>data)[0]
-            data = data + strides[0]
-    else:
-        for i from 0<=i<dimensions[0]:
-            print_elements(data, strides+1, dimensions+1, nd-1, elsize, dtype)
-            data = data + strides[0]
-
-def test_methods(cnp.ndarray arr):
-    """Test a few attribute accesses for an array.
-    
-    This illustrates how the pyrex-visible object is in practice a strange
-    hybrid of the C PyArrayObject struct and the python object.  Some
-    properties (like .nd) are visible here but not in python, while others
-    like flags behave very differently: in python flags appears as a separate,
-    object while here we see the raw int holding the bit pattern.
-
-    This makes sense when we think of how pyrex resolves arr.foo: if foo is
-    listed as a field in the ndarray struct description, it will be directly
-    accessed as a C variable without going through Python at all.  This is why
-    for arr.flags, we see the actual int which holds all the flags as bit
-    fields.  However, for any other attribute not listed in the struct, it
-    simply forwards the attribute lookup to python at runtime, just like python
-    would (which means that AttributeError can be raised for non-existent
-    attributes, for example)."""
-    
-    print 'arr.any() :',arr.any()
-    print 'arr.nd    :',arr.nd
-    print 'arr.flags :',arr.flags
-
-def test():
-    """this function is pure Python"""
-    arr1 = np.array(-1e-30,dtype=np.float64)
-    arr2 = np.array([1.0,2.0,3.0],dtype=np.float64)
-
-    arr3 = np.arange(9,dtype=np.float64)
-    arr3.shape = 3,3
-
-    four = 4
-    arr4 = np.array(['one','two',3,four],dtype=np.object_)
-
-    arr5 = np.array([1,2,3]) # int types not (yet) supported by print_elements
-
-    for arr in [arr1,arr2,arr3,arr4,arr5]:
-        print_array_info(arr)
-
diff --git a/doc/cython/run_test.py b/doc/cython/run_test.py
deleted file mode 100755
index 5ffd7e80f..000000000
--- a/doc/cython/run_test.py
+++ /dev/null
@@ -1,5 +0,0 @@
-#!/usr/bin/env python
-from __future__ import division, absolute_import, print_function
-
-from numpyx import test
-test()
diff --git a/doc/cython/setup.py b/doc/cython/setup.py
deleted file mode 100755
index fe122d4db..000000000
--- a/doc/cython/setup.py
+++ /dev/null
@@ -1,51 +0,0 @@
-#!/usr/bin/env python
-"""Install file for example on how to use Cython with Numpy.
-
-Note: Cython is the successor project to Pyrex.  For more information, see
-http://cython.org.
-
-"""
-from __future__ import division, print_function
-
-from distutils.core import setup
-from distutils.extension import Extension
-
-import numpy
-
-# We detect whether Cython is available, so that below, we can eventually ship
-# pre-generated C for users to compile the extension without having Cython
-# installed on their systems.
-try:
-    from Cython.Distutils import build_ext
-    has_cython = True
-except ImportError:
-    has_cython = False
-
-# Define a cython-based extension module, using the generated sources if cython
-# is not available.
-if has_cython:
-    pyx_sources = ['numpyx.pyx']
-    cmdclass    = {'build_ext': build_ext}
-else:
-    # In production work, you can ship the auto-generated C source yourself to
-    # your users.  In this case, we do NOT ship the .c file as part of numpy,
-    # so you'll need to actually have cython installed at least the first
-    # time.  Since this is really just an example to show you how to use
-    # *Cython*, it makes more sense NOT to ship the C sources so you can edit
-    # the pyx at will with less chances for source update conflicts when you
-    # update numpy.
-    pyx_sources = ['numpyx.c']
-    cmdclass    = {}
-
-
-# Declare the extension object
-pyx_ext = Extension('numpyx',
-                    pyx_sources,
-                    include_dirs = [numpy.get_include()])
-
-# Call the routine which does the real work
-setup(name        = 'numpyx',
-      description = 'Small example on using Cython to write a Numpy extension',
-      ext_modules = [pyx_ext],
-      cmdclass    = cmdclass,
-      )
diff --git a/doc/pyrex/MANIFEST b/doc/pyrex/MANIFEST
deleted file mode 100644
index feb3ec22a..000000000
--- a/doc/pyrex/MANIFEST
+++ /dev/null
@@ -1,2 +0,0 @@
-numpyx.pyx
-setup.py
diff --git a/doc/pyrex/Makefile b/doc/pyrex/Makefile
deleted file mode 100644
index b5905e7be..000000000
--- a/doc/pyrex/Makefile
+++ /dev/null
@@ -1,9 +0,0 @@
-all:
-	python setup.py build_ext --inplace
-
-test:   all
-	python run_test.py
-
-.PHONY: clean
-clean:
-	rm -rf *~ *.so *.c *.o build
diff --git a/doc/pyrex/README.txt b/doc/pyrex/README.txt
deleted file mode 100644
index 9df1e6c8e..000000000
--- a/doc/pyrex/README.txt
+++ /dev/null
@@ -1,3 +0,0 @@
-WARNING: this code is deprecated and slated for removal soon.  See the
-doc/cython directory for the replacement, which uses Cython (the actively
-maintained version of Pyrex).
diff --git a/doc/pyrex/c_numpy.pxd b/doc/pyrex/c_numpy.pxd
deleted file mode 100644
index 8064091e0..000000000
--- a/doc/pyrex/c_numpy.pxd
+++ /dev/null
@@ -1,126 +0,0 @@
-# :Author:    Travis Oliphant
-
-cdef extern from "numpy/arrayobject.h":
-
-    cdef enum NPY_TYPES:
-        NPY_BOOL
-        NPY_BYTE
-        NPY_UBYTE
-        NPY_SHORT
-        NPY_USHORT 
-        NPY_INT
-        NPY_UINT 
-        NPY_LONG
-        NPY_ULONG
-        NPY_LONGLONG
-        NPY_ULONGLONG
-        NPY_FLOAT
-        NPY_DOUBLE 
-        NPY_LONGDOUBLE
-        NPY_CFLOAT
-        NPY_CDOUBLE
-        NPY_CLONGDOUBLE
-        NPY_OBJECT
-        NPY_STRING
-        NPY_UNICODE
-        NPY_VOID
-        NPY_NTYPES
-        NPY_NOTYPE
-
-    cdef enum requirements:
-        NPY_CONTIGUOUS
-        NPY_FORTRAN
-        NPY_OWNDATA
-        NPY_FORCECAST
-        NPY_ENSURECOPY
-        NPY_ENSUREARRAY
-        NPY_ELEMENTSTRIDES
-        NPY_ALIGNED
-        NPY_NOTSWAPPED
-        NPY_WRITEABLE
-        NPY_UPDATEIFCOPY
-        NPY_ARR_HAS_DESCR
-
-        NPY_BEHAVED
-        NPY_BEHAVED_NS
-        NPY_CARRAY
-        NPY_CARRAY_RO
-        NPY_FARRAY
-        NPY_FARRAY_RO
-        NPY_DEFAULT
-
-        NPY_IN_ARRAY
-        NPY_OUT_ARRAY
-        NPY_INOUT_ARRAY
-        NPY_IN_FARRAY
-        NPY_OUT_FARRAY
-        NPY_INOUT_FARRAY
-
-        NPY_UPDATE_ALL 
-
-    cdef enum defines:
-        # Note: as of Pyrex 0.9.5, enums are type-checked more strictly, so this
-        # can't be used as an integer.
-        NPY_MAXDIMS
-
-    ctypedef struct npy_cdouble:
-        double real
-        double imag
-
-    ctypedef struct npy_cfloat:
-        double real
-        double imag
-
-    ctypedef int npy_intp 
-
-    ctypedef extern class numpy.dtype [object PyArray_Descr]:
-        cdef int type_num, elsize, alignment
-        cdef char type, kind, byteorder
-        cdef int flags 
-        cdef object fields, typeobj
-
-    ctypedef extern class numpy.ndarray [object PyArrayObject]:
-        cdef char *data
-        cdef int nd
-        cdef npy_intp *dimensions
-        cdef npy_intp *strides
-        cdef object base
-        cdef dtype descr
-        cdef int flags
-
-    ctypedef extern class numpy.flatiter [object PyArrayIterObject]:
-        cdef int  nd_m1
-        cdef npy_intp index, size
-        cdef ndarray ao
-        cdef char *dataptr
-        
-    ctypedef extern class numpy.broadcast [object PyArrayMultiIterObject]:
-        cdef int numiter
-        cdef npy_intp size, index
-        cdef int nd
-        # These next two should be arrays of [NPY_MAXITER], but that is
-        # difficult to cleanly specify in Pyrex. Fortunately, it doesn't matter.
-        cdef npy_intp *dimensions
-        cdef void **iters
-
-    object PyArray_ZEROS(int ndims, npy_intp* dims, NPY_TYPES type_num, int fortran)
-    object PyArray_EMPTY(int ndims, npy_intp* dims, NPY_TYPES type_num, int fortran)
-    dtype PyArray_DescrFromTypeNum(NPY_TYPES type_num)
-    object PyArray_SimpleNew(int ndims, npy_intp* dims, NPY_TYPES type_num)
-    int PyArray_Check(object obj)
-    object PyArray_ContiguousFromAny(object obj, NPY_TYPES type, 
-        int mindim, int maxdim)
-    npy_intp PyArray_SIZE(ndarray arr)
-    npy_intp PyArray_NBYTES(ndarray arr)
-    void *PyArray_DATA(ndarray arr)
-    object PyArray_FromAny(object obj, dtype newtype, int mindim, int maxdim,
-		    int requirements, object context)
-    object PyArray_FROMANY(object obj, NPY_TYPES type_num, int min,
-                           int max, int requirements)
-    object PyArray_NewFromDescr(object subtype, dtype newtype, int nd,
-                                npy_intp* dims, npy_intp* strides, void* data,
-                                int flags, object parent)
-
-    void PyArray_ITER_NEXT(flatiter it)
-
-    void import_array()
diff --git a/doc/pyrex/c_python.pxd b/doc/pyrex/c_python.pxd
deleted file mode 100644
index 53f6d9b19..000000000
--- a/doc/pyrex/c_python.pxd
+++ /dev/null
@@ -1,20 +0,0 @@
-# -*- Mode: Python -*-  Not really, but close enough
-
-# Expose as much of the Python C API as we need here
-
-cdef extern from "stdlib.h":
-    ctypedef int size_t
-
-cdef extern from "Python.h":
-    ctypedef int Py_intptr_t
-    void*  PyMem_Malloc(size_t)
-    void*  PyMem_Realloc(void *p, size_t n)
-    void   PyMem_Free(void *p)
-    char*  PyString_AsString(object string)
-    object PyString_FromString(char *v)
-    object PyString_InternFromString(char *v)
-    int    PyErr_CheckSignals()
-    object PyFloat_FromDouble(double v)
-    void   Py_XINCREF(object o)
-    void   Py_XDECREF(object o)
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diff --git a/doc/pyrex/notes b/doc/pyrex/notes
deleted file mode 100644
index 301581cee..000000000
--- a/doc/pyrex/notes
+++ /dev/null
@@ -1,3 +0,0 @@
-- cimport with a .pxd file vs 'include foo.pxi'?
-
-- the need to repeat: pyrex does NOT parse C headers.
\ No newline at end of file
diff --git a/doc/pyrex/numpyx.c b/doc/pyrex/numpyx.c
deleted file mode 100644
index e250eae19..000000000
--- a/doc/pyrex/numpyx.c
+++ /dev/null
@@ -1,1037 +0,0 @@
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-        ++t;
-    }
-    return 0;
-}
-
-static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) {
-    while (t->p) {
-        *t->p = PyString_FromStringAndSize(t->s, t->n - 1);
-        if (!*t->p)
-            return -1;
-        ++t;
-    }
-    return 0;
-}
-
-static PyTypeObject *__Pyx_ImportType(char *module_name, char *class_name, 
-    long size) 
-{
-    PyObject *py_module_name = 0;
-    PyObject *py_class_name = 0;
-    PyObject *py_name_list = 0;
-    PyObject *py_module = 0;
-    PyObject *result = 0;
-    
-    py_module_name = PyString_FromString(module_name);
-    if (!py_module_name)
-        goto bad;
-    py_class_name = PyString_FromString(class_name);
-    if (!py_class_name)
-        goto bad;
-    py_name_list = PyList_New(1);
-    if (!py_name_list)
-        goto bad;
-    Py_INCREF(py_class_name);
-    if (PyList_SetItem(py_name_list, 0, py_class_name) < 0)
-        goto bad;
-    py_module = __Pyx_Import(py_module_name, py_name_list);
-    if (!py_module)
-        goto bad;
-    result = PyObject_GetAttr(py_module, py_class_name);
-    if (!result)
-        goto bad;
-    if (!PyType_Check(result)) {
-        PyErr_Format(PyExc_TypeError, 
-            "%s.%s is not a type object",
-            module_name, class_name);
-        goto bad;
-    }
-    if (((PyTypeObject *)result)->tp_basicsize != size) {
-        PyErr_Format(PyExc_ValueError, 
-            "%s.%s does not appear to be the correct type object",
-            module_name, class_name);
-        goto bad;
-    }
-    goto done;
-bad:
-    Py_XDECREF(result);
-    result = 0;
-done:
-    Py_XDECREF(py_module_name);
-    Py_XDECREF(py_class_name);
-    Py_XDECREF(py_name_list);
-    return (PyTypeObject *)result;
-}
-
-#include "compile.h"
-#include "frameobject.h"
-#include "traceback.h"
-
-static void __Pyx_AddTraceback(char *funcname) {
-    PyObject *py_srcfile = 0;
-    PyObject *py_funcname = 0;
-    PyObject *py_globals = 0;
-    PyObject *empty_tuple = 0;
-    PyObject *empty_string = 0;
-    PyCodeObject *py_code = 0;
-    PyFrameObject *py_frame = 0;
-    
-    py_srcfile = PyString_FromString(__pyx_filename);
-    if (!py_srcfile) goto bad;
-    py_funcname = PyString_FromString(funcname);
-    if (!py_funcname) goto bad;
-    py_globals = PyModule_GetDict(__pyx_m);
-    if (!py_globals) goto bad;
-    empty_tuple = PyTuple_New(0);
-    if (!empty_tuple) goto bad;
-    empty_string = PyString_FromString("");
-    if (!empty_string) goto bad;
-    py_code = PyCode_New(
-        0,            /*int argcount,*/
-        0,            /*int nlocals,*/
-        0,            /*int stacksize,*/
-        0,            /*int flags,*/
-        empty_string, /*PyObject *code,*/
-        empty_tuple,  /*PyObject *consts,*/
-        empty_tuple,  /*PyObject *names,*/
-        empty_tuple,  /*PyObject *varnames,*/
-        empty_tuple,  /*PyObject *freevars,*/
-        empty_tuple,  /*PyObject *cellvars,*/
-        py_srcfile,   /*PyObject *filename,*/
-        py_funcname,  /*PyObject *name,*/
-        __pyx_lineno,   /*int firstlineno,*/
-        empty_string  /*PyObject *lnotab*/
-    );
-    if (!py_code) goto bad;
-    py_frame = PyFrame_New(
-        PyThreadState_Get(), /*PyThreadState *tstate,*/
-        py_code,             /*PyCodeObject *code,*/
-        py_globals,          /*PyObject *globals,*/
-        0                    /*PyObject *locals*/
-    );
-    if (!py_frame) goto bad;
-    py_frame->f_lineno = __pyx_lineno;
-    PyTraceBack_Here(py_frame);
-bad:
-    Py_XDECREF(py_srcfile);
-    Py_XDECREF(py_funcname);
-    Py_XDECREF(empty_tuple);
-    Py_XDECREF(empty_string);
-    Py_XDECREF(py_code);
-    Py_XDECREF(py_frame);
-}
diff --git a/doc/pyrex/numpyx.pyx b/doc/pyrex/numpyx.pyx
deleted file mode 100644
index 068d251f6..000000000
--- a/doc/pyrex/numpyx.pyx
+++ /dev/null
@@ -1,101 +0,0 @@
-# -*- Mode: Python -*-  Not really, but close enough
-"""WARNING: this code is deprecated and slated for removal soon.  See the
-doc/cython directory for the replacement, which uses Cython (the actively
-maintained version of Pyrex).
-"""
-
-cimport c_python
-cimport c_numpy
-import numpy
-
-# Numpy must be initialized
-c_numpy.import_array()
-
-def print_array_info(c_numpy.ndarray arr):
-    cdef int i
-
-    print '-='*10
-    print 'printing array info for ndarray at 0x%0lx'%(<c_python.Py_intptr_t>arr,)
-    print 'print number of dimensions:',arr.nd
-    print 'address of strides: 0x%0lx'%(<c_python.Py_intptr_t>arr.strides,)
-    print 'strides:'
-    for i from 0<=i<arr.nd:
-        # print each stride
-        print '  stride %d:'%i,<c_python.Py_intptr_t>arr.strides[i]
-    print 'memory dump:'
-    print_elements( arr.data, arr.strides, arr.dimensions,
-                    arr.nd, sizeof(double), arr.dtype )
-    print '-='*10
-    print
-
-cdef print_elements(char *data,
-                    c_python.Py_intptr_t* strides,
-                    c_python.Py_intptr_t* dimensions,
-                    int nd,
-                    int elsize,
-                    object dtype):
-    cdef c_python.Py_intptr_t i,j
-    cdef void* elptr
-
-    if dtype not in [numpy.dtype(numpy.object_),
-                     numpy.dtype(numpy.float64)]:
-        print '   print_elements() not (yet) implemented for dtype %s'%dtype.name
-        return
-
-    if nd ==0:
-        if dtype==numpy.dtype(numpy.object_):
-            elptr = (<void**>data)[0] #[0] dereferences pointer in Pyrex
-            print '  ',<object>elptr
-        elif dtype==numpy.dtype(numpy.float64):
-            print '  ',(<double*>data)[0]
-    elif nd == 1:
-        for i from 0<=i<dimensions[0]:
-            if dtype==numpy.dtype(numpy.object_):
-                elptr = (<void**>data)[0]
-                print '  ',<object>elptr
-            elif dtype==numpy.dtype(numpy.float64):
-                print '  ',(<double*>data)[0]
-            data = data + strides[0]
-    else:
-        for i from 0<=i<dimensions[0]:
-            print_elements(data, strides+1, dimensions+1, nd-1, elsize, dtype)
-            data = data + strides[0]
-
-def test_methods(c_numpy.ndarray arr):
-    """Test a few attribute accesses for an array.
-    
-    This illustrates how the pyrex-visible object is in practice a strange
-    hybrid of the C PyArrayObject struct and the python object.  Some
-    properties (like .nd) are visible here but not in python, while others
-    like flags behave very differently: in python flags appears as a separate,
-    object while here we see the raw int holding the bit pattern.
-
-    This makes sense when we think of how pyrex resolves arr.foo: if foo is
-    listed as a field in the c_numpy.ndarray struct description, it will be
-    directly accessed as a C variable without going through Python at all.
-    This is why for arr.flags, we see the actual int which holds all the flags
-    as bit fields.  However, for any other attribute not listed in the struct,
-    it simply forwards the attribute lookup to python at runtime, just like
-    python would (which means that AttributeError can  be raised for
-    non-existent attributes, for example)."""
-    
-    print 'arr.any() :',arr.any()
-    print 'arr.nd    :',arr.nd
-    print 'arr.flags :',arr.flags
-
-def test():
-    """this function is pure Python"""
-    arr1 = numpy.array(-1e-30,dtype=numpy.float64)
-    arr2 = numpy.array([1.0,2.0,3.0],dtype=numpy.float64)
-
-    arr3 = numpy.arange(9,dtype=numpy.float64)
-    arr3.shape = 3,3
-
-    four = 4
-    arr4 = numpy.array(['one','two',3,four],dtype=numpy.object_)
-
-    arr5 = numpy.array([1,2,3]) # int types not (yet) supported by print_elements
-
-    for arr in [arr1,arr2,arr3,arr4,arr5]:
-        print_array_info(arr)
-
diff --git a/doc/pyrex/run_test.py b/doc/pyrex/run_test.py
deleted file mode 100755
index 5ffd7e80f..000000000
--- a/doc/pyrex/run_test.py
+++ /dev/null
@@ -1,5 +0,0 @@
-#!/usr/bin/env python
-from __future__ import division, absolute_import, print_function
-
-from numpyx import test
-test()
diff --git a/doc/pyrex/setup.py b/doc/pyrex/setup.py
deleted file mode 100644
index 361ccb183..000000000
--- a/doc/pyrex/setup.py
+++ /dev/null
@@ -1,50 +0,0 @@
-#!/usr/bin/env python
-"""
-WARNING: this code is deprecated and slated for removal soon.  See the
-doc/cython directory for the replacement, which uses Cython (the actively
-maintained version of Pyrex).
-
-
-Install file for example on how to use Pyrex with Numpy.
-
-For more details, see:
-http://www.scipy.org/Cookbook/Pyrex_and_NumPy
-http://www.scipy.org/Cookbook/ArrayStruct_and_Pyrex
-
-"""
-from __future__ import division, print_function
-
-from distutils.core import setup
-from distutils.extension import Extension
-
-# Make this usable by people who don't have pyrex installed (I've committed
-# the generated C sources to SVN).
-try:
-    from Pyrex.Distutils import build_ext
-    has_pyrex = True
-except ImportError:
-    has_pyrex = False
-
-import numpy
-
-# Define a pyrex-based extension module, using the generated sources if pyrex
-# is not available.
-if has_pyrex:
-    pyx_sources = ['numpyx.pyx']
-    cmdclass    = {'build_ext': build_ext}
-else:
-    pyx_sources = ['numpyx.c']
-    cmdclass    = {}
-
-
-pyx_ext = Extension('numpyx',
-                 pyx_sources,
-                 include_dirs = [numpy.get_include()])
-
-# Call the routine which does the real work
-setup(name        = 'numpyx',
-      description = 'Small example on using Pyrex to write a Numpy extension',
-      url         = 'http://www.scipy.org/Cookbook/Pyrex_and_NumPy',
-      ext_modules = [pyx_ext],
-      cmdclass    = cmdclass,
-      )