/* Generated by Cython 0.25.2 */

/* BEGIN: Cython Metadata
{
    "distutils": {
        "depends": [
            "include/allele_ages.hpp", 
            "include/deps.hpp", 
            "include/evolve_regions_sampler.hpp", 
            "include/fwdpy_add_mutations.hpp", 
            "include/fwdpy_fitness.hpp", 
            "include/internal_callbacks.hpp", 
            "include/internal_region_manager.hpp", 
            "include/sample.hpp", 
            "include/sampler_additive_variance.hpp", 
            "include/sampler_base.hpp", 
            "include/sampler_no_sampling.hpp", 
            "include/sampler_pop_properties.hpp", 
            "include/sampler_sample_n.hpp", 
            "include/sampler_selected_mut_tracker.hpp", 
            "include/sampling_wrappers.hpp", 
            "include/types.hpp"
        ], 
        "extra_compile_args": [
            "-std=c++11", 
            "-fopenmp", 
            "-DPACKAGE_VERSION=\"0.0.4\"", 
            "-DHAVE_INLINE"
        ], 
        "include_dirs": [
            ".", 
            "..", 
            "include"
        ], 
        "language": "c++"
    }, 
    "module_name": "fwdpy.matrix"
}
END: Cython Metadata */

#define PY_SSIZE_T_CLEAN
#include "Python.h"
#ifndef Py_PYTHON_H
    #error Python headers needed to compile C extensions, please install development version of Python.
#elif PY_VERSION_HEX < 0x02060000 || (0x03000000 <= PY_VERSION_HEX && PY_VERSION_HEX < 0x03020000)
    #error Cython requires Python 2.6+ or Python 3.2+.
#else
#define CYTHON_ABI "0_25_2"
#include <stddef.h>
#ifndef offsetof
  #define offsetof(type, member) ( (size_t) & ((type*)0) -> member )
#endif
#if !defined(WIN32) && !defined(MS_WINDOWS)
  #ifndef __stdcall
    #define __stdcall
  #endif
  #ifndef __cdecl
    #define __cdecl
  #endif
  #ifndef __fastcall
    #define __fastcall
  #endif
#endif
#ifndef DL_IMPORT
  #define DL_IMPORT(t) t
#endif
#ifndef DL_EXPORT
  #define DL_EXPORT(t) t
#endif
#ifndef HAVE_LONG_LONG
  #if PY_VERSION_HEX >= 0x03030000 || (PY_MAJOR_VERSION == 2 && PY_VERSION_HEX >= 0x02070000)
    #define HAVE_LONG_LONG
  #endif
#endif
#ifndef PY_LONG_LONG
  #define PY_LONG_LONG LONG_LONG
#endif
#ifndef Py_HUGE_VAL
  #define Py_HUGE_VAL HUGE_VAL
#endif
#ifdef PYPY_VERSION
  #define CYTHON_COMPILING_IN_PYPY 1
  #define CYTHON_COMPILING_IN_PYSTON 0
  #define CYTHON_COMPILING_IN_CPYTHON 0
  #undef CYTHON_USE_TYPE_SLOTS
  #define CYTHON_USE_TYPE_SLOTS 0
  #undef CYTHON_USE_ASYNC_SLOTS
  #define CYTHON_USE_ASYNC_SLOTS 0
  #undef CYTHON_USE_PYLIST_INTERNALS
  #define CYTHON_USE_PYLIST_INTERNALS 0
  #undef CYTHON_USE_UNICODE_INTERNALS
  #define CYTHON_USE_UNICODE_INTERNALS 0
  #undef CYTHON_USE_UNICODE_WRITER
  #define CYTHON_USE_UNICODE_WRITER 0
  #undef CYTHON_USE_PYLONG_INTERNALS
  #define CYTHON_USE_PYLONG_INTERNALS 0
  #undef CYTHON_AVOID_BORROWED_REFS
  #define CYTHON_AVOID_BORROWED_REFS 1
  #undef CYTHON_ASSUME_SAFE_MACROS
  #define CYTHON_ASSUME_SAFE_MACROS 0
  #undef CYTHON_UNPACK_METHODS
  #define CYTHON_UNPACK_METHODS 0
  #undef CYTHON_FAST_THREAD_STATE
  #define CYTHON_FAST_THREAD_STATE 0
  #undef CYTHON_FAST_PYCALL
  #define CYTHON_FAST_PYCALL 0
#elif defined(PYSTON_VERSION)
  #define CYTHON_COMPILING_IN_PYPY 0
  #define CYTHON_COMPILING_IN_PYSTON 1
  #define CYTHON_COMPILING_IN_CPYTHON 0
  #ifndef CYTHON_USE_TYPE_SLOTS
    #define CYTHON_USE_TYPE_SLOTS 1
  #endif
  #undef CYTHON_USE_ASYNC_SLOTS
  #define CYTHON_USE_ASYNC_SLOTS 0
  #undef CYTHON_USE_PYLIST_INTERNALS
  #define CYTHON_USE_PYLIST_INTERNALS 0
  #ifndef CYTHON_USE_UNICODE_INTERNALS
    #define CYTHON_USE_UNICODE_INTERNALS 1
  #endif
  #undef CYTHON_USE_UNICODE_WRITER
  #define CYTHON_USE_UNICODE_WRITER 0
  #undef CYTHON_USE_PYLONG_INTERNALS
  #define CYTHON_USE_PYLONG_INTERNALS 0
  #ifndef CYTHON_AVOID_BORROWED_REFS
    #define CYTHON_AVOID_BORROWED_REFS 0
  #endif
  #ifndef CYTHON_ASSUME_SAFE_MACROS
    #define CYTHON_ASSUME_SAFE_MACROS 1
  #endif
  #ifndef CYTHON_UNPACK_METHODS
    #define CYTHON_UNPACK_METHODS 1
  #endif
  #undef CYTHON_FAST_THREAD_STATE
  #define CYTHON_FAST_THREAD_STATE 0
  #undef CYTHON_FAST_PYCALL
  #define CYTHON_FAST_PYCALL 0
#else
  #define CYTHON_COMPILING_IN_PYPY 0
  #define CYTHON_COMPILING_IN_PYSTON 0
  #define CYTHON_COMPILING_IN_CPYTHON 1
  #ifndef CYTHON_USE_TYPE_SLOTS
    #define CYTHON_USE_TYPE_SLOTS 1
  #endif
  #if PY_MAJOR_VERSION < 3
    #undef CYTHON_USE_ASYNC_SLOTS
    #define CYTHON_USE_ASYNC_SLOTS 0
  #elif !defined(CYTHON_USE_ASYNC_SLOTS)
    #define CYTHON_USE_ASYNC_SLOTS 1
  #endif
  #if PY_VERSION_HEX < 0x02070000
    #undef CYTHON_USE_PYLONG_INTERNALS
    #define CYTHON_USE_PYLONG_INTERNALS 0
  #elif !defined(CYTHON_USE_PYLONG_INTERNALS)
    #define CYTHON_USE_PYLONG_INTERNALS 1
  #endif
  #ifndef CYTHON_USE_PYLIST_INTERNALS
    #define CYTHON_USE_PYLIST_INTERNALS 1
  #endif
  #ifndef CYTHON_USE_UNICODE_INTERNALS
    #define CYTHON_USE_UNICODE_INTERNALS 1
  #endif
  #if PY_VERSION_HEX < 0x030300F0
    #undef CYTHON_USE_UNICODE_WRITER
    #define CYTHON_USE_UNICODE_WRITER 0
  #elif !defined(CYTHON_USE_UNICODE_WRITER)
    #define CYTHON_USE_UNICODE_WRITER 1
  #endif
  #ifndef CYTHON_AVOID_BORROWED_REFS
    #define CYTHON_AVOID_BORROWED_REFS 0
  #endif
  #ifndef CYTHON_ASSUME_SAFE_MACROS
    #define CYTHON_ASSUME_SAFE_MACROS 1
  #endif
  #ifndef CYTHON_UNPACK_METHODS
    #define CYTHON_UNPACK_METHODS 1
  #endif
  #ifndef CYTHON_FAST_THREAD_STATE
    #define CYTHON_FAST_THREAD_STATE 1
  #endif
  #ifndef CYTHON_FAST_PYCALL
    #define CYTHON_FAST_PYCALL 1
  #endif
#endif
#if !defined(CYTHON_FAST_PYCCALL)
#define CYTHON_FAST_PYCCALL  (CYTHON_FAST_PYCALL && PY_VERSION_HEX >= 0x030600B1)
#endif
#if CYTHON_USE_PYLONG_INTERNALS
  #include "longintrepr.h"
  #undef SHIFT
  #undef BASE
  #undef MASK
#endif
#if CYTHON_COMPILING_IN_PYPY && PY_VERSION_HEX < 0x02070600 && !defined(Py_OptimizeFlag)
  #define Py_OptimizeFlag 0
#endif
#define __PYX_BUILD_PY_SSIZE_T "n"
#define CYTHON_FORMAT_SSIZE_T "z"
#if PY_MAJOR_VERSION < 3
  #define __Pyx_BUILTIN_MODULE_NAME "__builtin__"
  #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)\
          PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)
  #define __Pyx_DefaultClassType PyClass_Type
#else
  #define __Pyx_BUILTIN_MODULE_NAME "builtins"
  #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)\
          PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos)
  #define __Pyx_DefaultClassType PyType_Type
#endif
#ifndef Py_TPFLAGS_CHECKTYPES
  #define Py_TPFLAGS_CHECKTYPES 0
#endif
#ifndef Py_TPFLAGS_HAVE_INDEX
  #define Py_TPFLAGS_HAVE_INDEX 0
#endif
#ifndef Py_TPFLAGS_HAVE_NEWBUFFER
  #define Py_TPFLAGS_HAVE_NEWBUFFER 0
#endif
#ifndef Py_TPFLAGS_HAVE_FINALIZE
  #define Py_TPFLAGS_HAVE_FINALIZE 0
#endif
#ifndef METH_FASTCALL
  #define METH_FASTCALL 0x80
  typedef PyObject *(*__Pyx_PyCFunctionFast) (PyObject *self, PyObject **args,
                                              Py_ssize_t nargs, PyObject *kwnames);
#else
  #define __Pyx_PyCFunctionFast _PyCFunctionFast
#endif
#if CYTHON_FAST_PYCCALL
#define __Pyx_PyFastCFunction_Check(func)\
    ((PyCFunction_Check(func) && (METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST)))))
#else
#define __Pyx_PyFastCFunction_Check(func) 0
#endif
#if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND)
  #define CYTHON_PEP393_ENABLED 1
  #define __Pyx_PyUnicode_READY(op)       (likely(PyUnicode_IS_READY(op)) ?\
                                              0 : _PyUnicode_Ready((PyObject *)(op)))
  #define __Pyx_PyUnicode_GET_LENGTH(u)   PyUnicode_GET_LENGTH(u)
  #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i)
  #define __Pyx_PyUnicode_MAX_CHAR_VALUE(u)   PyUnicode_MAX_CHAR_VALUE(u)
  #define __Pyx_PyUnicode_KIND(u)         PyUnicode_KIND(u)
  #define __Pyx_PyUnicode_DATA(u)         PyUnicode_DATA(u)
  #define __Pyx_PyUnicode_READ(k, d, i)   PyUnicode_READ(k, d, i)
  #define __Pyx_PyUnicode_WRITE(k, d, i, ch)  PyUnicode_WRITE(k, d, i, ch)
  #define __Pyx_PyUnicode_IS_TRUE(u)      (0 != (likely(PyUnicode_IS_READY(u)) ? PyUnicode_GET_LENGTH(u) : PyUnicode_GET_SIZE(u)))
#else
  #define CYTHON_PEP393_ENABLED 0
  #define PyUnicode_1BYTE_KIND  1
  #define PyUnicode_2BYTE_KIND  2
  #define PyUnicode_4BYTE_KIND  4
  #define __Pyx_PyUnicode_READY(op)       (0)
  #define __Pyx_PyUnicode_GET_LENGTH(u)   PyUnicode_GET_SIZE(u)
  #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i]))
  #define __Pyx_PyUnicode_MAX_CHAR_VALUE(u)   ((sizeof(Py_UNICODE) == 2) ? 65535 : 1114111)
  #define __Pyx_PyUnicode_KIND(u)         (sizeof(Py_UNICODE))
  #define __Pyx_PyUnicode_DATA(u)         ((void*)PyUnicode_AS_UNICODE(u))
  #define __Pyx_PyUnicode_READ(k, d, i)   ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i]))
  #define __Pyx_PyUnicode_WRITE(k, d, i, ch)  (((void)(k)), ((Py_UNICODE*)d)[i] = ch)
  #define __Pyx_PyUnicode_IS_TRUE(u)      (0 != PyUnicode_GET_SIZE(u))
#endif
#if CYTHON_COMPILING_IN_PYPY
  #define __Pyx_PyUnicode_Concat(a, b)      PyNumber_Add(a, b)
  #define __Pyx_PyUnicode_ConcatSafe(a, b)  PyNumber_Add(a, b)
#else
  #define __Pyx_PyUnicode_Concat(a, b)      PyUnicode_Concat(a, b)
  #define __Pyx_PyUnicode_ConcatSafe(a, b)  ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ?\
      PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b))
#endif
#if CYTHON_COMPILING_IN_PYPY && !defined(PyUnicode_Contains)
  #define PyUnicode_Contains(u, s)  PySequence_Contains(u, s)
#endif
#if CYTHON_COMPILING_IN_PYPY && !defined(PyByteArray_Check)
  #define PyByteArray_Check(obj)  PyObject_TypeCheck(obj, &PyByteArray_Type)
#endif
#if CYTHON_COMPILING_IN_PYPY && !defined(PyObject_Format)
  #define PyObject_Format(obj, fmt)  PyObject_CallMethod(obj, "__format__", "O", fmt)
#endif
#if CYTHON_COMPILING_IN_PYPY && !defined(PyObject_Malloc)
  #define PyObject_Malloc(s)   PyMem_Malloc(s)
  #define PyObject_Free(p)     PyMem_Free(p)
  #define PyObject_Realloc(p)  PyMem_Realloc(p)
#endif
#if CYTHON_COMPILING_IN_PYSTON
  #define __Pyx_PyCode_HasFreeVars(co)  PyCode_HasFreeVars(co)
  #define __Pyx_PyFrame_SetLineNumber(frame, lineno) PyFrame_SetLineNumber(frame, lineno)
#else
  #define __Pyx_PyCode_HasFreeVars(co)  (PyCode_GetNumFree(co) > 0)
  #define __Pyx_PyFrame_SetLineNumber(frame, lineno)  (frame)->f_lineno = (lineno)
#endif
#define __Pyx_PyString_FormatSafe(a, b)   ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b))
#define __Pyx_PyUnicode_FormatSafe(a, b)  ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b))
#if PY_MAJOR_VERSION >= 3
  #define __Pyx_PyString_Format(a, b)  PyUnicode_Format(a, b)
#else
  #define __Pyx_PyString_Format(a, b)  PyString_Format(a, b)
#endif
#if PY_MAJOR_VERSION < 3 && !defined(PyObject_ASCII)
  #define PyObject_ASCII(o)            PyObject_Repr(o)
#endif
#if PY_MAJOR_VERSION >= 3
  #define PyBaseString_Type            PyUnicode_Type
  #define PyStringObject               PyUnicodeObject
  #define PyString_Type                PyUnicode_Type
  #define PyString_Check               PyUnicode_Check
  #define PyString_CheckExact          PyUnicode_CheckExact
#endif
#if PY_MAJOR_VERSION >= 3
  #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj)
  #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj)
#else
  #define __Pyx_PyBaseString_Check(obj) (PyString_Check(obj) || PyUnicode_Check(obj))
  #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj))
#endif
#ifndef PySet_CheckExact
  #define PySet_CheckExact(obj)        (Py_TYPE(obj) == &PySet_Type)
#endif
#define __Pyx_TypeCheck(obj, type) PyObject_TypeCheck(obj, (PyTypeObject *)type)
#define __Pyx_PyException_Check(obj) __Pyx_TypeCheck(obj, PyExc_Exception)
#if PY_MAJOR_VERSION >= 3
  #define PyIntObject                  PyLongObject
  #define PyInt_Type                   PyLong_Type
  #define PyInt_Check(op)              PyLong_Check(op)
  #define PyInt_CheckExact(op)         PyLong_CheckExact(op)
  #define PyInt_FromString             PyLong_FromString
  #define PyInt_FromUnicode            PyLong_FromUnicode
  #define PyInt_FromLong               PyLong_FromLong
  #define PyInt_FromSize_t             PyLong_FromSize_t
  #define PyInt_FromSsize_t            PyLong_FromSsize_t
  #define PyInt_AsLong                 PyLong_AsLong
  #define PyInt_AS_LONG                PyLong_AS_LONG
  #define PyInt_AsSsize_t              PyLong_AsSsize_t
  #define PyInt_AsUnsignedLongMask     PyLong_AsUnsignedLongMask
  #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask
  #define PyNumber_Int                 PyNumber_Long
#endif
#if PY_MAJOR_VERSION >= 3
  #define PyBoolObject                 PyLongObject
#endif
#if PY_MAJOR_VERSION >= 3 && CYTHON_COMPILING_IN_PYPY
  #ifndef PyUnicode_InternFromString
    #define PyUnicode_InternFromString(s) PyUnicode_FromString(s)
  #endif
#endif
#if PY_VERSION_HEX < 0x030200A4
  typedef long Py_hash_t;
  #define __Pyx_PyInt_FromHash_t PyInt_FromLong
  #define __Pyx_PyInt_AsHash_t   PyInt_AsLong
#else
  #define __Pyx_PyInt_FromHash_t PyInt_FromSsize_t
  #define __Pyx_PyInt_AsHash_t   PyInt_AsSsize_t
#endif
#if PY_MAJOR_VERSION >= 3
  #define __Pyx_PyMethod_New(func, self, klass) ((self) ? PyMethod_New(func, self) : PyInstanceMethod_New(func))
#else
  #define __Pyx_PyMethod_New(func, self, klass) PyMethod_New(func, self, klass)
#endif
#if CYTHON_USE_ASYNC_SLOTS
  #if PY_VERSION_HEX >= 0x030500B1
    #define __Pyx_PyAsyncMethodsStruct PyAsyncMethods
    #define __Pyx_PyType_AsAsync(obj) (Py_TYPE(obj)->tp_as_async)
  #else
    typedef struct {
        unaryfunc am_await;
        unaryfunc am_aiter;
        unaryfunc am_anext;
    } __Pyx_PyAsyncMethodsStruct;
    #define __Pyx_PyType_AsAsync(obj) ((__Pyx_PyAsyncMethodsStruct*) (Py_TYPE(obj)->tp_reserved))
  #endif
#else
  #define __Pyx_PyType_AsAsync(obj) NULL
#endif
#ifndef CYTHON_RESTRICT
  #if defined(__GNUC__)
    #define CYTHON_RESTRICT __restrict__
  #elif defined(_MSC_VER) && _MSC_VER >= 1400
    #define CYTHON_RESTRICT __restrict
  #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L
    #define CYTHON_RESTRICT restrict
  #else
    #define CYTHON_RESTRICT
  #endif
#endif
#ifndef CYTHON_UNUSED
# if defined(__GNUC__)
#   if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4))
#     define CYTHON_UNUSED __attribute__ ((__unused__))
#   else
#     define CYTHON_UNUSED
#   endif
# elif defined(__ICC) || (defined(__INTEL_COMPILER) && !defined(_MSC_VER))
#   define CYTHON_UNUSED __attribute__ ((__unused__))
# else
#   define CYTHON_UNUSED
# endif
#endif
#ifndef CYTHON_MAYBE_UNUSED_VAR
#  if defined(__cplusplus)
     template<class T> void CYTHON_MAYBE_UNUSED_VAR( const T& ) { }
#  else
#    define CYTHON_MAYBE_UNUSED_VAR(x) (void)(x)
#  endif
#endif
#ifndef CYTHON_NCP_UNUSED
# if CYTHON_COMPILING_IN_CPYTHON
#  define CYTHON_NCP_UNUSED
# else
#  define CYTHON_NCP_UNUSED CYTHON_UNUSED
# endif
#endif
#define __Pyx_void_to_None(void_result) ((void)(void_result), Py_INCREF(Py_None), Py_None)

#ifndef __cplusplus
  #error "Cython files generated with the C++ option must be compiled with a C++ compiler."
#endif
#ifndef CYTHON_INLINE
  #if defined(__clang__)
    #define CYTHON_INLINE __inline__ __attribute__ ((__unused__))
  #else
    #define CYTHON_INLINE inline
  #endif
#endif
template<typename T>
void __Pyx_call_destructor(T& x) {
    x.~T();
}
template<typename T>
class __Pyx_FakeReference {
  public:
    __Pyx_FakeReference() : ptr(NULL) { }
    __Pyx_FakeReference(const T& ref) : ptr(const_cast<T*>(&ref)) { }
    T *operator->() { return ptr; }
    T *operator&() { return ptr; }
    operator T&() { return *ptr; }
    template<typename U> bool operator ==(U other) { return *ptr == other; }
    template<typename U> bool operator !=(U other) { return *ptr != other; }
  private:
    T *ptr;
};

#if defined(WIN32) || defined(MS_WINDOWS)
  #define _USE_MATH_DEFINES
#endif
#include <math.h>
#ifdef NAN
#define __PYX_NAN() ((float) NAN)
#else
static CYTHON_INLINE float __PYX_NAN() {
  float value;
  memset(&value, 0xFF, sizeof(value));
  return value;
}
#endif
#if defined(__CYGWIN__) && defined(_LDBL_EQ_DBL)
#define __Pyx_truncl trunc
#else
#define __Pyx_truncl truncl
#endif


#define __PYX_ERR(f_index, lineno, Ln_error) \
{ \
  __pyx_filename = __pyx_f[f_index]; __pyx_lineno = lineno; __pyx_clineno = __LINE__; goto Ln_error; \
}

#if PY_MAJOR_VERSION >= 3
  #define __Pyx_PyNumber_Divide(x,y)         PyNumber_TrueDivide(x,y)
  #define __Pyx_PyNumber_InPlaceDivide(x,y)  PyNumber_InPlaceTrueDivide(x,y)
#else
  #define __Pyx_PyNumber_Divide(x,y)         PyNumber_Divide(x,y)
  #define __Pyx_PyNumber_InPlaceDivide(x,y)  PyNumber_InPlaceDivide(x,y)
#endif

#ifndef __PYX_EXTERN_C
  #ifdef __cplusplus
    #define __PYX_EXTERN_C extern "C"
  #else
    #define __PYX_EXTERN_C extern
  #endif
#endif

#define __PYX_HAVE__fwdpy__matrix
#define __PYX_HAVE_API__fwdpy__matrix
#include <vector>
#include "ios"
#include "new"
#include "stdexcept"
#include "typeinfo"
#include <utility>
#include <string.h>
#include <string>
#include <memory>
#include <map>
#include <stdint.h>
#include <math.h>
#include <stdio.h>
#include "gsl/gsl_mode.h"
#include "gsl/gsl_math.h"
#include "gsl/gsl_complex.h"
#include "gsl/gsl_complex_math.h"
#include "gsl/gsl_poly.h"
#include "gsl/gsl_sf_result.h"
#include "gsl/gsl_sf_airy.h"
#include "gsl/gsl_sf_bessel.h"
#include "gsl/gsl_sf_clausen.h"
#include "gsl/gsl_sf_coulomb.h"
#include "gsl/gsl_sf_coupling.h"
#include "gsl/gsl_sf_dawson.h"
#include "gsl/gsl_sf_debye.h"
#include "gsl/gsl_sf_dilog.h"
#include "gsl/gsl_sf_elementary.h"
#include "gsl/gsl_sf_ellint.h"
#include "gsl/gsl_sf_elljac.h"
#include "gsl/gsl_sf_erf.h"
#include "gsl/gsl_sf_exp.h"
#include "gsl/gsl_sf_expint.h"
#include "gsl/gsl_sf_fermi_dirac.h"
#include "gsl/gsl_sf_gamma.h"
#include "gsl/gsl_sf_gegenbauer.h"
#include "gsl/gsl_sf_hyperg.h"
#include "gsl/gsl_sf_laguerre.h"
#include "gsl/gsl_sf_lambert.h"
#include "gsl/gsl_sf_legendre.h"
#include "gsl/gsl_sf_log.h"
#include "gsl/gsl_sf_pow_int.h"
#include "gsl/gsl_sf_psi.h"
#include "gsl/gsl_sf_synchrotron.h"
#include "gsl/gsl_sf_transport.h"
#include "gsl/gsl_sf_trig.h"
#include "gsl/gsl_sf_zeta.h"
#include "gsl/gsl_block_double.h"
#include "gsl/gsl_block_complex_double.h"
#include "gsl/gsl_vector.h"
#include "gsl/gsl_vector_complex_double.h"
#include "gsl/gsl_matrix_double.h"
#include "gsl/gsl_matrix_complex_double.h"
#include "gsl/gsl_permutation.h"
#include "gsl/gsl_permute_double.h"
#include "gsl/gsl_permute_vector_double.h"
#include "gsl/gsl_permute_vector_complex_double.h"
#include "gsl/gsl_combination.h"
#include "gsl/gsl_heapsort.h"
#include "gsl/gsl_sort_double.h"
#include "gsl/gsl_sort_vector_double.h"
#include "gsl/gsl_cblas.h"
#include "gsl/gsl_blas_types.h"
#include "gsl/gsl_blas.h"
#include "gsl/gsl_linalg.h"
#include "gsl/gsl_eigen.h"
#include "gsl/gsl_fft.h"
#include "gsl/gsl_fft_complex.h"
#include "gsl/gsl_fft_real.h"
#include "gsl/gsl_fft_halfcomplex.h"
#include "gsl/gsl_integration.h"
#include "gsl/gsl_rng.h"
#include "gsl/gsl_qrng.h"
#include "gsl/gsl_randist.h"
#include "gsl/gsl_cdf.h"
#include "gsl/gsl_statistics_double.h"
#include "gsl/gsl_histogram.h"
#include "gsl/gsl_histogram2d.h"
#include "gsl/gsl_ntuple.h"
#include "gsl/gsl_monte.h"
#include "gsl/gsl_monte_plain.h"
#include "gsl/gsl_monte_miser.h"
#include "gsl/gsl_monte_vegas.h"
#include "gsl/gsl_odeiv.h"
#include "gsl/gsl_odeiv2.h"
#include "gsl/gsl_interp.h"
#include "gsl/gsl_spline.h"
#include "gsl/gsl_diff.h"
#include "gsl/gsl_chebyshev.h"
#include "gsl/gsl_sum.h"
#include "gsl/gsl_roots.h"
#include "gsl/gsl_min.h"
#include "gsl/gsl_fit.h"
#include "fwdpp/forward_types.hpp"
#include "fwdpp/sugar/popgenmut.hpp"
#include "fwdpp/fitness_models.hpp"
#include "fwdpp/fwd_functional.hpp"
#include "fwdpp/debug.hpp"
#include "fwdpp/sugar/generalmut.hpp"
#include "fwdpp/sugar/sampling.hpp"
#include "fwdpp/sugar/change_neutral.hpp"
#include "fwdpp/extensions/callbacks.hpp"
#include "fwdpp/internal/gsl_discrete.hpp"
#include "internal_callbacks.hpp"
#include "internal_region_manager.hpp"
#include <functional>
#include <unordered_set>
#include "sample.hpp"
#include "sampler_selected_mut_tracker.hpp"
#include "sampler_pop_properties.hpp"
#include "sampler_additive_variance.hpp"
#include "allele_ages.hpp"
#include <algorithm>
#include "fwdpy_fitness.hpp"
#include "types.hpp"
#include "sampler_base.hpp"
#include "sampler_no_sampling.hpp"
#include "sampler_sample_n.hpp"
#include "deps.hpp"
#include "evolve_regions_sampler.hpp"
#include "sampling_wrappers.hpp"
#include "fwdpy_add_mutations.hpp"
#include "fwdpp/sugar/matrix.hpp"
#ifdef _OPENMP
#include <omp.h>
#endif /* _OPENMP */

#ifdef PYREX_WITHOUT_ASSERTIONS
#define CYTHON_WITHOUT_ASSERTIONS
#endif

typedef struct {PyObject **p; const char *s; const Py_ssize_t n; const char* encoding;
                const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry;

#define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0
#define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0
#define __PYX_DEFAULT_STRING_ENCODING ""
#define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString
#define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize
#define __Pyx_uchar_cast(c) ((unsigned char)c)
#define __Pyx_long_cast(x) ((long)x)
#define __Pyx_fits_Py_ssize_t(v, type, is_signed)  (\
    (sizeof(type) < sizeof(Py_ssize_t))  ||\
    (sizeof(type) > sizeof(Py_ssize_t) &&\
          likely(v < (type)PY_SSIZE_T_MAX ||\
                 v == (type)PY_SSIZE_T_MAX)  &&\
          (!is_signed || likely(v > (type)PY_SSIZE_T_MIN ||\
                                v == (type)PY_SSIZE_T_MIN)))  ||\
    (sizeof(type) == sizeof(Py_ssize_t) &&\
          (is_signed || likely(v < (type)PY_SSIZE_T_MAX ||\
                               v == (type)PY_SSIZE_T_MAX)))  )
#if defined (__cplusplus) && __cplusplus >= 201103L
    #include <cstdlib>
    #define __Pyx_sst_abs(value) std::abs(value)
#elif SIZEOF_INT >= SIZEOF_SIZE_T
    #define __Pyx_sst_abs(value) abs(value)
#elif SIZEOF_LONG >= SIZEOF_SIZE_T
    #define __Pyx_sst_abs(value) labs(value)
#elif defined (_MSC_VER) && defined (_M_X64)
    #define __Pyx_sst_abs(value) _abs64(value)
#elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L
    #define __Pyx_sst_abs(value) llabs(value)
#elif defined (__GNUC__)
    #define __Pyx_sst_abs(value) __builtin_llabs(value)
#else
    #define __Pyx_sst_abs(value) ((value<0) ? -value : value)
#endif
static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*);
static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length);
#define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s))
#define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l)
#define __Pyx_PyBytes_FromString        PyBytes_FromString
#define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize
static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*);
#if PY_MAJOR_VERSION < 3
    #define __Pyx_PyStr_FromString        __Pyx_PyBytes_FromString
    #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize
#else
    #define __Pyx_PyStr_FromString        __Pyx_PyUnicode_FromString
    #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize
#endif
#define __Pyx_PyObject_AsSString(s)    ((signed char*) __Pyx_PyObject_AsString(s))
#define __Pyx_PyObject_AsUString(s)    ((unsigned char*) __Pyx_PyObject_AsString(s))
#define __Pyx_PyObject_FromCString(s)  __Pyx_PyObject_FromString((const char*)s)
#define __Pyx_PyBytes_FromCString(s)   __Pyx_PyBytes_FromString((const char*)s)
#define __Pyx_PyByteArray_FromCString(s)   __Pyx_PyByteArray_FromString((const char*)s)
#define __Pyx_PyStr_FromCString(s)     __Pyx_PyStr_FromString((const char*)s)
#define __Pyx_PyUnicode_FromCString(s) __Pyx_PyUnicode_FromString((const char*)s)
#if PY_MAJOR_VERSION < 3
static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u)
{
    const Py_UNICODE *u_end = u;
    while (*u_end++) ;
    return (size_t)(u_end - u - 1);
}
#else
#define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen
#endif
#define __Pyx_PyUnicode_FromUnicode(u)       PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u))
#define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode
#define __Pyx_PyUnicode_AsUnicode            PyUnicode_AsUnicode
#define __Pyx_NewRef(obj) (Py_INCREF(obj), obj)
#define __Pyx_Owned_Py_None(b) __Pyx_NewRef(Py_None)
#define __Pyx_PyBool_FromLong(b) ((b) ? __Pyx_NewRef(Py_True) : __Pyx_NewRef(Py_False))
static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*);
static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x);
static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*);
static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t);
#if CYTHON_ASSUME_SAFE_MACROS
#define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x))
#else
#define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x)
#endif
#define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x))
#if PY_MAJOR_VERSION >= 3
#define __Pyx_PyNumber_Int(x) (PyLong_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Long(x))
#else
#define __Pyx_PyNumber_Int(x) (PyInt_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Int(x))
#endif
#define __Pyx_PyNumber_Float(x) (PyFloat_CheckExact(x) ? __Pyx_NewRef(x) : PyNumber_Float(x))
#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII
static int __Pyx_sys_getdefaultencoding_not_ascii;
static int __Pyx_init_sys_getdefaultencoding_params(void) {
    PyObject* sys;
    PyObject* default_encoding = NULL;
    PyObject* ascii_chars_u = NULL;
    PyObject* ascii_chars_b = NULL;
    const char* default_encoding_c;
    sys = PyImport_ImportModule("sys");
    if (!sys) goto bad;
    default_encoding = PyObject_CallMethod(sys, (char*) "getdefaultencoding", NULL);
    Py_DECREF(sys);
    if (!default_encoding) goto bad;
    default_encoding_c = PyBytes_AsString(default_encoding);
    if (!default_encoding_c) goto bad;
    if (strcmp(default_encoding_c, "ascii") == 0) {
        __Pyx_sys_getdefaultencoding_not_ascii = 0;
    } else {
        char ascii_chars[128];
        int c;
        for (c = 0; c < 128; c++) {
            ascii_chars[c] = c;
        }
        __Pyx_sys_getdefaultencoding_not_ascii = 1;
        ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL);
        if (!ascii_chars_u) goto bad;
        ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL);
        if (!ascii_chars_b || !PyBytes_Check(ascii_chars_b) || memcmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) {
            PyErr_Format(
                PyExc_ValueError,
                "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.",
                default_encoding_c);
            goto bad;
        }
        Py_DECREF(ascii_chars_u);
        Py_DECREF(ascii_chars_b);
    }
    Py_DECREF(default_encoding);
    return 0;
bad:
    Py_XDECREF(default_encoding);
    Py_XDECREF(ascii_chars_u);
    Py_XDECREF(ascii_chars_b);
    return -1;
}
#endif
#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3
#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL)
#else
#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL)
#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT
static char* __PYX_DEFAULT_STRING_ENCODING;
static int __Pyx_init_sys_getdefaultencoding_params(void) {
    PyObject* sys;
    PyObject* default_encoding = NULL;
    char* default_encoding_c;
    sys = PyImport_ImportModule("sys");
    if (!sys) goto bad;
    default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL);
    Py_DECREF(sys);
    if (!default_encoding) goto bad;
    default_encoding_c = PyBytes_AsString(default_encoding);
    if (!default_encoding_c) goto bad;
    __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c));
    if (!__PYX_DEFAULT_STRING_ENCODING) goto bad;
    strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c);
    Py_DECREF(default_encoding);
    return 0;
bad:
    Py_XDECREF(default_encoding);
    return -1;
}
#endif
#endif


/* Test for GCC > 2.95 */
#if defined(__GNUC__)     && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95)))
  #define likely(x)   __builtin_expect(!!(x), 1)
  #define unlikely(x) __builtin_expect(!!(x), 0)
#else /* !__GNUC__ or GCC < 2.95 */
  #define likely(x)   (x)
  #define unlikely(x) (x)
#endif /* __GNUC__ */

static PyObject *__pyx_m;
static PyObject *__pyx_d;
static PyObject *__pyx_b;
static PyObject *__pyx_empty_tuple;
static PyObject *__pyx_empty_bytes;
static PyObject *__pyx_empty_unicode;
static int __pyx_lineno;
static int __pyx_clineno = 0;
static const char * __pyx_cfilenm= __FILE__;
static const char *__pyx_filename;


static const char *__pyx_f[] = {
  "fwdpy/matrix.pyx",
  "fwdpy/matrix.pxd",
  "stringsource",
  "fwdpy/internal/internal.pxd",
  "fwdpy/fitness.pxd",
  "fwdpy/fwdpy.pxd",
};

/* "cython_gsl/gsl_blas_types.pxd":23
 *     CblasRight=142
 * 
 * ctypedef size_t CBLAS_INDEX             # <<<<<<<<<<<<<<
 * 
 * cdef extern from "gsl/gsl_blas_types.h":
 */
typedef size_t __pyx_t_10cython_gsl_14gsl_blas_types_CBLAS_INDEX;

/* "../../.local/lib/python2.7/site-packages/cython_gsl/__init__.pxd":23
 *   GSL_SUCCESS = 0
 * 
 * ctypedef int size_t             # <<<<<<<<<<<<<<
 * from cython_gsl.gsl_mode cimport *
 * from cython_gsl.gsl_math cimport *
 */
typedef int __pyx_t_10cython_gsl_size_t;

/* "fwdpy.pxd":376
 *     freqTraj merge_trajectories_details( const freqTraj & traj1, const freqTraj & traj2 )
 * 
 * ctypedef unsigned uint             # <<<<<<<<<<<<<<
 * cdef extern from "evolve_regions_sampler.hpp" namespace "fwdpy" nogil:
 *     void evolve_regions_sampler_cpp( GSLrng_t * rng,
 */
typedef unsigned int __pyx_t_5fwdpy_5fwdpy_uint;

/*--- Type declarations ---*/
struct __pyx_obj_5fwdpy_8internal_8internal_shwrappervec;
struct __pyx_obj_5fwdpy_8internal_8internal_region_manager_wrapper;
struct __pyx_obj_5fwdpy_7fitness_SpopFitness;
struct __pyx_obj_5fwdpy_7fitness_SpopAdditive;
struct __pyx_obj_5fwdpy_7fitness_SpopMult;
struct __pyx_obj_5fwdpy_7fitness_MlocusFitness;
struct __pyx_obj_5fwdpy_7fitness_MlocusAdditive;
struct __pyx_obj_5fwdpy_7fitness_MlocusMult;
struct __pyx_obj_5fwdpy_5fwdpy_PopType;
struct __pyx_obj_5fwdpy_5fwdpy_Spop;
struct __pyx_obj_5fwdpy_5fwdpy_MetaPop;
struct __pyx_obj_5fwdpy_5fwdpy_MlocusPop;
struct __pyx_obj_5fwdpy_5fwdpy_SpopGenMut;
struct __pyx_obj_5fwdpy_5fwdpy_PopVec;
struct __pyx_obj_5fwdpy_5fwdpy_SpopVec;
struct __pyx_obj_5fwdpy_5fwdpy_SpopGenMutVec;
struct __pyx_obj_5fwdpy_5fwdpy_MetaPopVec;
struct __pyx_obj_5fwdpy_5fwdpy_MlocusPopVec;
struct __pyx_obj_5fwdpy_5fwdpy_GSLrng;
struct __pyx_obj_5fwdpy_5fwdpy_TemporalSampler;
struct __pyx_obj_5fwdpy_5fwdpy_NothingSampler;
struct __pyx_obj_5fwdpy_5fwdpy_QtraitStatsSampler;
struct __pyx_obj_5fwdpy_5fwdpy_PopSampler;
struct __pyx_obj_5fwdpy_5fwdpy_VASampler;
struct __pyx_obj_5fwdpy_5fwdpy_FreqSampler;
struct __pyx_obj_5fwdpy_6matrix_DataMatrix;
struct __pyx_obj_5fwdpy_6matrix_GenotypeMatrix;
struct __pyx_obj_5fwdpy_6matrix_HaplotypeMatrix;

/* "../../.local/lib/python2.7/site-packages/cython_gsl/__init__.pxd":20
 * from libc.stdio cimport *
 * 
 * cdef enum:             # <<<<<<<<<<<<<<
 *   GSL_SUCCESS = 0
 * 
 */
enum  {
  __pyx_e_10cython_gsl_GSL_SUCCESS = 0
};

/* "fwdpy/fitness.pxd":10
 *     T max[T](T,T)
 * 
 * ctypedef gamete_base[void] gamete_t             # <<<<<<<<<<<<<<
 * ctypedef vector[gamete_t] gcont_t
 * ctypedef vector[popgenmut] mcont_t
 */
typedef KTfwd::gamete_base<void>  __pyx_t_5fwdpy_7fitness_gamete_t;

/* "fwdpy/fitness.pxd":11
 * 
 * ctypedef gamete_base[void] gamete_t
 * ctypedef vector[gamete_t] gcont_t             # <<<<<<<<<<<<<<
 * ctypedef vector[popgenmut] mcont_t
 * 
 */
typedef std::vector<__pyx_t_5fwdpy_7fitness_gamete_t>  __pyx_t_5fwdpy_7fitness_gcont_t;

/* "fwdpy/fitness.pxd":12
 * ctypedef gamete_base[void] gamete_t
 * ctypedef vector[gamete_t] gcont_t
 * ctypedef vector[popgenmut] mcont_t             # <<<<<<<<<<<<<<
 * 
 * cdef extern from "fwdpy_fitness.hpp" namespace "fwdpy" nogil:
 */
typedef std::vector<KTfwd::popgenmut>  __pyx_t_5fwdpy_7fitness_mcont_t;
struct __pyx_t_5fwdpy_5fwdpy_popgen_mut_data;
struct __pyx_t_5fwdpy_5fwdpy_gamete_data;
struct __pyx_t_5fwdpy_5fwdpy_diploid_data;
struct __pyx_t_5fwdpy_5fwdpy_diploid_mloc_data;

/* "fwdpy.pxd":17
 * 
 * ##Create hooks to C++ types
 * ctypedef vector[unsigned] ucont_t             # <<<<<<<<<<<<<<
 * 
 * #Wrap the classes:
 */
typedef std::vector<unsigned int>  __pyx_t_5fwdpy_5fwdpy_ucont_t;

/* "fwdpy.pxd":263
 *         vector[VAcum] final()
 * 
 * ctypedef vector[pair[sep_sample_t,popsample_details]] popSampleData             # <<<<<<<<<<<<<<
 * 
 * cdef extern from "sampler_sample_n.hpp" namespace "fwdpy" nogil:
 */
typedef std::vector<std::pair<KTfwd::sep_sample_t,struct fwdpy::popsample_details> >  __pyx_t_5fwdpy_5fwdpy_popSampleData;

/* "fwdpy.pxd":276
 * #The following typedefs help us with the
 * #frequency tracker API.
 * ctypedef pair[uint,double] genfreqPair             # <<<<<<<<<<<<<<
 * ctypedef vector[pair[selected_mut_data,vector[genfreqPair]]] freqTraj
 * 
 */
typedef std::pair<unsigned int,double>  __pyx_t_5fwdpy_5fwdpy_genfreqPair;

/* "fwdpy.pxd":277
 * #frequency tracker API.
 * ctypedef pair[uint,double] genfreqPair
 * ctypedef vector[pair[selected_mut_data,vector[genfreqPair]]] freqTraj             # <<<<<<<<<<<<<<
 * 
 * cdef extern from "sampler_selected_mut_tracker.hpp" namespace "fwdpy" nogil:
 */
typedef std::vector<std::pair<struct fwdpy::selected_mut_data,std::vector<__pyx_t_5fwdpy_5fwdpy_genfreqPair> > >  __pyx_t_5fwdpy_5fwdpy_freqTraj;

/* "fwdpy.pxd":313
 * 
 * #Typedefs for convenience
 * ctypedef vector[popgenmut].iterator mcont_t_itr             # <<<<<<<<<<<<<<
 * ctypedef vector[mcont_t_itr] mut_container_t
 * ctypedef vector[gamete_t].iterator gcont_t_itr
 */
typedef std::vector<KTfwd::popgenmut> ::iterator __pyx_t_5fwdpy_5fwdpy_mcont_t_itr;

/* "fwdpy.pxd":314
 * #Typedefs for convenience
 * ctypedef vector[popgenmut].iterator mcont_t_itr
 * ctypedef vector[mcont_t_itr] mut_container_t             # <<<<<<<<<<<<<<
 * ctypedef vector[gamete_t].iterator gcont_t_itr
 * ctypedef vector[diploid_t].iterator dipvector_t_itr
 */
typedef std::vector<__pyx_t_5fwdpy_5fwdpy_mcont_t_itr>  __pyx_t_5fwdpy_5fwdpy_mut_container_t;

/* "fwdpy.pxd":315
 * ctypedef vector[popgenmut].iterator mcont_t_itr
 * ctypedef vector[mcont_t_itr] mut_container_t
 * ctypedef vector[gamete_t].iterator gcont_t_itr             # <<<<<<<<<<<<<<
 * ctypedef vector[diploid_t].iterator dipvector_t_itr
 * #vector of mutation counts (replaces KTfwd::mutation_base::n in fwdpp >= 0.4.4)
 */
typedef std::vector<fwdpy::gamete_t> ::iterator __pyx_t_5fwdpy_5fwdpy_gcont_t_itr;

/* "fwdpy.pxd":316
 * ctypedef vector[mcont_t_itr] mut_container_t
 * ctypedef vector[gamete_t].iterator gcont_t_itr
 * ctypedef vector[diploid_t].iterator dipvector_t_itr             # <<<<<<<<<<<<<<
 * #vector of mutation counts (replaces KTfwd::mutation_base::n in fwdpp >= 0.4.4)
 * ctypedef ucont_t mcounts_cont_t
 */
typedef std::vector<fwdpy::diploid_t> ::iterator __pyx_t_5fwdpy_5fwdpy_dipvector_t_itr;

/* "fwdpy.pxd":318
 * ctypedef vector[diploid_t].iterator dipvector_t_itr
 * #vector of mutation counts (replaces KTfwd::mutation_base::n in fwdpp >= 0.4.4)
 * ctypedef ucont_t mcounts_cont_t             # <<<<<<<<<<<<<<
 * 
 * ##Define some low-level functions that may be useful for others
 */
typedef __pyx_t_5fwdpy_5fwdpy_ucont_t __pyx_t_5fwdpy_5fwdpy_mcounts_cont_t;

/* "fwdpy.pxd":321
 * 
 * ##Define some low-level functions that may be useful for others
 * cdef struct popgen_mut_data:             # <<<<<<<<<<<<<<
 *     double pos,s,h
 *     unsigned n,g,ftime
 */
struct __pyx_t_5fwdpy_5fwdpy_popgen_mut_data {
  double pos;
  double s;
  double h;
  unsigned int n;
  unsigned int g;
  unsigned int ftime;
  int neutral;
  uint16_t label;
};

/* "fwdpy.pxd":327
 *     uint16_t label
 * 
 * cdef struct gamete_data:             # <<<<<<<<<<<<<<
 *     vector[popgen_mut_data] neutral,selected
 *     unsigned n
 */
struct __pyx_t_5fwdpy_5fwdpy_gamete_data {
  std::vector<struct __pyx_t_5fwdpy_5fwdpy_popgen_mut_data>  neutral;
  std::vector<struct __pyx_t_5fwdpy_5fwdpy_popgen_mut_data>  selected;
  unsigned int n;
};

/* "fwdpy.pxd":331
 *     unsigned n
 * 
 * cdef struct diploid_data:             # <<<<<<<<<<<<<<
 *     gamete_data chrom0,chrom1
 *     double g,e,w,sh0,sh1
 */
struct __pyx_t_5fwdpy_5fwdpy_diploid_data {
  struct __pyx_t_5fwdpy_5fwdpy_gamete_data chrom0;
  struct __pyx_t_5fwdpy_5fwdpy_gamete_data chrom1;
  double g;
  double e;
  double w;
  double sh0;
  double sh1;
  int n0;
  int n1;
};

/* "fwdpy.pxd":336
 *     int n0,n1
 * 
 * cdef struct diploid_mloc_data:             # <<<<<<<<<<<<<<
 *     vector[gamete_data] chrom0,chrom1
 *     double g,e,w
 */
struct __pyx_t_5fwdpy_5fwdpy_diploid_mloc_data {
  std::vector<struct __pyx_t_5fwdpy_5fwdpy_gamete_data>  chrom0;
  std::vector<struct __pyx_t_5fwdpy_5fwdpy_gamete_data>  chrom1;
  double g;
  double e;
  double w;
  std::vector<double>  sh0;
  std::vector<double>  sh1;
  std::vector<int>  n0;
  std::vector<int>  n1;
};

/* "fwdpy/matrix.pxd":52
 *     pass
 * 
 * ctypedef pair[vector[pair[size_t,uint]],vector[pair[size_t,uint]]] key_pair             # <<<<<<<<<<<<<<
 * 
 * #Uses some python list tricks, and hence nogil
 */
typedef std::pair<std::vector<std::pair<size_t,unsigned int> > ,std::vector<std::pair<size_t,unsigned int> > >  __pyx_t_5fwdpy_6matrix_key_pair;

/* "fwdpy/internal/internal.pxd":7
 * 
 * ##These are the callback wrappers from fwdpp
 * cdef class shwrappervec:             # <<<<<<<<<<<<<<
 *     """
 *     Wrapper for a vector of callback objects from fwdpp's extension library.
 */
struct __pyx_obj_5fwdpy_8internal_8internal_shwrappervec {
  PyObject_HEAD
  std::vector<KTfwd::extensions::shmodel>  vec;
};


/* "fwdpy/internal/internal.pxd":17
 * 
 * ##Quick wrapper for region_manager
 * cdef class region_manager_wrapper:             # <<<<<<<<<<<<<<
 *     cdef region_manager * thisptr
 * 
 */
struct __pyx_obj_5fwdpy_8internal_8internal_region_manager_wrapper {
  PyObject_HEAD
  fwdpy::internal::region_manager *thisptr;
};


/* "fwdpy/fitness.pxd":108
 *     return rv
 * 
 * cdef class SpopFitness(object):             # <<<<<<<<<<<<<<
 *     """
 *     Base object for single-deme fitness functions
 */
struct __pyx_obj_5fwdpy_7fitness_SpopFitness {
  PyObject_HEAD
  std::unique_ptr<fwdpy::singlepop_fitness>  wfxn;
};


/* "fwdpy/fitness.pxd":114
 *     cdef unique_ptr[singlepop_fitness] wfxn
 * 
 * cdef class SpopAdditive(SpopFitness):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */
struct __pyx_obj_5fwdpy_7fitness_SpopAdditive {
  struct __pyx_obj_5fwdpy_7fitness_SpopFitness __pyx_base;
};


/* "fwdpy/fitness.pxd":117
 *     pass
 * 
 * cdef class SpopMult(SpopFitness):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */
struct __pyx_obj_5fwdpy_7fitness_SpopMult {
  struct __pyx_obj_5fwdpy_7fitness_SpopFitness __pyx_base;
};


/* "fwdpy/fitness.pxd":120
 *     pass
 * 
 * cdef class MlocusFitness(object):             # <<<<<<<<<<<<<<
 *     """
 *     Base object for multi-locus fitness functions
 */
struct __pyx_obj_5fwdpy_7fitness_MlocusFitness {
  PyObject_HEAD
  fwdpy::multilocus_fitness wfxn;
};


/* "fwdpy/fitness.pxd":126
 *     cdef multilocus_fitness wfxn
 * 
 * cdef class MlocusAdditive(MlocusFitness):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */
struct __pyx_obj_5fwdpy_7fitness_MlocusAdditive {
  struct __pyx_obj_5fwdpy_7fitness_MlocusFitness __pyx_base;
};


/* "fwdpy/fitness.pxd":129
 *     pass
 * 
 * cdef class MlocusMult(MlocusFitness):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */
struct __pyx_obj_5fwdpy_7fitness_MlocusMult {
  struct __pyx_obj_5fwdpy_7fitness_MlocusFitness __pyx_base;
};


/* "fwdpy.pxd":124
 * 
 * #Now, provide definitions for classes in classes.pyx
 * cdef class PopType(object):             # <<<<<<<<<<<<<<
 *     """
 *     Empty base class for a population object.
 */
struct __pyx_obj_5fwdpy_5fwdpy_PopType {
  PyObject_HEAD
};


/* "fwdpy.pxd":132
 *     pass
 * 
 * cdef class Spop(PopType):             # <<<<<<<<<<<<<<
 *     cdef shared_ptr[singlepop_t] pop
 *     cpdef gen(self)
 */
struct __pyx_obj_5fwdpy_5fwdpy_Spop {
  struct __pyx_obj_5fwdpy_5fwdpy_PopType __pyx_base;
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_Spop *__pyx_vtab;
  std::shared_ptr<fwdpy::singlepop_t>  pop;
};


/* "fwdpy.pxd":138
 *     cpdef sane(self)
 * 
 * cdef class MetaPop(PopType):             # <<<<<<<<<<<<<<
 *     cdef shared_ptr[metapop_t] mpop
 *     cpdef gen(self)
 */
struct __pyx_obj_5fwdpy_5fwdpy_MetaPop {
  struct __pyx_obj_5fwdpy_5fwdpy_PopType __pyx_base;
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_MetaPop *__pyx_vtab;
  std::shared_ptr<fwdpy::metapop_t>  mpop;
};


/* "fwdpy.pxd":145
 *     cpdef from_Spop(self,Spop p)
 * 
 * cdef class MlocusPop(PopType):             # <<<<<<<<<<<<<<
 *     cdef shared_ptr[multilocus_t] pop
 *     cpdef gen(self)
 */
struct __pyx_obj_5fwdpy_5fwdpy_MlocusPop {
  struct __pyx_obj_5fwdpy_5fwdpy_PopType __pyx_base;
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_MlocusPop *__pyx_vtab;
  std::shared_ptr<fwdpy::multilocus_t>  pop;
};


/* "fwdpy.pxd":151
 *     cpdef sane(self)
 * 
 * cdef class SpopGenMut(PopType):             # <<<<<<<<<<<<<<
 *     cdef shared_ptr[singlepop_gm_vec_t] pop
 *     cpdef gen(self)
 */
struct __pyx_obj_5fwdpy_5fwdpy_SpopGenMut {
  struct __pyx_obj_5fwdpy_5fwdpy_PopType __pyx_base;
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_SpopGenMut *__pyx_vtab;
  std::shared_ptr<fwdpy::singlepop_gm_vec_t>  pop;
};


/* "fwdpy.pxd":157
 *     cpdef sane(self)
 * 
 * cdef class PopVec(object):             # <<<<<<<<<<<<<<
 *     """
 *     Empty base class for containers of population objects.
 */
struct __pyx_obj_5fwdpy_5fwdpy_PopVec {
  PyObject_HEAD
};


/* "fwdpy.pxd":165
 *     pass
 * 
 * cdef class SpopVec(PopVec):             # <<<<<<<<<<<<<<
 *     cdef vector[shared_ptr[singlepop_t]] pops
 *     cpdef size(self)
 */
struct __pyx_obj_5fwdpy_5fwdpy_SpopVec {
  struct __pyx_obj_5fwdpy_5fwdpy_PopVec __pyx_base;
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_SpopVec *__pyx_vtab;
  std::vector<std::shared_ptr<fwdpy::singlepop_t> >  pops;
};


/* "fwdpy.pxd":171
 *     cpdef append(self,SpopVec p)
 * 
 * cdef class SpopGenMutVec(PopVec):             # <<<<<<<<<<<<<<
 *     cdef vector[shared_ptr[singlepop_gm_vec_t]] pops
 *     cpdef size(self)
 */
struct __pyx_obj_5fwdpy_5fwdpy_SpopGenMutVec {
  struct __pyx_obj_5fwdpy_5fwdpy_PopVec __pyx_base;
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_SpopGenMutVec *__pyx_vtab;
  std::vector<std::shared_ptr<fwdpy::singlepop_gm_vec_t> >  pops;
};


/* "fwdpy.pxd":176
 *     cdef reset(self,const vector[shared_ptr[singlepop_gm_vec_t]] newpops)
 * 
 * cdef class MetaPopVec(PopVec):             # <<<<<<<<<<<<<<
 *     cdef vector[shared_ptr[metapop_t]] mpops
 *     cpdef size(self)
 */
struct __pyx_obj_5fwdpy_5fwdpy_MetaPopVec {
  struct __pyx_obj_5fwdpy_5fwdpy_PopVec __pyx_base;
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_MetaPopVec *__pyx_vtab;
  std::vector<std::shared_ptr<fwdpy::metapop_t> >  mpops;
};


/* "fwdpy.pxd":182
 *     cpdef append(self,MetaPopVec p)
 * 
 * cdef class MlocusPopVec(PopVec):             # <<<<<<<<<<<<<<
 *     cdef vector[shared_ptr[multilocus_t]] pops
 *     cpdef size(self)
 */
struct __pyx_obj_5fwdpy_5fwdpy_MlocusPopVec {
  struct __pyx_obj_5fwdpy_5fwdpy_PopVec __pyx_base;
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_MlocusPopVec *__pyx_vtab;
  std::vector<std::shared_ptr<fwdpy::multilocus_t> >  pops;
};


/* "fwdpy.pxd":189
 * 
 * 
 * cdef class GSLrng:             # <<<<<<<<<<<<<<
 *     cdef GSLrng_t * thisptr
 * 
 */
struct __pyx_obj_5fwdpy_5fwdpy_GSLrng {
  PyObject_HEAD
  fwdpy::GSLrng_t *thisptr;
};


/* "fwdpy.pxd":285
 * 
 * #Extension classes for temporal sampling
 * cdef class TemporalSampler:             # <<<<<<<<<<<<<<
 *     """
 *     Base class representing containers of functions
 */
struct __pyx_obj_5fwdpy_5fwdpy_TemporalSampler {
  PyObject_HEAD
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_TemporalSampler *__pyx_vtab;
  std::vector<std::unique_ptr<fwdpy::sampler_base> >  vec;
};


/* "fwdpy.pxd":293
 *     cpdef size_t size(self)
 * 
 * cdef class NothingSampler(TemporalSampler):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */
struct __pyx_obj_5fwdpy_5fwdpy_NothingSampler {
  struct __pyx_obj_5fwdpy_5fwdpy_TemporalSampler __pyx_base;
};


/* "fwdpy.pxd":296
 *     pass
 * 
 * cdef class QtraitStatsSampler(TemporalSampler):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */
struct __pyx_obj_5fwdpy_5fwdpy_QtraitStatsSampler {
  struct __pyx_obj_5fwdpy_5fwdpy_TemporalSampler __pyx_base;
};


/* "fwdpy.pxd":299
 *     pass
 * 
 * cdef class PopSampler(TemporalSampler):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */
struct __pyx_obj_5fwdpy_5fwdpy_PopSampler {
  struct __pyx_obj_5fwdpy_5fwdpy_TemporalSampler __pyx_base;
};


/* "fwdpy.pxd":302
 *     pass
 * 
 * cdef class VASampler(TemporalSampler):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */
struct __pyx_obj_5fwdpy_5fwdpy_VASampler {
  struct __pyx_obj_5fwdpy_5fwdpy_TemporalSampler __pyx_base;
};


/* "fwdpy.pxd":305
 *     pass
 * 
 * cdef class FreqSampler(TemporalSampler):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */
struct __pyx_obj_5fwdpy_5fwdpy_FreqSampler {
  struct __pyx_obj_5fwdpy_5fwdpy_TemporalSampler __pyx_base;
};


/* "fwdpy/matrix.pxd":26
 *             const vector[pair[size_t,uint]] & selected_keys, const size_t deme) except +
 * 
 * cdef class DataMatrix(object):             # <<<<<<<<<<<<<<
 *     cdef readonly object neutral
 *     """Data for neutral positions"""
 */
struct __pyx_obj_5fwdpy_6matrix_DataMatrix {
  PyObject_HEAD
  PyObject *neutral;
  PyObject *selected;
  PyObject *neutral_positions;
  PyObject *selected_positions;
  PyObject *neutral_popfreq;
  PyObject *selected_popfreq;
  int nrow;
  int nn;
  int ns;
};


/* "fwdpy/matrix.pxd":46
 *     """Number of selected nutations"""
 * 
 * cdef class GenotypeMatrix(DataMatrix):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */
struct __pyx_obj_5fwdpy_6matrix_GenotypeMatrix {
  struct __pyx_obj_5fwdpy_6matrix_DataMatrix __pyx_base;
};


/* "fwdpy/matrix.pxd":49
 *     pass
 * 
 * cdef class HaplotypeMatrix(DataMatrix):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */
struct __pyx_obj_5fwdpy_6matrix_HaplotypeMatrix {
  struct __pyx_obj_5fwdpy_6matrix_DataMatrix __pyx_base;
};



/* "fwdpy.pxd":132
 *     pass
 * 
 * cdef class Spop(PopType):             # <<<<<<<<<<<<<<
 *     cdef shared_ptr[singlepop_t] pop
 *     cpdef gen(self)
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_Spop {
  PyObject *(*gen)(struct __pyx_obj_5fwdpy_5fwdpy_Spop *, int __pyx_skip_dispatch);
  PyObject *(*popsize)(struct __pyx_obj_5fwdpy_5fwdpy_Spop *, int __pyx_skip_dispatch);
  PyObject *(*sane)(struct __pyx_obj_5fwdpy_5fwdpy_Spop *, int __pyx_skip_dispatch);
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_Spop *__pyx_vtabptr_5fwdpy_5fwdpy_Spop;


/* "fwdpy.pxd":138
 *     cpdef sane(self)
 * 
 * cdef class MetaPop(PopType):             # <<<<<<<<<<<<<<
 *     cdef shared_ptr[metapop_t] mpop
 *     cpdef gen(self)
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_MetaPop {
  PyObject *(*gen)(struct __pyx_obj_5fwdpy_5fwdpy_MetaPop *, int __pyx_skip_dispatch);
  PyObject *(*popsizes)(struct __pyx_obj_5fwdpy_5fwdpy_MetaPop *, int __pyx_skip_dispatch);
  PyObject *(*sane)(struct __pyx_obj_5fwdpy_5fwdpy_MetaPop *, int __pyx_skip_dispatch);
  PyObject *(*from_Spop)(struct __pyx_obj_5fwdpy_5fwdpy_MetaPop *, struct __pyx_obj_5fwdpy_5fwdpy_Spop *, int __pyx_skip_dispatch);
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_MetaPop *__pyx_vtabptr_5fwdpy_5fwdpy_MetaPop;


/* "fwdpy.pxd":145
 *     cpdef from_Spop(self,Spop p)
 * 
 * cdef class MlocusPop(PopType):             # <<<<<<<<<<<<<<
 *     cdef shared_ptr[multilocus_t] pop
 *     cpdef gen(self)
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_MlocusPop {
  PyObject *(*gen)(struct __pyx_obj_5fwdpy_5fwdpy_MlocusPop *, int __pyx_skip_dispatch);
  PyObject *(*popsize)(struct __pyx_obj_5fwdpy_5fwdpy_MlocusPop *, int __pyx_skip_dispatch);
  PyObject *(*sane)(struct __pyx_obj_5fwdpy_5fwdpy_MlocusPop *, int __pyx_skip_dispatch);
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_MlocusPop *__pyx_vtabptr_5fwdpy_5fwdpy_MlocusPop;


/* "fwdpy.pxd":151
 *     cpdef sane(self)
 * 
 * cdef class SpopGenMut(PopType):             # <<<<<<<<<<<<<<
 *     cdef shared_ptr[singlepop_gm_vec_t] pop
 *     cpdef gen(self)
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_SpopGenMut {
  PyObject *(*gen)(struct __pyx_obj_5fwdpy_5fwdpy_SpopGenMut *, int __pyx_skip_dispatch);
  PyObject *(*popsize)(struct __pyx_obj_5fwdpy_5fwdpy_SpopGenMut *, int __pyx_skip_dispatch);
  PyObject *(*sane)(struct __pyx_obj_5fwdpy_5fwdpy_SpopGenMut *, int __pyx_skip_dispatch);
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_SpopGenMut *__pyx_vtabptr_5fwdpy_5fwdpy_SpopGenMut;


/* "fwdpy.pxd":165
 *     pass
 * 
 * cdef class SpopVec(PopVec):             # <<<<<<<<<<<<<<
 *     cdef vector[shared_ptr[singlepop_t]] pops
 *     cpdef size(self)
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_SpopVec {
  PyObject *(*size)(struct __pyx_obj_5fwdpy_5fwdpy_SpopVec *, int __pyx_skip_dispatch);
  PyObject *(*reset)(struct __pyx_obj_5fwdpy_5fwdpy_SpopVec *, std::vector<std::shared_ptr<fwdpy::singlepop_t> >  const );
  PyObject *(*append)(struct __pyx_obj_5fwdpy_5fwdpy_SpopVec *, struct __pyx_obj_5fwdpy_5fwdpy_SpopVec *, int __pyx_skip_dispatch);
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_SpopVec *__pyx_vtabptr_5fwdpy_5fwdpy_SpopVec;


/* "fwdpy.pxd":171
 *     cpdef append(self,SpopVec p)
 * 
 * cdef class SpopGenMutVec(PopVec):             # <<<<<<<<<<<<<<
 *     cdef vector[shared_ptr[singlepop_gm_vec_t]] pops
 *     cpdef size(self)
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_SpopGenMutVec {
  PyObject *(*size)(struct __pyx_obj_5fwdpy_5fwdpy_SpopGenMutVec *, int __pyx_skip_dispatch);
  PyObject *(*reset)(struct __pyx_obj_5fwdpy_5fwdpy_SpopGenMutVec *, std::vector<std::shared_ptr<fwdpy::singlepop_gm_vec_t> >  const );
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_SpopGenMutVec *__pyx_vtabptr_5fwdpy_5fwdpy_SpopGenMutVec;


/* "fwdpy.pxd":176
 *     cdef reset(self,const vector[shared_ptr[singlepop_gm_vec_t]] newpops)
 * 
 * cdef class MetaPopVec(PopVec):             # <<<<<<<<<<<<<<
 *     cdef vector[shared_ptr[metapop_t]] mpops
 *     cpdef size(self)
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_MetaPopVec {
  PyObject *(*size)(struct __pyx_obj_5fwdpy_5fwdpy_MetaPopVec *, int __pyx_skip_dispatch);
  PyObject *(*reset)(struct __pyx_obj_5fwdpy_5fwdpy_MetaPopVec *, std::vector<std::shared_ptr<fwdpy::metapop_t> >  const &);
  PyObject *(*append)(struct __pyx_obj_5fwdpy_5fwdpy_MetaPopVec *, struct __pyx_obj_5fwdpy_5fwdpy_MetaPopVec *, int __pyx_skip_dispatch);
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_MetaPopVec *__pyx_vtabptr_5fwdpy_5fwdpy_MetaPopVec;


/* "fwdpy.pxd":182
 *     cpdef append(self,MetaPopVec p)
 * 
 * cdef class MlocusPopVec(PopVec):             # <<<<<<<<<<<<<<
 *     cdef vector[shared_ptr[multilocus_t]] pops
 *     cpdef size(self)
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_MlocusPopVec {
  PyObject *(*size)(struct __pyx_obj_5fwdpy_5fwdpy_MlocusPopVec *, int __pyx_skip_dispatch);
  PyObject *(*reset)(struct __pyx_obj_5fwdpy_5fwdpy_MlocusPopVec *, std::vector<std::shared_ptr<fwdpy::multilocus_t> >  const );
  PyObject *(*append)(struct __pyx_obj_5fwdpy_5fwdpy_MlocusPopVec *, struct __pyx_obj_5fwdpy_5fwdpy_MlocusPopVec *, int __pyx_skip_dispatch);
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_MlocusPopVec *__pyx_vtabptr_5fwdpy_5fwdpy_MlocusPopVec;


/* "fwdpy.pxd":285
 * 
 * #Extension classes for temporal sampling
 * cdef class TemporalSampler:             # <<<<<<<<<<<<<<
 *     """
 *     Base class representing containers of functions
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_TemporalSampler {
  size_t (*size)(struct __pyx_obj_5fwdpy_5fwdpy_TemporalSampler *, int __pyx_skip_dispatch);
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_TemporalSampler *__pyx_vtabptr_5fwdpy_5fwdpy_TemporalSampler;


/* "fwdpy.pxd":293
 *     cpdef size_t size(self)
 * 
 * cdef class NothingSampler(TemporalSampler):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_NothingSampler {
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_TemporalSampler __pyx_base;
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_NothingSampler *__pyx_vtabptr_5fwdpy_5fwdpy_NothingSampler;


/* "fwdpy.pxd":296
 *     pass
 * 
 * cdef class QtraitStatsSampler(TemporalSampler):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_QtraitStatsSampler {
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_TemporalSampler __pyx_base;
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_QtraitStatsSampler *__pyx_vtabptr_5fwdpy_5fwdpy_QtraitStatsSampler;


/* "fwdpy.pxd":299
 *     pass
 * 
 * cdef class PopSampler(TemporalSampler):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_PopSampler {
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_TemporalSampler __pyx_base;
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_PopSampler *__pyx_vtabptr_5fwdpy_5fwdpy_PopSampler;


/* "fwdpy.pxd":302
 *     pass
 * 
 * cdef class VASampler(TemporalSampler):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_VASampler {
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_TemporalSampler __pyx_base;
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_VASampler *__pyx_vtabptr_5fwdpy_5fwdpy_VASampler;


/* "fwdpy.pxd":305
 *     pass
 * 
 * cdef class FreqSampler(TemporalSampler):             # <<<<<<<<<<<<<<
 *     pass
 * 
 */

struct __pyx_vtabstruct_5fwdpy_5fwdpy_FreqSampler {
  struct __pyx_vtabstruct_5fwdpy_5fwdpy_TemporalSampler __pyx_base;
};
static struct __pyx_vtabstruct_5fwdpy_5fwdpy_FreqSampler *__pyx_vtabptr_5fwdpy_5fwdpy_FreqSampler;

/* --- Runtime support code (head) --- */
/* Refnanny.proto */
#ifndef CYTHON_REFNANNY
  #define CYTHON_REFNANNY 0
#endif
#if CYTHON_REFNANNY
  typedef struct {
    void (*INCREF)(void*, PyObject*, int);
    void (*DECREF)(void*, PyObject*, int);
    void (*GOTREF)(void*, PyObject*, int);
    void (*GIVEREF)(void*, PyObject*, int);
    void* (*SetupContext)(const char*, int, const char*);
    void (*FinishContext)(void**);
  } __Pyx_RefNannyAPIStruct;
  static __Pyx_RefNannyAPIStruct *__Pyx_RefNanny = NULL;
  static __Pyx_RefNannyAPIStruct *__Pyx_RefNannyImportAPI(const char *modname);
  #define __Pyx_RefNannyDeclarations void *__pyx_refnanny = NULL;
#ifdef WITH_THREAD
  #define __Pyx_RefNannySetupContext(name, acquire_gil)\
          if (acquire_gil) {\
              PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure();\
              __pyx_refnanny = __Pyx_RefNanny->SetupContext((name), __LINE__, __FILE__);\
              PyGILState_Release(__pyx_gilstate_save);\
          } else {\
              __pyx_refnanny = __Pyx_RefNanny->SetupContext((name), __LINE__, __FILE__);\
          }
#else
  #define __Pyx_RefNannySetupContext(name, acquire_gil)\
          __pyx_refnanny = __Pyx_RefNanny->SetupContext((name), __LINE__, __FILE__)
#endif
  #define __Pyx_RefNannyFinishContext()\
          __Pyx_RefNanny->FinishContext(&__pyx_refnanny)
  #define __Pyx_INCREF(r)  __Pyx_RefNanny->INCREF(__pyx_refnanny, (PyObject *)(r), __LINE__)
  #define __Pyx_DECREF(r)  __Pyx_RefNanny->DECREF(__pyx_refnanny, (PyObject *)(r), __LINE__)
  #define __Pyx_GOTREF(r)  __Pyx_RefNanny->GOTREF(__pyx_refnanny, (PyObject *)(r), __LINE__)
  #define __Pyx_GIVEREF(r) __Pyx_RefNanny->GIVEREF(__pyx_refnanny, (PyObject *)(r), __LINE__)
  #define __Pyx_XINCREF(r)  do { if((r) != NULL) {__Pyx_INCREF(r); }} while(0)
  #define __Pyx_XDECREF(r)  do { if((r) != NULL) {__Pyx_DECREF(r); }} while(0)
  #define __Pyx_XGOTREF(r)  do { if((r) != NULL) {__Pyx_GOTREF(r); }} while(0)
  #define __Pyx_XGIVEREF(r) do { if((r) != NULL) {__Pyx_GIVEREF(r);}} while(0)
#else
  #define __Pyx_RefNannyDeclarations
  #define __Pyx_RefNannySetupContext(name, acquire_gil)
  #define __Pyx_RefNannyFinishContext()
  #define __Pyx_INCREF(r) Py_INCREF(r)
  #define __Pyx_DECREF(r) Py_DECREF(r)
  #define __Pyx_GOTREF(r)
  #define __Pyx_GIVEREF(r)
  #define __Pyx_XINCREF(r) Py_XINCREF(r)
  #define __Pyx_XDECREF(r) Py_XDECREF(r)
  #define __Pyx_XGOTREF(r)
  #define __Pyx_XGIVEREF(r)
#endif
#define __Pyx_XDECREF_SET(r, v) do {\
        PyObject *tmp = (PyObject *) r;\
        r = v; __Pyx_XDECREF(tmp);\
    } while (0)
#define __Pyx_DECREF_SET(r, v) do {\
        PyObject *tmp = (PyObject *) r;\
        r = v; __Pyx_DECREF(tmp);\
    } while (0)
#define __Pyx_CLEAR(r)    do { PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);} while(0)
#define __Pyx_XCLEAR(r)   do { if((r) != NULL) {PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);}} while(0)

/* PyObjectGetAttrStr.proto */
#if CYTHON_USE_TYPE_SLOTS
static CYTHON_INLINE PyObject* __Pyx_PyObject_GetAttrStr(PyObject* obj, PyObject* attr_name) {
    PyTypeObject* tp = Py_TYPE(obj);
    if (likely(tp->tp_getattro))
        return tp->tp_getattro(obj, attr_name);
#if PY_MAJOR_VERSION < 3
    if (likely(tp->tp_getattr))
        return tp->tp_getattr(obj, PyString_AS_STRING(attr_name));
#endif
    return PyObject_GetAttr(obj, attr_name);
}
#else
#define __Pyx_PyObject_GetAttrStr(o,n) PyObject_GetAttr(o,n)
#endif

/* GetBuiltinName.proto */
static PyObject *__Pyx_GetBuiltinName(PyObject *name);

/* ForceInitThreads.proto */
#ifndef __PYX_FORCE_INIT_THREADS
  #define __PYX_FORCE_INIT_THREADS 0
#endif

/* PyThreadStateGet.proto */
#if CYTHON_FAST_THREAD_STATE
#define __Pyx_PyThreadState_declare  PyThreadState *__pyx_tstate;
#define __Pyx_PyThreadState_assign  __pyx_tstate = PyThreadState_GET();
#else
#define __Pyx_PyThreadState_declare
#define __Pyx_PyThreadState_assign
#endif

/* PyErrFetchRestore.proto */
#if CYTHON_FAST_THREAD_STATE
#define __Pyx_ErrRestoreWithState(type, value, tb)  __Pyx_ErrRestoreInState(PyThreadState_GET(), type, value, tb)
#define __Pyx_ErrFetchWithState(type, value, tb)    __Pyx_ErrFetchInState(PyThreadState_GET(), type, value, tb)
#define __Pyx_ErrRestore(type, value, tb)  __Pyx_ErrRestoreInState(__pyx_tstate, type, value, tb)
#define __Pyx_ErrFetch(type, value, tb)    __Pyx_ErrFetchInState(__pyx_tstate, type, value, tb)
static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb);
static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb);
#else
#define __Pyx_ErrRestoreWithState(type, value, tb)  PyErr_Restore(type, value, tb)
#define __Pyx_ErrFetchWithState(type, value, tb)  PyErr_Fetch(type, value, tb)
#define __Pyx_ErrRestore(type, value, tb)  PyErr_Restore(type, value, tb)
#define __Pyx_ErrFetch(type, value, tb)  PyErr_Fetch(type, value, tb)
#endif

/* WriteUnraisableException.proto */
static void __Pyx_WriteUnraisable(const char *name, int clineno,
                                  int lineno, const char *filename,
                                  int full_traceback, int nogil);

/* GetItemInt.proto */
#define __Pyx_GetItemInt(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\
    (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\
    __Pyx_GetItemInt_Fast(o, (Py_ssize_t)i, is_list, wraparound, boundscheck) :\
    (is_list ? (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL) :\
               __Pyx_GetItemInt_Generic(o, to_py_func(i))))
#define __Pyx_GetItemInt_List(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\
    (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\
    __Pyx_GetItemInt_List_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\
    (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL))
static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i,
                                                              int wraparound, int boundscheck);
#define __Pyx_GetItemInt_Tuple(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck)\
    (__Pyx_fits_Py_ssize_t(i, type, is_signed) ?\
    __Pyx_GetItemInt_Tuple_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) :\
    (PyErr_SetString(PyExc_IndexError, "tuple index out of range"), (PyObject*)NULL))
static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i,
                                                              int wraparound, int boundscheck);
static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j);
static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i,
                                                     int is_list, int wraparound, int boundscheck);

/* ListCompAppend.proto */
#if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS
static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) {
    PyListObject* L = (PyListObject*) list;
    Py_ssize_t len = Py_SIZE(list);
    if (likely(L->allocated > len)) {
        Py_INCREF(x);
        PyList_SET_ITEM(list, len, x);
        Py_SIZE(list) = len+1;
        return 0;
    }
    return PyList_Append(list, x);
}
#else
#define __Pyx_ListComp_Append(L,x) PyList_Append(L,x)
#endif

/* PyObjectCall.proto */
#if CYTHON_COMPILING_IN_CPYTHON
static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw);
#else
#define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw)
#endif

/* FetchCommonType.proto */
static PyTypeObject* __Pyx_FetchCommonType(PyTypeObject* type);

/* CythonFunction.proto */
#define __Pyx_CyFunction_USED 1
#include <structmember.h>
#define __Pyx_CYFUNCTION_STATICMETHOD  0x01
#define __Pyx_CYFUNCTION_CLASSMETHOD   0x02
#define __Pyx_CYFUNCTION_CCLASS        0x04
#define __Pyx_CyFunction_GetClosure(f)\
    (((__pyx_CyFunctionObject *) (f))->func_closure)
#define __Pyx_CyFunction_GetClassObj(f)\
    (((__pyx_CyFunctionObject *) (f))->func_classobj)
#define __Pyx_CyFunction_Defaults(type, f)\
    ((type *)(((__pyx_CyFunctionObject *) (f))->defaults))
#define __Pyx_CyFunction_SetDefaultsGetter(f, g)\
    ((__pyx_CyFunctionObject *) (f))->defaults_getter = (g)
typedef struct {
    PyCFunctionObject func;
#if PY_VERSION_HEX < 0x030500A0
    PyObject *func_weakreflist;
#endif
    PyObject *func_dict;
    PyObject *func_name;
    PyObject *func_qualname;
    PyObject *func_doc;
    PyObject *func_globals;
    PyObject *func_code;
    PyObject *func_closure;
    PyObject *func_classobj;
    void *defaults;
    int defaults_pyobjects;
    int flags;
    PyObject *defaults_tuple;
    PyObject *defaults_kwdict;
    PyObject *(*defaults_getter)(PyObject *);
    PyObject *func_annotations;
} __pyx_CyFunctionObject;
static PyTypeObject *__pyx_CyFunctionType = 0;
#define __Pyx_CyFunction_NewEx(ml, flags, qualname, self, module, globals, code)\
    __Pyx_CyFunction_New(__pyx_CyFunctionType, ml, flags, qualname, self, module, globals, code)
static PyObject *__Pyx_CyFunction_New(PyTypeObject *, PyMethodDef *ml,
                                      int flags, PyObject* qualname,
                                      PyObject *self,
                                      PyObject *module, PyObject *globals,
                                      PyObject* code);
static CYTHON_INLINE void *__Pyx_CyFunction_InitDefaults(PyObject *m,
                                                         size_t size,
                                                         int pyobjects);
static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsTuple(PyObject *m,
                                                            PyObject *tuple);
static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsKwDict(PyObject *m,
                                                             PyObject *dict);
static CYTHON_INLINE void __Pyx_CyFunction_SetAnnotationsDict(PyObject *m,
                                                              PyObject *dict);
static int __pyx_CyFunction_init(void);

/* RaiseTooManyValuesToUnpack.proto */
static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected);

/* RaiseNeedMoreValuesToUnpack.proto */
static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index);

/* IterFinish.proto */
static CYTHON_INLINE int __Pyx_IterFinish(void);

/* UnpackItemEndCheck.proto */
static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected);

/* RaiseDoubleKeywords.proto */
static void __Pyx_RaiseDoubleKeywordsError(const char* func_name, PyObject* kw_name);

/* ParseKeywords.proto */
static int __Pyx_ParseOptionalKeywords(PyObject *kwds, PyObject **argnames[],\
    PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args,\
    const char* function_name);

/* RaiseArgTupleInvalid.proto */
static void __Pyx_RaiseArgtupleInvalid(const char* func_name, int exact,
    Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found);

/* GetModuleGlobalName.proto */
static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name);

/* PyFunctionFastCall.proto */
#if CYTHON_FAST_PYCALL
#define __Pyx_PyFunction_FastCall(func, args, nargs)\
    __Pyx_PyFunction_FastCallDict((func), (args), (nargs), NULL)
#if 1 || PY_VERSION_HEX < 0x030600B1
static PyObject *__Pyx_PyFunction_FastCallDict(PyObject *func, PyObject **args, int nargs, PyObject *kwargs);
#else
#define __Pyx_PyFunction_FastCallDict(func, args, nargs, kwargs) _PyFunction_FastCallDict(func, args, nargs, kwargs)
#endif
#endif

/* PyCFunctionFastCall.proto */
#if CYTHON_FAST_PYCCALL
static CYTHON_INLINE PyObject *__Pyx_PyCFunction_FastCall(PyObject *func, PyObject **args, Py_ssize_t nargs);
#else
#define __Pyx_PyCFunction_FastCall(func, args, nargs)  (assert(0), NULL)
#endif

/* PyObjectCallMethO.proto */
#if CYTHON_COMPILING_IN_CPYTHON
static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg);
#endif

/* PyObjectCallOneArg.proto */
static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg);

/* PyObjectCallNoArg.proto */
#if CYTHON_COMPILING_IN_CPYTHON
static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func);
#else
#define __Pyx_PyObject_CallNoArg(func) __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL)
#endif

/* PyIntBinop.proto */
#if !CYTHON_COMPILING_IN_PYPY
static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, long intval, int inplace);
#else
#define __Pyx_PyInt_EqObjC(op1, op2, intval, inplace)\
    PyObject_RichCompare(op1, op2, Py_EQ)
    #endif

/* ListAppend.proto */
#if CYTHON_USE_PYLIST_INTERNALS && CYTHON_ASSUME_SAFE_MACROS
static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) {
    PyListObject* L = (PyListObject*) list;
    Py_ssize_t len = Py_SIZE(list);
    if (likely(L->allocated > len) & likely(len > (L->allocated >> 1))) {
        Py_INCREF(x);
        PyList_SET_ITEM(list, len, x);
        Py_SIZE(list) = len+1;
        return 0;
    }
    return PyList_Append(list, x);
}
#else
#define __Pyx_PyList_Append(L,x) PyList_Append(L,x)
#endif

/* StringJoin.proto */
#if PY_MAJOR_VERSION < 3
#define __Pyx_PyString_Join __Pyx_PyBytes_Join
#define __Pyx_PyBaseString_Join(s, v) (PyUnicode_CheckExact(s) ? PyUnicode_Join(s, v) : __Pyx_PyBytes_Join(s, v))
#else
#define __Pyx_PyString_Join PyUnicode_Join
#define __Pyx_PyBaseString_Join PyUnicode_Join
#endif
#if CYTHON_COMPILING_IN_CPYTHON
    #if PY_MAJOR_VERSION < 3
    #define __Pyx_PyBytes_Join _PyString_Join
    #else
    #define __Pyx_PyBytes_Join _PyBytes_Join
    #endif
#else
static CYTHON_INLINE PyObject* __Pyx_PyBytes_Join(PyObject* sep, PyObject* values);
#endif

/* ArgTypeTest.proto */
static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed,
    const char *name, int exact);

/* pyobject_as_double.proto */
static double __Pyx__PyObject_AsDouble(PyObject* obj);
#if CYTHON_COMPILING_IN_PYPY
#define __Pyx_PyObject_AsDouble(obj)\
(likely(PyFloat_CheckExact(obj)) ? PyFloat_AS_DOUBLE(obj) :\
 likely(PyInt_CheckExact(obj)) ?\
 PyFloat_AsDouble(obj) : __Pyx__PyObject_AsDouble(obj))
#else
#define __Pyx_PyObject_AsDouble(obj)\
((likely(PyFloat_CheckExact(obj))) ?\
 PyFloat_AS_DOUBLE(obj) : __Pyx__PyObject_AsDouble(obj))
#endif

/* RaiseException.proto */
static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause);

/* SaveResetException.proto */
#if CYTHON_FAST_THREAD_STATE
#define __Pyx_ExceptionSave(type, value, tb)  __Pyx__ExceptionSave(__pyx_tstate, type, value, tb)
static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb);
#define __Pyx_ExceptionReset(type, value, tb)  __Pyx__ExceptionReset(__pyx_tstate, type, value, tb)
static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb);
#else
#define __Pyx_ExceptionSave(type, value, tb)   PyErr_GetExcInfo(type, value, tb)
#define __Pyx_ExceptionReset(type, value, tb)  PyErr_SetExcInfo(type, value, tb)
#endif

/* PyErrExceptionMatches.proto */
#if CYTHON_FAST_THREAD_STATE
#define __Pyx_PyErr_ExceptionMatches(err) __Pyx_PyErr_ExceptionMatchesInState(__pyx_tstate, err)
static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err);
#else
#define __Pyx_PyErr_ExceptionMatches(err)  PyErr_ExceptionMatches(err)
#endif

/* GetException.proto */
#if CYTHON_FAST_THREAD_STATE
#define __Pyx_GetException(type, value, tb)  __Pyx__GetException(__pyx_tstate, type, value, tb)
static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb);
#else
static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb);
#endif

/* GetVTable.proto */
static void* __Pyx_GetVtable(PyObject *dict);

/* Import.proto */
static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level);

/* CodeObjectCache.proto */
typedef struct {
    PyCodeObject* code_object;
    int code_line;
} __Pyx_CodeObjectCacheEntry;
struct __Pyx_CodeObjectCache {
    int count;
    int max_count;
    __Pyx_CodeObjectCacheEntry* entries;
};
static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL};
static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line);
static PyCodeObject *__pyx_find_code_object(int code_line);
static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object);

/* AddTraceback.proto */
static void __Pyx_AddTraceback(const char *funcname, int c_line,
                               int py_line, const char *filename);

/* CppExceptionConversion.proto */
#ifndef __Pyx_CppExn2PyErr
#include <new>
#include <typeinfo>
#include <stdexcept>
#include <ios>
static void __Pyx_CppExn2PyErr() {
  try {
    if (PyErr_Occurred())
      ; // let the latest Python exn pass through and ignore the current one
    else
      throw;
  } catch (const std::bad_alloc& exn) {
    PyErr_SetString(PyExc_MemoryError, exn.what());
  } catch (const std::bad_cast& exn) {
    PyErr_SetString(PyExc_TypeError, exn.what());
  } catch (const std::bad_typeid& exn) {
    PyErr_SetString(PyExc_TypeError, exn.what());
  } catch (const std::domain_error& exn) {
    PyErr_SetString(PyExc_ValueError, exn.what());
  } catch (const std::invalid_argument& exn) {
    PyErr_SetString(PyExc_ValueError, exn.what());
  } catch (const std::ios_base::failure& exn) {
    PyErr_SetString(PyExc_IOError, exn.what());
  } catch (const std::out_of_range& exn) {
    PyErr_SetString(PyExc_IndexError, exn.what());
  } catch (const std::overflow_error& exn) {
    PyErr_SetString(PyExc_OverflowError, exn.what());
  } catch (const std::range_error& exn) {
    PyErr_SetString(PyExc_ArithmeticError, exn.what());
  } catch (const std::underflow_error& exn) {
    PyErr_SetString(PyExc_ArithmeticError, exn.what());
  } catch (const std::exception& exn) {
    PyErr_SetString(PyExc_RuntimeError, exn.what());
  }
  catch (...)
  {
    PyErr_SetString(PyExc_RuntimeError, "Unknown exception");
  }
}
#endif

/* CIntToPy.proto */
static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_int(unsigned int value);

/* CIntToPy.proto */
static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value);

/* CIntToPy.proto */
static CYTHON_INLINE PyObject* __Pyx_PyInt_From_char(char value);

/* CIntToPy.proto */
static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value);

static PyObject* __pyx_convert__to_py_struct__KTfwd_3a__3a_data_matrix(struct KTfwd::data_matrix s);
/* None.proto */
#include <new>

/* CIntFromPy.proto */
static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *);

/* CIntFromPy.proto */
static CYTHON_INLINE size_t __Pyx_PyInt_As_size_t(PyObject *);

/* CIntFromPy.proto */
static CYTHON_INLINE unsigned int __Pyx_PyInt_As_unsigned_int(PyObject *);

/* CIntFromPy.proto */
static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *);

/* CIntFromPy.proto */
static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *);

/* CheckBinaryVersion.proto */
static int __Pyx_check_binary_version(void);

/* FunctionExport.proto */
static int __Pyx_ExportFunction(const char *name, void (*f)(void), const char *sig);

/* PyIdentifierFromString.proto */
#if !defined(__Pyx_PyIdentifier_FromString)
#if PY_MAJOR_VERSION < 3
  #define __Pyx_PyIdentifier_FromString(s) PyString_FromString(s)
#else
  #define __Pyx_PyIdentifier_FromString(s) PyUnicode_FromString(s)
#endif
#endif

/* ModuleImport.proto */
static PyObject *__Pyx_ImportModule(const char *name);

/* TypeImport.proto */
static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict);

/* InitStrings.proto */
static int __Pyx_InitStrings(__Pyx_StringTabEntry *t);


/* Module declarations from 'libcpp.vector' */

/* Module declarations from 'libcpp.utility' */

/* Module declarations from 'libc.string' */

/* Module declarations from 'libcpp.string' */

/* Module declarations from 'libcpp' */

/* Module declarations from 'libcpp.memory' */

/* Module declarations from 'libcpp.map' */

/* Module declarations from 'libc.stdint' */

/* Module declarations from 'libc.math' */

/* Module declarations from 'libc.stdio' */

/* Module declarations from 'cython_gsl.gsl_mode' */

/* Module declarations from 'cython_gsl.gsl_math' */

/* Module declarations from 'cython_gsl.gsl_complex' */

/* Module declarations from 'cython_gsl.gsl_poly' */

/* Module declarations from 'cython_gsl.gsl_sf_result' */

/* Module declarations from 'cython_gsl.gsl_airy' */

/* Module declarations from 'cython_gsl.gsl_bessel' */

/* Module declarations from 'cython_gsl.gsl_clausen' */

/* Module declarations from 'cython_gsl.gsl_coulomb' */

/* Module declarations from 'cython_gsl.gsl_coupling' */

/* Module declarations from 'cython_gsl.gsl_dawson' */

/* Module declarations from 'cython_gsl.gsl_debye' */

/* Module declarations from 'cython_gsl.gsl_dilog' */

/* Module declarations from 'cython_gsl.gsl_elementary' */

/* Module declarations from 'cython_gsl.gsl_ellint' */

/* Module declarations from 'cython_gsl.gsl_elljac' */

/* Module declarations from 'cython_gsl.gsl_erf' */

/* Module declarations from 'cython_gsl.gsl_exp' */

/* Module declarations from 'cython_gsl.gsl_expint' */

/* Module declarations from 'cython_gsl.gsl_fermi_dirac' */

/* Module declarations from 'cython_gsl.gsl_gamma' */

/* Module declarations from 'cython_gsl.gsl_gegenbauer' */

/* Module declarations from 'cython_gsl.gsl_hyperg' */

/* Module declarations from 'cython_gsl.gsl_laguerre' */

/* Module declarations from 'cython_gsl.gsl_lambert' */

/* Module declarations from 'cython_gsl.gsl_legendre' */

/* Module declarations from 'cython_gsl.gsl_log' */

/* Module declarations from 'cython_gsl.gsl_pow_int' */

/* Module declarations from 'cython_gsl.gsl_psi' */

/* Module declarations from 'cython_gsl.gsl_synchrotron' */

/* Module declarations from 'cython_gsl.gsl_transport' */

/* Module declarations from 'cython_gsl.gsl_trig' */

/* Module declarations from 'cython_gsl.gsl_zeta' */

/* Module declarations from 'cython_gsl.gsl_block' */

/* Module declarations from 'cython_gsl.gsl_vector' */

/* Module declarations from 'cython_gsl.gsl_vector_complex' */

/* Module declarations from 'cython_gsl.gsl_matrix' */

/* Module declarations from 'cython_gsl.gsl_matrix_complex' */

/* Module declarations from 'cython_gsl.gsl_permutation' */

/* Module declarations from 'cython_gsl.gsl_combination' */

/* Module declarations from 'cython_gsl.gsl_sort' */

/* Module declarations from 'cython_gsl.gsl_blas_types' */

/* Module declarations from 'cython_gsl.gsl_blas' */

/* Module declarations from 'cython_gsl.gsl_linalg' */

/* Module declarations from 'cython_gsl.gsl_eigen' */

/* Module declarations from 'cython_gsl.gsl_fft' */

/* Module declarations from 'cython_gsl.gsl_integration' */

/* Module declarations from 'cython_gsl.gsl_rng' */

/* Module declarations from 'cython_gsl.gsl_qrng' */

/* Module declarations from 'cython_gsl.gsl_random' */

/* Module declarations from 'cython_gsl.gsl_statistics' */

/* Module declarations from 'cython_gsl.gsl_histogram' */

/* Module declarations from 'cython_gsl.gsl_ntuple' */

/* Module declarations from 'cython_gsl.gsl_monte' */

/* Module declarations from 'cython_gsl.gsl_odeiv' */

/* Module declarations from 'cython_gsl.gsl_odeiv2' */

/* Module declarations from 'cython_gsl.gsl_interp' */

/* Module declarations from 'cython_gsl.gsl_diff' */

/* Module declarations from 'cython_gsl.gsl_chebyshev' */

/* Module declarations from 'cython_gsl.gsl_sum' */

/* Module declarations from 'cython_gsl.gsl_roots' */

/* Module declarations from 'cython_gsl.gsl_min' */

/* Module declarations from 'cython_gsl.gsl_fit' */

/* Module declarations from 'cython_gsl' */

/* Module declarations from 'fwdpy.fwdpp' */

/* Module declarations from 'fwdpy.internal.internal' */
static PyTypeObject *__pyx_ptype_5fwdpy_8internal_8internal_shwrappervec = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_8internal_8internal_region_manager_wrapper = 0;

/* Module declarations from 'fwdpy.cpp' */

/* Module declarations from 'libcpp.unordered_set' */

/* Module declarations from 'fwdpy.structs' */

/* Module declarations from 'fwdpy.fitness' */
static PyTypeObject *__pyx_ptype_5fwdpy_7fitness_SpopFitness = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_7fitness_SpopAdditive = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_7fitness_SpopMult = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_7fitness_MlocusFitness = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_7fitness_MlocusAdditive = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_7fitness_MlocusMult = 0;
static CYTHON_INLINE void __pyx_f_5fwdpy_7fitness_hom_additive_update_2(double &, KTfwd::popgenmut const &); /*proto*/
static CYTHON_INLINE void __pyx_f_5fwdpy_7fitness_hom_additive_update_1(double &, KTfwd::popgenmut const &); /*proto*/

/* Module declarations from 'fwdpy.fwdpy' */
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_PopType = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_Spop = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_MetaPop = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_MlocusPop = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_SpopGenMut = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_PopVec = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_SpopVec = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_SpopGenMutVec = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_MetaPopVec = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_MlocusPopVec = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_GSLrng = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_TemporalSampler = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_NothingSampler = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_QtraitStatsSampler = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_PopSampler = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_VASampler = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_5fwdpy_FreqSampler = 0;

/* Module declarations from 'fwdpy.matrix' */
static PyTypeObject *__pyx_ptype_5fwdpy_6matrix_DataMatrix = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_6matrix_GenotypeMatrix = 0;
static PyTypeObject *__pyx_ptype_5fwdpy_6matrix_HaplotypeMatrix = 0;
static PyObject *__pyx_f_5fwdpy_6matrix_sort_keys_by_position(__pyx_t_5fwdpy_6matrix_key_pair &, fwdpy::mcont_t const &); /*proto*/
static __pyx_t_5fwdpy_6matrix_key_pair __pyx_f_5fwdpy_6matrix_remove_fixed_keys(__pyx_t_5fwdpy_6matrix_key_pair &, __pyx_t_5fwdpy_5fwdpy_uint const ); /*proto*/
static __pyx_t_5fwdpy_6matrix_key_pair __pyx_f_5fwdpy_6matrix_apply_min_sample_daf(__pyx_t_5fwdpy_6matrix_key_pair &, double const , double const ); /*proto*/
static __pyx_t_5fwdpy_6matrix_key_pair __pyx_f_5fwdpy_6matrix_apply_min_pop_daf(__pyx_t_5fwdpy_6matrix_key_pair &, unsigned int const , double const , __pyx_t_5fwdpy_5fwdpy_ucont_t const &); /*proto*/
static std::vector<char>  __pyx_convert_vector_from_py_char(PyObject *); /*proto*/
static std::vector<double>  __pyx_convert_vector_from_py_double(PyObject *); /*proto*/
static struct KTfwd::data_matrix __pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix(PyObject *); /*proto*/
static PyObject *__pyx_convert_pair_to_py_size_t____unsigned_int(std::pair<size_t,unsigned int>  const &); /*proto*/
static PyObject *__pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(const std::vector<std::pair<size_t,unsigned int> >  &); /*proto*/
static std::pair<size_t,unsigned int>  __pyx_convert_pair_from_py_size_t__and_unsigned_int(PyObject *); /*proto*/
static std::vector<std::pair<size_t,unsigned int> >  __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(PyObject *); /*proto*/
static PyObject *__pyx_convert_vector_to_py_char(const std::vector<char>  &); /*proto*/
static PyObject *__pyx_convert_vector_to_py_double(const std::vector<double>  &); /*proto*/
static std::vector<size_t>  __pyx_convert_vector_from_py_size_t(PyObject *); /*proto*/
static std::vector<unsigned int>  __pyx_convert_vector_from_py_unsigned_int(PyObject *); /*proto*/
static PyObject *__pyx_convert_pair_to_py_std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e_______std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e___(std::pair<std::vector<std::pair<size_t,unsigned int> > ,std::vector<std::pair<size_t,unsigned int> > >  const &); /*proto*/
#define __Pyx_MODULE_NAME "fwdpy.matrix"
int __pyx_module_is_main_fwdpy__matrix = 0;

/* Implementation of 'fwdpy.matrix' */
static PyObject *__pyx_builtin_sorted;
static PyObject *__pyx_builtin_zip;
static PyObject *__pyx_builtin_range;
static PyObject *__pyx_builtin_RuntimeError;
static PyObject *__pyx_builtin_sum;
static PyObject *__pyx_builtin_NotImplementedError;
static PyObject *__pyx_builtin_TypeError;
static PyObject *__pyx_builtin_KeyError;
static PyObject *__pyx_builtin_ValueError;
static const char __pyx_k_0[] = "0";
static const char __pyx_k_1[] = "1";
static const char __pyx_k_2[] = "2";
static const char __pyx_k_d[] = "d";
static const char __pyx_k_h[] = "h";
static const char __pyx_k__6[] = "";
static const char __pyx_k_i1[] = "i1";
static const char __pyx_k_get[] = "get";
static const char __pyx_k_key[] = "key";
static const char __pyx_k_pop[] = "pop";
static const char __pyx_k_sum[] = "sum";
static const char __pyx_k_zip[] = "zip";
static const char __pyx_k_deme[] = "deme";
static const char __pyx_k_join[] = "join";
static const char __pyx_k_keys[] = "keys";
static const char __pyx_k_main[] = "__main__";
static const char __pyx_k_mpop[] = "mpop";
static const char __pyx_k_nrow[] = "nrow";
static const char __pyx_k_sort[] = "sort";
static const char __pyx_k_test[] = "__test__";
static const char __pyx_k_array[] = "array";
static const char __pyx_k_dtype[] = "dtype";
static const char __pyx_k_numpy[] = "numpy";
static const char __pyx_k_range[] = "range";
static const char __pyx_k_shape[] = "shape";
static const char __pyx_k_where[] = "where";
static const char __pyx_k_append[] = "append";
static const char __pyx_k_deme_2[] = "deme_";
static const char __pyx_k_import[] = "__import__";
static const char __pyx_k_sorted[] = "sorted";
static const char __pyx_k_mcounts[] = "mcounts";
static const char __pyx_k_neutral[] = "neutral";
static const char __pyx_k_nmatrix[] = "nmatrix";
static const char __pyx_k_popsize[] = "popsize";
static const char __pyx_k_reshape[] = "reshape";
static const char __pyx_k_smatrix[] = "smatrix";
static const char __pyx_k_KeyError[] = "KeyError";
static const char __pyx_k_popsizes[] = "popsizes";
static const char __pyx_k_selected[] = "selected";
static const char __pyx_k_TypeError[] = "TypeError";
static const char __pyx_k_ValueError[] = "ValueError";
static const char __pyx_k_pyx_vtable[] = "__pyx_vtable__";
static const char __pyx_k_individuals[] = "individuals";
static const char __pyx_k_min_pop_daf[] = "min_pop_daf";
static const char __pyx_k_RuntimeError[] = "RuntimeError";
static const char __pyx_k_fwdpy_matrix[] = "fwdpy.matrix";
static const char __pyx_k_remove_fixed[] = "remove_fixed";
static const char __pyx_k_min_sample_daf[] = "min_sample_daf";
static const char __pyx_k_genotype_matrix[] = "genotype_matrix";
static const char __pyx_k_include_neutral[] = "include_neutral";
static const char __pyx_k_neutral_popfreq[] = "neutral_popfreq";
static const char __pyx_k_haplotype_matrix[] = "haplotype_matrix";
static const char __pyx_k_include_selected[] = "include_selected";
static const char __pyx_k_selected_popfreq[] = "selected_popfreq";
static const char __pyx_k_get_mutation_keys[] = "get_mutation_keys";
static const char __pyx_k_neutral_positions[] = "neutral_positions";
static const char __pyx_k_selected_positions[] = "selected_positions";
static const char __pyx_k_NotImplementedError[] = "NotImplementedError";
static const char __pyx_k_deme_cannot_be_None[] = "deme cannot be None";
static const char __pyx_k_deme_cannot_be_none[] = "deme cannot be none";
static const char __pyx_k_population_type_not_supported[] = "population type not supported";
static const char __pyx_k_home_kevin_src_fwdpy_fwdpy_matr[] = "/home/kevin/src/fwdpy/fwdpy/matrix.pyx";
static const char __pyx_k_Minimum_derived_allele_frequency[] = "Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0";
static const char __pyx_k_No_value_specified_for_struct_at[] = "No value specified for struct attribute 'neutral'";
static const char __pyx_k_sort_keys_by_position_locals_lam[] = "sort_keys_by_position.<locals>.<lambda>";
static const char __pyx_k_No_value_specified_for_struct_at_2[] = "No value specified for struct attribute 'selected'";
static const char __pyx_k_No_value_specified_for_struct_at_3[] = "No value specified for struct attribute 'neutral_positions'";
static const char __pyx_k_No_value_specified_for_struct_at_4[] = "No value specified for struct attribute 'selected_positions'";
static const char __pyx_k_No_value_specified_for_struct_at_5[] = "No value specified for struct attribute 'neutral_popfreq'";
static const char __pyx_k_No_value_specified_for_struct_at_6[] = "No value specified for struct attribute 'selected_popfreq'";
static const char __pyx_k_No_value_specified_for_struct_at_7[] = "No value specified for struct attribute 'nrow'";
static PyObject *__pyx_kp_s_0;
static PyObject *__pyx_kp_s_1;
static PyObject *__pyx_kp_s_2;
static PyObject *__pyx_n_s_KeyError;
static PyObject *__pyx_kp_s_Minimum_derived_allele_frequency;
static PyObject *__pyx_kp_s_No_value_specified_for_struct_at;
static PyObject *__pyx_kp_s_No_value_specified_for_struct_at_2;
static PyObject *__pyx_kp_s_No_value_specified_for_struct_at_3;
static PyObject *__pyx_kp_s_No_value_specified_for_struct_at_4;
static PyObject *__pyx_kp_s_No_value_specified_for_struct_at_5;
static PyObject *__pyx_kp_s_No_value_specified_for_struct_at_6;
static PyObject *__pyx_kp_s_No_value_specified_for_struct_at_7;
static PyObject *__pyx_n_s_NotImplementedError;
static PyObject *__pyx_n_s_RuntimeError;
static PyObject *__pyx_n_s_TypeError;
static PyObject *__pyx_n_s_ValueError;
static PyObject *__pyx_kp_s__6;
static PyObject *__pyx_n_s_append;
static PyObject *__pyx_n_s_array;
static PyObject *__pyx_n_s_d;
static PyObject *__pyx_n_s_deme;
static PyObject *__pyx_n_s_deme_2;
static PyObject *__pyx_kp_s_deme_cannot_be_None;
static PyObject *__pyx_kp_s_deme_cannot_be_none;
static PyObject *__pyx_n_s_dtype;
static PyObject *__pyx_n_s_fwdpy_matrix;
static PyObject *__pyx_n_s_genotype_matrix;
static PyObject *__pyx_n_s_get;
static PyObject *__pyx_n_s_get_mutation_keys;
static PyObject *__pyx_n_s_h;
static PyObject *__pyx_n_s_haplotype_matrix;
static PyObject *__pyx_kp_s_home_kevin_src_fwdpy_fwdpy_matr;
static PyObject *__pyx_n_s_i1;
static PyObject *__pyx_n_s_import;
static PyObject *__pyx_n_s_include_neutral;
static PyObject *__pyx_n_s_include_selected;
static PyObject *__pyx_n_s_individuals;
static PyObject *__pyx_n_s_join;
static PyObject *__pyx_n_s_key;
static PyObject *__pyx_n_s_keys;
static PyObject *__pyx_n_s_main;
static PyObject *__pyx_n_s_mcounts;
static PyObject *__pyx_n_s_min_pop_daf;
static PyObject *__pyx_n_s_min_sample_daf;
static PyObject *__pyx_n_s_mpop;
static PyObject *__pyx_n_s_neutral;
static PyObject *__pyx_n_s_neutral_popfreq;
static PyObject *__pyx_n_s_neutral_positions;
static PyObject *__pyx_n_s_nmatrix;
static PyObject *__pyx_n_s_nrow;
static PyObject *__pyx_n_s_numpy;
static PyObject *__pyx_n_s_pop;
static PyObject *__pyx_n_s_popsize;
static PyObject *__pyx_n_s_popsizes;
static PyObject *__pyx_kp_s_population_type_not_supported;
static PyObject *__pyx_n_s_pyx_vtable;
static PyObject *__pyx_n_s_range;
static PyObject *__pyx_n_s_remove_fixed;
static PyObject *__pyx_n_s_reshape;
static PyObject *__pyx_n_s_selected;
static PyObject *__pyx_n_s_selected_popfreq;
static PyObject *__pyx_n_s_selected_positions;
static PyObject *__pyx_n_s_shape;
static PyObject *__pyx_n_s_smatrix;
static PyObject *__pyx_n_s_sort;
static PyObject *__pyx_n_s_sort_keys_by_position_locals_lam;
static PyObject *__pyx_n_s_sorted;
static PyObject *__pyx_n_s_sum;
static PyObject *__pyx_n_s_test;
static PyObject *__pyx_n_s_where;
static PyObject *__pyx_n_s_zip;
static PyObject *__pyx_lambda_funcdef_lambda(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_pair); /* proto */
static PyObject *__pyx_lambda_funcdef_lambda1(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_pair); /* proto */
static int __pyx_pf_5fwdpy_6matrix_10DataMatrix___cinit__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self, struct KTfwd::data_matrix __pyx_v_d); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_2nmatrix(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self, PyObject *__pyx_v_dtype); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_4smatrix(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self, PyObject *__pyx_v_dtype); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_6matrix(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self, PyObject *__pyx_v_dtype); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_7neutral___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_8selected___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_17neutral_positions___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_18selected_positions___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_15neutral_popfreq___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_16selected_popfreq___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_4nrow___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_2nn___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_2ns___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_15HaplotypeMatrix_as_sample(struct __pyx_obj_5fwdpy_6matrix_HaplotypeMatrix *__pyx_v_self); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_get_mutation_keys(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_pop, PyObject *__pyx_v_individuals, PyObject *__pyx_v_include_neutral, PyObject *__pyx_v_include_selected, PyObject *__pyx_v_remove_fixed, PyObject *__pyx_v_sort, PyObject *__pyx_v_min_sample_daf, PyObject *__pyx_v_min_pop_daf, PyObject *__pyx_v_deme); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_2haplotype_matrix(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_pop, PyObject *__pyx_v_individuals, PyObject *__pyx_v_include_neutral, PyObject *__pyx_v_include_selected, PyObject *__pyx_v_remove_fixed, PyObject *__pyx_v_sort, PyObject *__pyx_v_min_sample_daf, PyObject *__pyx_v_min_pop_daf, PyObject *__pyx_v_deme, PyObject *__pyx_v_keys); /* proto */
static PyObject *__pyx_pf_5fwdpy_6matrix_4genotype_matrix(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_pop, PyObject *__pyx_v_individuals, PyObject *__pyx_v_include_neutral, PyObject *__pyx_v_include_selected, PyObject *__pyx_v_remove_fixed, PyObject *__pyx_v_sort, PyObject *__pyx_v_min_sample_daf, PyObject *__pyx_v_min_pop_daf, PyObject *__pyx_v_deme, PyObject *__pyx_v_keys); /* proto */
static PyObject *__pyx_tp_new_5fwdpy_6matrix_DataMatrix(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/
static PyObject *__pyx_tp_new_5fwdpy_6matrix_GenotypeMatrix(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/
static PyObject *__pyx_tp_new_5fwdpy_6matrix_HaplotypeMatrix(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/
static PyObject *__pyx_int_0;
static PyObject *__pyx_int_1;
static PyObject *__pyx_int_2;
static PyObject *__pyx_k_;
static PyObject *__pyx_k__2;
static PyObject *__pyx_k__3;
static PyObject *__pyx_slice__4;
static PyObject *__pyx_slice__5;
static PyObject *__pyx_slice__7;
static PyObject *__pyx_slice__8;
static PyObject *__pyx_tuple__9;
static PyObject *__pyx_tuple__10;
static PyObject *__pyx_tuple__11;
static PyObject *__pyx_tuple__12;
static PyObject *__pyx_tuple__13;
static PyObject *__pyx_tuple__14;
static PyObject *__pyx_tuple__15;
static PyObject *__pyx_tuple__16;
static PyObject *__pyx_tuple__17;
static PyObject *__pyx_tuple__18;
static PyObject *__pyx_tuple__19;
static PyObject *__pyx_tuple__20;
static PyObject *__pyx_tuple__21;
static PyObject *__pyx_tuple__22;
static PyObject *__pyx_tuple__23;
static PyObject *__pyx_tuple__24;
static PyObject *__pyx_tuple__25;
static PyObject *__pyx_tuple__26;
static PyObject *__pyx_tuple__28;
static PyObject *__pyx_tuple__30;
static PyObject *__pyx_codeobj__27;
static PyObject *__pyx_codeobj__29;
static PyObject *__pyx_codeobj__31;

/* "fwdpy/matrix.pyx":7
 * import array
 * 
 * cdef key_pair remove_fixed_keys(key_pair & keys,const uint n) nogil:             # <<<<<<<<<<<<<<
 *     cdef key_pair rv
 *     for i in keys.first:
 */

static __pyx_t_5fwdpy_6matrix_key_pair __pyx_f_5fwdpy_6matrix_remove_fixed_keys(__pyx_t_5fwdpy_6matrix_key_pair &__pyx_v_keys, __pyx_t_5fwdpy_5fwdpy_uint const __pyx_v_n) {
  __pyx_t_5fwdpy_6matrix_key_pair __pyx_v_rv;
  std::pair<size_t,unsigned int>  __pyx_v_i;
  __pyx_t_5fwdpy_6matrix_key_pair __pyx_r;
  std::vector<std::pair<size_t,unsigned int> > ::iterator __pyx_t_1;
  std::vector<std::pair<size_t,unsigned int> >  *__pyx_t_2;
  std::pair<size_t,unsigned int>  __pyx_t_3;
  int __pyx_t_4;

  /* "fwdpy/matrix.pyx":9
 * cdef key_pair remove_fixed_keys(key_pair & keys,const uint n) nogil:
 *     cdef key_pair rv
 *     for i in keys.first:             # <<<<<<<<<<<<<<
 *         if i.second < n:
 *             rv.first.push_back(i)
 */
  __pyx_t_2 = &__pyx_v_keys.first;
  __pyx_t_1 = __pyx_t_2->begin();
  for (;;) {
    if (!(__pyx_t_1 != __pyx_t_2->end())) break;
    __pyx_t_3 = *__pyx_t_1;
    ++__pyx_t_1;
    __pyx_v_i = __pyx_t_3;

    /* "fwdpy/matrix.pyx":10
 *     cdef key_pair rv
 *     for i in keys.first:
 *         if i.second < n:             # <<<<<<<<<<<<<<
 *             rv.first.push_back(i)
 *     for i in keys.second:
 */
    __pyx_t_4 = ((__pyx_v_i.second < __pyx_v_n) != 0);
    if (__pyx_t_4) {

      /* "fwdpy/matrix.pyx":11
 *     for i in keys.first:
 *         if i.second < n:
 *             rv.first.push_back(i)             # <<<<<<<<<<<<<<
 *     for i in keys.second:
 *         if i.second < n:
 */
      try {
        __pyx_v_rv.first.push_back(__pyx_v_i);
      } catch(...) {
        #ifdef WITH_THREAD
        PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure();
        #endif
        __Pyx_CppExn2PyErr();
        #ifdef WITH_THREAD
        PyGILState_Release(__pyx_gilstate_save);
        #endif
        __PYX_ERR(0, 11, __pyx_L1_error)
      }

      /* "fwdpy/matrix.pyx":10
 *     cdef key_pair rv
 *     for i in keys.first:
 *         if i.second < n:             # <<<<<<<<<<<<<<
 *             rv.first.push_back(i)
 *     for i in keys.second:
 */
    }

    /* "fwdpy/matrix.pyx":9
 * cdef key_pair remove_fixed_keys(key_pair & keys,const uint n) nogil:
 *     cdef key_pair rv
 *     for i in keys.first:             # <<<<<<<<<<<<<<
 *         if i.second < n:
 *             rv.first.push_back(i)
 */
  }

  /* "fwdpy/matrix.pyx":12
 *         if i.second < n:
 *             rv.first.push_back(i)
 *     for i in keys.second:             # <<<<<<<<<<<<<<
 *         if i.second < n:
 *             rv.second.push_back(i)
 */
  __pyx_t_2 = &__pyx_v_keys.second;
  __pyx_t_1 = __pyx_t_2->begin();
  for (;;) {
    if (!(__pyx_t_1 != __pyx_t_2->end())) break;
    __pyx_t_3 = *__pyx_t_1;
    ++__pyx_t_1;
    __pyx_v_i = __pyx_t_3;

    /* "fwdpy/matrix.pyx":13
 *             rv.first.push_back(i)
 *     for i in keys.second:
 *         if i.second < n:             # <<<<<<<<<<<<<<
 *             rv.second.push_back(i)
 *     return rv
 */
    __pyx_t_4 = ((__pyx_v_i.second < __pyx_v_n) != 0);
    if (__pyx_t_4) {

      /* "fwdpy/matrix.pyx":14
 *     for i in keys.second:
 *         if i.second < n:
 *             rv.second.push_back(i)             # <<<<<<<<<<<<<<
 *     return rv
 * 
 */
      try {
        __pyx_v_rv.second.push_back(__pyx_v_i);
      } catch(...) {
        #ifdef WITH_THREAD
        PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure();
        #endif
        __Pyx_CppExn2PyErr();
        #ifdef WITH_THREAD
        PyGILState_Release(__pyx_gilstate_save);
        #endif
        __PYX_ERR(0, 14, __pyx_L1_error)
      }

      /* "fwdpy/matrix.pyx":13
 *             rv.first.push_back(i)
 *     for i in keys.second:
 *         if i.second < n:             # <<<<<<<<<<<<<<
 *             rv.second.push_back(i)
 *     return rv
 */
    }

    /* "fwdpy/matrix.pyx":12
 *         if i.second < n:
 *             rv.first.push_back(i)
 *     for i in keys.second:             # <<<<<<<<<<<<<<
 *         if i.second < n:
 *             rv.second.push_back(i)
 */
  }

  /* "fwdpy/matrix.pyx":15
 *         if i.second < n:
 *             rv.second.push_back(i)
 *     return rv             # <<<<<<<<<<<<<<
 * 
 * cdef key_pair apply_min_sample_daf(key_pair & keys,const double n,const double x) nogil:
 */
  __pyx_r = __pyx_v_rv;
  goto __pyx_L0;

  /* "fwdpy/matrix.pyx":7
 * import array
 * 
 * cdef key_pair remove_fixed_keys(key_pair & keys,const uint n) nogil:             # <<<<<<<<<<<<<<
 *     cdef key_pair rv
 *     for i in keys.first:
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_WriteUnraisable("fwdpy.matrix.remove_fixed_keys", __pyx_clineno, __pyx_lineno, __pyx_filename, 0, 1);
  __pyx_L0:;
  return __pyx_r;
}

/* "fwdpy/matrix.pyx":17
 *     return rv
 * 
 * cdef key_pair apply_min_sample_daf(key_pair & keys,const double n,const double x) nogil:             # <<<<<<<<<<<<<<
 *     cdef key_pair rv
 *     for i in keys.first:
 */

static __pyx_t_5fwdpy_6matrix_key_pair __pyx_f_5fwdpy_6matrix_apply_min_sample_daf(__pyx_t_5fwdpy_6matrix_key_pair &__pyx_v_keys, double const __pyx_v_n, double const __pyx_v_x) {
  __pyx_t_5fwdpy_6matrix_key_pair __pyx_v_rv;
  std::pair<size_t,unsigned int>  __pyx_v_i;
  __pyx_t_5fwdpy_6matrix_key_pair __pyx_r;
  std::vector<std::pair<size_t,unsigned int> > ::iterator __pyx_t_1;
  std::vector<std::pair<size_t,unsigned int> >  *__pyx_t_2;
  std::pair<size_t,unsigned int>  __pyx_t_3;
  int __pyx_t_4;

  /* "fwdpy/matrix.pyx":19
 * cdef key_pair apply_min_sample_daf(key_pair & keys,const double n,const double x) nogil:
 *     cdef key_pair rv
 *     for i in keys.first:             # <<<<<<<<<<<<<<
 *         if <double>i.second/n >= x:
 *             rv.first.push_back(i)
 */
  __pyx_t_2 = &__pyx_v_keys.first;
  __pyx_t_1 = __pyx_t_2->begin();
  for (;;) {
    if (!(__pyx_t_1 != __pyx_t_2->end())) break;
    __pyx_t_3 = *__pyx_t_1;
    ++__pyx_t_1;
    __pyx_v_i = __pyx_t_3;

    /* "fwdpy/matrix.pyx":20
 *     cdef key_pair rv
 *     for i in keys.first:
 *         if <double>i.second/n >= x:             # <<<<<<<<<<<<<<
 *             rv.first.push_back(i)
 *     for i in keys.second:
 */
    if (unlikely(__pyx_v_n == 0)) {
      #ifdef WITH_THREAD
      PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure();
      #endif
      PyErr_SetString(PyExc_ZeroDivisionError, "float division");
      #ifdef WITH_THREAD
      PyGILState_Release(__pyx_gilstate_save);
      #endif
      __PYX_ERR(0, 20, __pyx_L1_error)
    }
    __pyx_t_4 = (((((double)__pyx_v_i.second) / __pyx_v_n) >= __pyx_v_x) != 0);
    if (__pyx_t_4) {

      /* "fwdpy/matrix.pyx":21
 *     for i in keys.first:
 *         if <double>i.second/n >= x:
 *             rv.first.push_back(i)             # <<<<<<<<<<<<<<
 *     for i in keys.second:
 *         if <double>i.second/n >= x:
 */
      try {
        __pyx_v_rv.first.push_back(__pyx_v_i);
      } catch(...) {
        #ifdef WITH_THREAD
        PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure();
        #endif
        __Pyx_CppExn2PyErr();
        #ifdef WITH_THREAD
        PyGILState_Release(__pyx_gilstate_save);
        #endif
        __PYX_ERR(0, 21, __pyx_L1_error)
      }

      /* "fwdpy/matrix.pyx":20
 *     cdef key_pair rv
 *     for i in keys.first:
 *         if <double>i.second/n >= x:             # <<<<<<<<<<<<<<
 *             rv.first.push_back(i)
 *     for i in keys.second:
 */
    }

    /* "fwdpy/matrix.pyx":19
 * cdef key_pair apply_min_sample_daf(key_pair & keys,const double n,const double x) nogil:
 *     cdef key_pair rv
 *     for i in keys.first:             # <<<<<<<<<<<<<<
 *         if <double>i.second/n >= x:
 *             rv.first.push_back(i)
 */
  }

  /* "fwdpy/matrix.pyx":22
 *         if <double>i.second/n >= x:
 *             rv.first.push_back(i)
 *     for i in keys.second:             # <<<<<<<<<<<<<<
 *         if <double>i.second/n >= x:
 *             rv.second.push_back(i)
 */
  __pyx_t_2 = &__pyx_v_keys.second;
  __pyx_t_1 = __pyx_t_2->begin();
  for (;;) {
    if (!(__pyx_t_1 != __pyx_t_2->end())) break;
    __pyx_t_3 = *__pyx_t_1;
    ++__pyx_t_1;
    __pyx_v_i = __pyx_t_3;

    /* "fwdpy/matrix.pyx":23
 *             rv.first.push_back(i)
 *     for i in keys.second:
 *         if <double>i.second/n >= x:             # <<<<<<<<<<<<<<
 *             rv.second.push_back(i)
 *     return rv
 */
    if (unlikely(__pyx_v_n == 0)) {
      #ifdef WITH_THREAD
      PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure();
      #endif
      PyErr_SetString(PyExc_ZeroDivisionError, "float division");
      #ifdef WITH_THREAD
      PyGILState_Release(__pyx_gilstate_save);
      #endif
      __PYX_ERR(0, 23, __pyx_L1_error)
    }
    __pyx_t_4 = (((((double)__pyx_v_i.second) / __pyx_v_n) >= __pyx_v_x) != 0);
    if (__pyx_t_4) {

      /* "fwdpy/matrix.pyx":24
 *     for i in keys.second:
 *         if <double>i.second/n >= x:
 *             rv.second.push_back(i)             # <<<<<<<<<<<<<<
 *     return rv
 * 
 */
      try {
        __pyx_v_rv.second.push_back(__pyx_v_i);
      } catch(...) {
        #ifdef WITH_THREAD
        PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure();
        #endif
        __Pyx_CppExn2PyErr();
        #ifdef WITH_THREAD
        PyGILState_Release(__pyx_gilstate_save);
        #endif
        __PYX_ERR(0, 24, __pyx_L1_error)
      }

      /* "fwdpy/matrix.pyx":23
 *             rv.first.push_back(i)
 *     for i in keys.second:
 *         if <double>i.second/n >= x:             # <<<<<<<<<<<<<<
 *             rv.second.push_back(i)
 *     return rv
 */
    }

    /* "fwdpy/matrix.pyx":22
 *         if <double>i.second/n >= x:
 *             rv.first.push_back(i)
 *     for i in keys.second:             # <<<<<<<<<<<<<<
 *         if <double>i.second/n >= x:
 *             rv.second.push_back(i)
 */
  }

  /* "fwdpy/matrix.pyx":25
 *         if <double>i.second/n >= x:
 *             rv.second.push_back(i)
 *     return rv             # <<<<<<<<<<<<<<
 * 
 * cdef key_pair apply_min_pop_daf(key_pair & keys,const unsigned twoN, const double q,const ucont_t & mcounts) nogil:
 */
  __pyx_r = __pyx_v_rv;
  goto __pyx_L0;

  /* "fwdpy/matrix.pyx":17
 *     return rv
 * 
 * cdef key_pair apply_min_sample_daf(key_pair & keys,const double n,const double x) nogil:             # <<<<<<<<<<<<<<
 *     cdef key_pair rv
 *     for i in keys.first:
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_WriteUnraisable("fwdpy.matrix.apply_min_sample_daf", __pyx_clineno, __pyx_lineno, __pyx_filename, 0, 1);
  __pyx_L0:;
  return __pyx_r;
}

/* "fwdpy/matrix.pyx":27
 *     return rv
 * 
 * cdef key_pair apply_min_pop_daf(key_pair & keys,const unsigned twoN, const double q,const ucont_t & mcounts) nogil:             # <<<<<<<<<<<<<<
 *     cdef key_pair rv
 *     for i in keys.first:
 */

static __pyx_t_5fwdpy_6matrix_key_pair __pyx_f_5fwdpy_6matrix_apply_min_pop_daf(__pyx_t_5fwdpy_6matrix_key_pair &__pyx_v_keys, unsigned int const __pyx_v_twoN, double const __pyx_v_q, __pyx_t_5fwdpy_5fwdpy_ucont_t const &__pyx_v_mcounts) {
  __pyx_t_5fwdpy_6matrix_key_pair __pyx_v_rv;
  std::pair<size_t,unsigned int>  __pyx_v_i;
  __pyx_t_5fwdpy_6matrix_key_pair __pyx_r;
  std::vector<std::pair<size_t,unsigned int> > ::iterator __pyx_t_1;
  std::vector<std::pair<size_t,unsigned int> >  *__pyx_t_2;
  std::pair<size_t,unsigned int>  __pyx_t_3;
  double __pyx_t_4;
  int __pyx_t_5;

  /* "fwdpy/matrix.pyx":29
 * cdef key_pair apply_min_pop_daf(key_pair & keys,const unsigned twoN, const double q,const ucont_t & mcounts) nogil:
 *     cdef key_pair rv
 *     for i in keys.first:             # <<<<<<<<<<<<<<
 *         if <double>mcounts[i.first]/<double>twoN >= q:
 *             rv.first.push_back(i)
 */
  __pyx_t_2 = &__pyx_v_keys.first;
  __pyx_t_1 = __pyx_t_2->begin();
  for (;;) {
    if (!(__pyx_t_1 != __pyx_t_2->end())) break;
    __pyx_t_3 = *__pyx_t_1;
    ++__pyx_t_1;
    __pyx_v_i = __pyx_t_3;

    /* "fwdpy/matrix.pyx":30
 *     cdef key_pair rv
 *     for i in keys.first:
 *         if <double>mcounts[i.first]/<double>twoN >= q:             # <<<<<<<<<<<<<<
 *             rv.first.push_back(i)
 *     for i in keys.second:
 */
    __pyx_t_4 = ((double)(__pyx_v_mcounts[__pyx_v_i.first]));
    if (unlikely(((double)__pyx_v_twoN) == 0)) {
      #ifdef WITH_THREAD
      PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure();
      #endif
      PyErr_SetString(PyExc_ZeroDivisionError, "float division");
      #ifdef WITH_THREAD
      PyGILState_Release(__pyx_gilstate_save);
      #endif
      __PYX_ERR(0, 30, __pyx_L1_error)
    }
    __pyx_t_5 = (((__pyx_t_4 / ((double)__pyx_v_twoN)) >= __pyx_v_q) != 0);
    if (__pyx_t_5) {

      /* "fwdpy/matrix.pyx":31
 *     for i in keys.first:
 *         if <double>mcounts[i.first]/<double>twoN >= q:
 *             rv.first.push_back(i)             # <<<<<<<<<<<<<<
 *     for i in keys.second:
 *         if <double>mcounts[i.first]/<double>twoN >= q:
 */
      try {
        __pyx_v_rv.first.push_back(__pyx_v_i);
      } catch(...) {
        #ifdef WITH_THREAD
        PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure();
        #endif
        __Pyx_CppExn2PyErr();
        #ifdef WITH_THREAD
        PyGILState_Release(__pyx_gilstate_save);
        #endif
        __PYX_ERR(0, 31, __pyx_L1_error)
      }

      /* "fwdpy/matrix.pyx":30
 *     cdef key_pair rv
 *     for i in keys.first:
 *         if <double>mcounts[i.first]/<double>twoN >= q:             # <<<<<<<<<<<<<<
 *             rv.first.push_back(i)
 *     for i in keys.second:
 */
    }

    /* "fwdpy/matrix.pyx":29
 * cdef key_pair apply_min_pop_daf(key_pair & keys,const unsigned twoN, const double q,const ucont_t & mcounts) nogil:
 *     cdef key_pair rv
 *     for i in keys.first:             # <<<<<<<<<<<<<<
 *         if <double>mcounts[i.first]/<double>twoN >= q:
 *             rv.first.push_back(i)
 */
  }

  /* "fwdpy/matrix.pyx":32
 *         if <double>mcounts[i.first]/<double>twoN >= q:
 *             rv.first.push_back(i)
 *     for i in keys.second:             # <<<<<<<<<<<<<<
 *         if <double>mcounts[i.first]/<double>twoN >= q:
 *             rv.second.push_back(i)
 */
  __pyx_t_2 = &__pyx_v_keys.second;
  __pyx_t_1 = __pyx_t_2->begin();
  for (;;) {
    if (!(__pyx_t_1 != __pyx_t_2->end())) break;
    __pyx_t_3 = *__pyx_t_1;
    ++__pyx_t_1;
    __pyx_v_i = __pyx_t_3;

    /* "fwdpy/matrix.pyx":33
 *             rv.first.push_back(i)
 *     for i in keys.second:
 *         if <double>mcounts[i.first]/<double>twoN >= q:             # <<<<<<<<<<<<<<
 *             rv.second.push_back(i)
 *     return rv
 */
    __pyx_t_4 = ((double)(__pyx_v_mcounts[__pyx_v_i.first]));
    if (unlikely(((double)__pyx_v_twoN) == 0)) {
      #ifdef WITH_THREAD
      PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure();
      #endif
      PyErr_SetString(PyExc_ZeroDivisionError, "float division");
      #ifdef WITH_THREAD
      PyGILState_Release(__pyx_gilstate_save);
      #endif
      __PYX_ERR(0, 33, __pyx_L1_error)
    }
    __pyx_t_5 = (((__pyx_t_4 / ((double)__pyx_v_twoN)) >= __pyx_v_q) != 0);
    if (__pyx_t_5) {

      /* "fwdpy/matrix.pyx":34
 *     for i in keys.second:
 *         if <double>mcounts[i.first]/<double>twoN >= q:
 *             rv.second.push_back(i)             # <<<<<<<<<<<<<<
 *     return rv
 * 
 */
      try {
        __pyx_v_rv.second.push_back(__pyx_v_i);
      } catch(...) {
        #ifdef WITH_THREAD
        PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure();
        #endif
        __Pyx_CppExn2PyErr();
        #ifdef WITH_THREAD
        PyGILState_Release(__pyx_gilstate_save);
        #endif
        __PYX_ERR(0, 34, __pyx_L1_error)
      }

      /* "fwdpy/matrix.pyx":33
 *             rv.first.push_back(i)
 *     for i in keys.second:
 *         if <double>mcounts[i.first]/<double>twoN >= q:             # <<<<<<<<<<<<<<
 *             rv.second.push_back(i)
 *     return rv
 */
    }

    /* "fwdpy/matrix.pyx":32
 *         if <double>mcounts[i.first]/<double>twoN >= q:
 *             rv.first.push_back(i)
 *     for i in keys.second:             # <<<<<<<<<<<<<<
 *         if <double>mcounts[i.first]/<double>twoN >= q:
 *             rv.second.push_back(i)
 */
  }

  /* "fwdpy/matrix.pyx":35
 *         if <double>mcounts[i.first]/<double>twoN >= q:
 *             rv.second.push_back(i)
 *     return rv             # <<<<<<<<<<<<<<
 * 
 * cdef sort_keys_by_position(key_pair & keys,const mcont_t & mutations):
 */
  __pyx_r = __pyx_v_rv;
  goto __pyx_L0;

  /* "fwdpy/matrix.pyx":27
 *     return rv
 * 
 * cdef key_pair apply_min_pop_daf(key_pair & keys,const unsigned twoN, const double q,const ucont_t & mcounts) nogil:             # <<<<<<<<<<<<<<
 *     cdef key_pair rv
 *     for i in keys.first:
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_WriteUnraisable("fwdpy.matrix.apply_min_pop_daf", __pyx_clineno, __pyx_lineno, __pyx_filename, 0, 1);
  __pyx_L0:;
  return __pyx_r;
}

/* "fwdpy/matrix.pyx":40
 *     #positions of neutral mutations
 *     pos = [mutations[i[0]].pos for i in keys.first]
 *     keys.first=[i for j,i in sorted(zip(pos,keys.first),key=lambda pair: pair[0])]             # <<<<<<<<<<<<<<
 *     pos = [mutations[i[0]].pos for i in keys.second]
 *     keys.second=[i for j,i in sorted(zip(pos,keys.second),key=lambda pair: pair[0])]
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_21sort_keys_by_position_lambda(PyObject *__pyx_self, PyObject *__pyx_v_pair); /*proto*/
static PyMethodDef __pyx_mdef_5fwdpy_6matrix_21sort_keys_by_position_lambda = {"lambda", (PyCFunction)__pyx_pw_5fwdpy_6matrix_21sort_keys_by_position_lambda, METH_O, 0};
static PyObject *__pyx_pw_5fwdpy_6matrix_21sort_keys_by_position_lambda(PyObject *__pyx_self, PyObject *__pyx_v_pair) {
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("lambda (wrapper)", 0);
  __pyx_r = __pyx_lambda_funcdef_lambda(__pyx_self, ((PyObject *)__pyx_v_pair));

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_lambda_funcdef_lambda(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_pair) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  __Pyx_RefNannySetupContext("lambda", 0);
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_1 = __Pyx_GetItemInt(__pyx_v_pair, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 40, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_r = __pyx_t_1;
  __pyx_t_1 = 0;
  goto __pyx_L0;

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_AddTraceback("fwdpy.matrix.sort_keys_by_position.lambda", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pyx":42
 *     keys.first=[i for j,i in sorted(zip(pos,keys.first),key=lambda pair: pair[0])]
 *     pos = [mutations[i[0]].pos for i in keys.second]
 *     keys.second=[i for j,i in sorted(zip(pos,keys.second),key=lambda pair: pair[0])]             # <<<<<<<<<<<<<<
 * 
 * cdef class DataMatrix(object):
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_21sort_keys_by_position_1lambda1(PyObject *__pyx_self, PyObject *__pyx_v_pair); /*proto*/
static PyMethodDef __pyx_mdef_5fwdpy_6matrix_21sort_keys_by_position_1lambda1 = {"lambda1", (PyCFunction)__pyx_pw_5fwdpy_6matrix_21sort_keys_by_position_1lambda1, METH_O, 0};
static PyObject *__pyx_pw_5fwdpy_6matrix_21sort_keys_by_position_1lambda1(PyObject *__pyx_self, PyObject *__pyx_v_pair) {
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("lambda1 (wrapper)", 0);
  __pyx_r = __pyx_lambda_funcdef_lambda1(__pyx_self, ((PyObject *)__pyx_v_pair));

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_lambda_funcdef_lambda1(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_pair) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  __Pyx_RefNannySetupContext("lambda1", 0);
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_1 = __Pyx_GetItemInt(__pyx_v_pair, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 42, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_r = __pyx_t_1;
  __pyx_t_1 = 0;
  goto __pyx_L0;

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_AddTraceback("fwdpy.matrix.sort_keys_by_position.lambda1", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pyx":37
 *     return rv
 * 
 * cdef sort_keys_by_position(key_pair & keys,const mcont_t & mutations):             # <<<<<<<<<<<<<<
 *     #positions of neutral mutations
 *     pos = [mutations[i[0]].pos for i in keys.first]
 */

static PyObject *__pyx_f_5fwdpy_6matrix_sort_keys_by_position(__pyx_t_5fwdpy_6matrix_key_pair &__pyx_v_keys, fwdpy::mcont_t const &__pyx_v_mutations) {
  PyObject *__pyx_v_pos = NULL;
  PyObject *__pyx_v_i = NULL;
  CYTHON_UNUSED PyObject *__pyx_v_j = NULL;
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  std::vector<std::pair<size_t,unsigned int> > ::iterator __pyx_t_2;
  std::vector<std::pair<size_t,unsigned int> >  *__pyx_t_3;
  std::pair<size_t,unsigned int>  __pyx_t_4;
  PyObject *__pyx_t_5 = NULL;
  size_t __pyx_t_6;
  PyObject *__pyx_t_7 = NULL;
  PyObject *__pyx_t_8 = NULL;
  Py_ssize_t __pyx_t_9;
  PyObject *(*__pyx_t_10)(PyObject *);
  PyObject *__pyx_t_11 = NULL;
  PyObject *__pyx_t_12 = NULL;
  PyObject *(*__pyx_t_13)(PyObject *);
  std::vector<std::pair<size_t,unsigned int> >  __pyx_t_14;
  __Pyx_RefNannySetupContext("sort_keys_by_position", 0);

  /* "fwdpy/matrix.pyx":39
 * cdef sort_keys_by_position(key_pair & keys,const mcont_t & mutations):
 *     #positions of neutral mutations
 *     pos = [mutations[i[0]].pos for i in keys.first]             # <<<<<<<<<<<<<<
 *     keys.first=[i for j,i in sorted(zip(pos,keys.first),key=lambda pair: pair[0])]
 *     pos = [mutations[i[0]].pos for i in keys.second]
 */
  __pyx_t_1 = PyList_New(0); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 39, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_t_3 = &__pyx_v_keys.first;
  __pyx_t_2 = __pyx_t_3->begin();
  for (;;) {
    if (!(__pyx_t_2 != __pyx_t_3->end())) break;
    __pyx_t_4 = *__pyx_t_2;
    ++__pyx_t_2;
    __pyx_t_5 = __pyx_convert_pair_to_py_size_t____unsigned_int(__pyx_t_4); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 39, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_5);
    __Pyx_XDECREF_SET(__pyx_v_i, __pyx_t_5);
    __pyx_t_5 = 0;
    __pyx_t_5 = __Pyx_GetItemInt(__pyx_v_i, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 39, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_5);
    __pyx_t_6 = __Pyx_PyInt_As_size_t(__pyx_t_5); if (unlikely((__pyx_t_6 == (size_t)-1) && PyErr_Occurred())) __PYX_ERR(0, 39, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
    __pyx_t_5 = PyFloat_FromDouble((__pyx_v_mutations[__pyx_t_6]).pos); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 39, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_5);
    if (unlikely(__Pyx_ListComp_Append(__pyx_t_1, (PyObject*)__pyx_t_5))) __PYX_ERR(0, 39, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
  }
  __pyx_v_pos = ((PyObject*)__pyx_t_1);
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":40
 *     #positions of neutral mutations
 *     pos = [mutations[i[0]].pos for i in keys.first]
 *     keys.first=[i for j,i in sorted(zip(pos,keys.first),key=lambda pair: pair[0])]             # <<<<<<<<<<<<<<
 *     pos = [mutations[i[0]].pos for i in keys.second]
 *     keys.second=[i for j,i in sorted(zip(pos,keys.second),key=lambda pair: pair[0])]
 */
  __pyx_t_1 = PyList_New(0); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 40, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_t_5 = __pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_v_keys.first); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 40, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_5);
  __pyx_t_7 = PyTuple_New(2); if (unlikely(!__pyx_t_7)) __PYX_ERR(0, 40, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_7);
  __Pyx_INCREF(__pyx_v_pos);
  __Pyx_GIVEREF(__pyx_v_pos);
  PyTuple_SET_ITEM(__pyx_t_7, 0, __pyx_v_pos);
  __Pyx_GIVEREF(__pyx_t_5);
  PyTuple_SET_ITEM(__pyx_t_7, 1, __pyx_t_5);
  __pyx_t_5 = 0;
  __pyx_t_5 = __Pyx_PyObject_Call(__pyx_builtin_zip, __pyx_t_7, NULL); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 40, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_5);
  __Pyx_DECREF(__pyx_t_7); __pyx_t_7 = 0;
  __pyx_t_7 = PyTuple_New(1); if (unlikely(!__pyx_t_7)) __PYX_ERR(0, 40, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_7);
  __Pyx_GIVEREF(__pyx_t_5);
  PyTuple_SET_ITEM(__pyx_t_7, 0, __pyx_t_5);
  __pyx_t_5 = 0;
  __pyx_t_5 = PyDict_New(); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 40, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_5);
  __pyx_t_8 = __Pyx_CyFunction_NewEx(&__pyx_mdef_5fwdpy_6matrix_21sort_keys_by_position_lambda, 0, __pyx_n_s_sort_keys_by_position_locals_lam, NULL, __pyx_n_s_fwdpy_matrix, __pyx_d, NULL); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 40, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_8);
  if (PyDict_SetItem(__pyx_t_5, __pyx_n_s_key, __pyx_t_8) < 0) __PYX_ERR(0, 40, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
  __pyx_t_8 = __Pyx_PyObject_Call(__pyx_builtin_sorted, __pyx_t_7, __pyx_t_5); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 40, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_8);
  __Pyx_DECREF(__pyx_t_7); __pyx_t_7 = 0;
  __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
  if (likely(PyList_CheckExact(__pyx_t_8)) || PyTuple_CheckExact(__pyx_t_8)) {
    __pyx_t_5 = __pyx_t_8; __Pyx_INCREF(__pyx_t_5); __pyx_t_9 = 0;
    __pyx_t_10 = NULL;
  } else {
    __pyx_t_9 = -1; __pyx_t_5 = PyObject_GetIter(__pyx_t_8); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 40, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_5);
    __pyx_t_10 = Py_TYPE(__pyx_t_5)->tp_iternext; if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 40, __pyx_L1_error)
  }
  __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
  for (;;) {
    if (likely(!__pyx_t_10)) {
      if (likely(PyList_CheckExact(__pyx_t_5))) {
        if (__pyx_t_9 >= PyList_GET_SIZE(__pyx_t_5)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_8 = PyList_GET_ITEM(__pyx_t_5, __pyx_t_9); __Pyx_INCREF(__pyx_t_8); __pyx_t_9++; if (unlikely(0 < 0)) __PYX_ERR(0, 40, __pyx_L1_error)
        #else
        __pyx_t_8 = PySequence_ITEM(__pyx_t_5, __pyx_t_9); __pyx_t_9++; if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 40, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_8);
        #endif
      } else {
        if (__pyx_t_9 >= PyTuple_GET_SIZE(__pyx_t_5)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_8 = PyTuple_GET_ITEM(__pyx_t_5, __pyx_t_9); __Pyx_INCREF(__pyx_t_8); __pyx_t_9++; if (unlikely(0 < 0)) __PYX_ERR(0, 40, __pyx_L1_error)
        #else
        __pyx_t_8 = PySequence_ITEM(__pyx_t_5, __pyx_t_9); __pyx_t_9++; if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 40, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_8);
        #endif
      }
    } else {
      __pyx_t_8 = __pyx_t_10(__pyx_t_5);
      if (unlikely(!__pyx_t_8)) {
        PyObject* exc_type = PyErr_Occurred();
        if (exc_type) {
          if (likely(exc_type == PyExc_StopIteration || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration))) PyErr_Clear();
          else __PYX_ERR(0, 40, __pyx_L1_error)
        }
        break;
      }
      __Pyx_GOTREF(__pyx_t_8);
    }
    if ((likely(PyTuple_CheckExact(__pyx_t_8))) || (PyList_CheckExact(__pyx_t_8))) {
      PyObject* sequence = __pyx_t_8;
      #if !CYTHON_COMPILING_IN_PYPY
      Py_ssize_t size = Py_SIZE(sequence);
      #else
      Py_ssize_t size = PySequence_Size(sequence);
      #endif
      if (unlikely(size != 2)) {
        if (size > 2) __Pyx_RaiseTooManyValuesError(2);
        else if (size >= 0) __Pyx_RaiseNeedMoreValuesError(size);
        __PYX_ERR(0, 40, __pyx_L1_error)
      }
      #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
      if (likely(PyTuple_CheckExact(sequence))) {
        __pyx_t_7 = PyTuple_GET_ITEM(sequence, 0); 
        __pyx_t_11 = PyTuple_GET_ITEM(sequence, 1); 
      } else {
        __pyx_t_7 = PyList_GET_ITEM(sequence, 0); 
        __pyx_t_11 = PyList_GET_ITEM(sequence, 1); 
      }
      __Pyx_INCREF(__pyx_t_7);
      __Pyx_INCREF(__pyx_t_11);
      #else
      __pyx_t_7 = PySequence_ITEM(sequence, 0); if (unlikely(!__pyx_t_7)) __PYX_ERR(0, 40, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_7);
      __pyx_t_11 = PySequence_ITEM(sequence, 1); if (unlikely(!__pyx_t_11)) __PYX_ERR(0, 40, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_11);
      #endif
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
    } else {
      Py_ssize_t index = -1;
      __pyx_t_12 = PyObject_GetIter(__pyx_t_8); if (unlikely(!__pyx_t_12)) __PYX_ERR(0, 40, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_12);
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_13 = Py_TYPE(__pyx_t_12)->tp_iternext;
      index = 0; __pyx_t_7 = __pyx_t_13(__pyx_t_12); if (unlikely(!__pyx_t_7)) goto __pyx_L7_unpacking_failed;
      __Pyx_GOTREF(__pyx_t_7);
      index = 1; __pyx_t_11 = __pyx_t_13(__pyx_t_12); if (unlikely(!__pyx_t_11)) goto __pyx_L7_unpacking_failed;
      __Pyx_GOTREF(__pyx_t_11);
      if (__Pyx_IternextUnpackEndCheck(__pyx_t_13(__pyx_t_12), 2) < 0) __PYX_ERR(0, 40, __pyx_L1_error)
      __pyx_t_13 = NULL;
      __Pyx_DECREF(__pyx_t_12); __pyx_t_12 = 0;
      goto __pyx_L8_unpacking_done;
      __pyx_L7_unpacking_failed:;
      __Pyx_DECREF(__pyx_t_12); __pyx_t_12 = 0;
      __pyx_t_13 = NULL;
      if (__Pyx_IterFinish() == 0) __Pyx_RaiseNeedMoreValuesError(index);
      __PYX_ERR(0, 40, __pyx_L1_error)
      __pyx_L8_unpacking_done:;
    }
    __Pyx_XDECREF_SET(__pyx_v_j, __pyx_t_7);
    __pyx_t_7 = 0;
    __Pyx_XDECREF_SET(__pyx_v_i, __pyx_t_11);
    __pyx_t_11 = 0;
    if (unlikely(__Pyx_ListComp_Append(__pyx_t_1, (PyObject*)__pyx_v_i))) __PYX_ERR(0, 40, __pyx_L1_error)
  }
  __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
  __pyx_t_14 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_1); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 40, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
  __pyx_v_keys.first = __pyx_t_14;

  /* "fwdpy/matrix.pyx":41
 *     pos = [mutations[i[0]].pos for i in keys.first]
 *     keys.first=[i for j,i in sorted(zip(pos,keys.first),key=lambda pair: pair[0])]
 *     pos = [mutations[i[0]].pos for i in keys.second]             # <<<<<<<<<<<<<<
 *     keys.second=[i for j,i in sorted(zip(pos,keys.second),key=lambda pair: pair[0])]
 * 
 */
  __pyx_t_1 = PyList_New(0); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 41, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_t_3 = &__pyx_v_keys.second;
  __pyx_t_2 = __pyx_t_3->begin();
  for (;;) {
    if (!(__pyx_t_2 != __pyx_t_3->end())) break;
    __pyx_t_4 = *__pyx_t_2;
    ++__pyx_t_2;
    __pyx_t_5 = __pyx_convert_pair_to_py_size_t____unsigned_int(__pyx_t_4); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 41, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_5);
    __Pyx_XDECREF_SET(__pyx_v_i, __pyx_t_5);
    __pyx_t_5 = 0;
    __pyx_t_5 = __Pyx_GetItemInt(__pyx_v_i, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 41, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_5);
    __pyx_t_6 = __Pyx_PyInt_As_size_t(__pyx_t_5); if (unlikely((__pyx_t_6 == (size_t)-1) && PyErr_Occurred())) __PYX_ERR(0, 41, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
    __pyx_t_5 = PyFloat_FromDouble((__pyx_v_mutations[__pyx_t_6]).pos); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 41, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_5);
    if (unlikely(__Pyx_ListComp_Append(__pyx_t_1, (PyObject*)__pyx_t_5))) __PYX_ERR(0, 41, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
  }
  __Pyx_DECREF_SET(__pyx_v_pos, ((PyObject*)__pyx_t_1));
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":42
 *     keys.first=[i for j,i in sorted(zip(pos,keys.first),key=lambda pair: pair[0])]
 *     pos = [mutations[i[0]].pos for i in keys.second]
 *     keys.second=[i for j,i in sorted(zip(pos,keys.second),key=lambda pair: pair[0])]             # <<<<<<<<<<<<<<
 * 
 * cdef class DataMatrix(object):
 */
  __pyx_t_1 = PyList_New(0); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 42, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_t_5 = __pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_v_keys.second); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 42, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_5);
  __pyx_t_8 = PyTuple_New(2); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 42, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_8);
  __Pyx_INCREF(__pyx_v_pos);
  __Pyx_GIVEREF(__pyx_v_pos);
  PyTuple_SET_ITEM(__pyx_t_8, 0, __pyx_v_pos);
  __Pyx_GIVEREF(__pyx_t_5);
  PyTuple_SET_ITEM(__pyx_t_8, 1, __pyx_t_5);
  __pyx_t_5 = 0;
  __pyx_t_5 = __Pyx_PyObject_Call(__pyx_builtin_zip, __pyx_t_8, NULL); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 42, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_5);
  __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
  __pyx_t_8 = PyTuple_New(1); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 42, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_8);
  __Pyx_GIVEREF(__pyx_t_5);
  PyTuple_SET_ITEM(__pyx_t_8, 0, __pyx_t_5);
  __pyx_t_5 = 0;
  __pyx_t_5 = PyDict_New(); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 42, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_5);
  __pyx_t_11 = __Pyx_CyFunction_NewEx(&__pyx_mdef_5fwdpy_6matrix_21sort_keys_by_position_1lambda1, 0, __pyx_n_s_sort_keys_by_position_locals_lam, NULL, __pyx_n_s_fwdpy_matrix, __pyx_d, NULL); if (unlikely(!__pyx_t_11)) __PYX_ERR(0, 42, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_11);
  if (PyDict_SetItem(__pyx_t_5, __pyx_n_s_key, __pyx_t_11) < 0) __PYX_ERR(0, 42, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_11); __pyx_t_11 = 0;
  __pyx_t_11 = __Pyx_PyObject_Call(__pyx_builtin_sorted, __pyx_t_8, __pyx_t_5); if (unlikely(!__pyx_t_11)) __PYX_ERR(0, 42, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_11);
  __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
  __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
  if (likely(PyList_CheckExact(__pyx_t_11)) || PyTuple_CheckExact(__pyx_t_11)) {
    __pyx_t_5 = __pyx_t_11; __Pyx_INCREF(__pyx_t_5); __pyx_t_9 = 0;
    __pyx_t_10 = NULL;
  } else {
    __pyx_t_9 = -1; __pyx_t_5 = PyObject_GetIter(__pyx_t_11); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 42, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_5);
    __pyx_t_10 = Py_TYPE(__pyx_t_5)->tp_iternext; if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 42, __pyx_L1_error)
  }
  __Pyx_DECREF(__pyx_t_11); __pyx_t_11 = 0;
  for (;;) {
    if (likely(!__pyx_t_10)) {
      if (likely(PyList_CheckExact(__pyx_t_5))) {
        if (__pyx_t_9 >= PyList_GET_SIZE(__pyx_t_5)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_11 = PyList_GET_ITEM(__pyx_t_5, __pyx_t_9); __Pyx_INCREF(__pyx_t_11); __pyx_t_9++; if (unlikely(0 < 0)) __PYX_ERR(0, 42, __pyx_L1_error)
        #else
        __pyx_t_11 = PySequence_ITEM(__pyx_t_5, __pyx_t_9); __pyx_t_9++; if (unlikely(!__pyx_t_11)) __PYX_ERR(0, 42, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_11);
        #endif
      } else {
        if (__pyx_t_9 >= PyTuple_GET_SIZE(__pyx_t_5)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_11 = PyTuple_GET_ITEM(__pyx_t_5, __pyx_t_9); __Pyx_INCREF(__pyx_t_11); __pyx_t_9++; if (unlikely(0 < 0)) __PYX_ERR(0, 42, __pyx_L1_error)
        #else
        __pyx_t_11 = PySequence_ITEM(__pyx_t_5, __pyx_t_9); __pyx_t_9++; if (unlikely(!__pyx_t_11)) __PYX_ERR(0, 42, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_11);
        #endif
      }
    } else {
      __pyx_t_11 = __pyx_t_10(__pyx_t_5);
      if (unlikely(!__pyx_t_11)) {
        PyObject* exc_type = PyErr_Occurred();
        if (exc_type) {
          if (likely(exc_type == PyExc_StopIteration || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration))) PyErr_Clear();
          else __PYX_ERR(0, 42, __pyx_L1_error)
        }
        break;
      }
      __Pyx_GOTREF(__pyx_t_11);
    }
    if ((likely(PyTuple_CheckExact(__pyx_t_11))) || (PyList_CheckExact(__pyx_t_11))) {
      PyObject* sequence = __pyx_t_11;
      #if !CYTHON_COMPILING_IN_PYPY
      Py_ssize_t size = Py_SIZE(sequence);
      #else
      Py_ssize_t size = PySequence_Size(sequence);
      #endif
      if (unlikely(size != 2)) {
        if (size > 2) __Pyx_RaiseTooManyValuesError(2);
        else if (size >= 0) __Pyx_RaiseNeedMoreValuesError(size);
        __PYX_ERR(0, 42, __pyx_L1_error)
      }
      #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
      if (likely(PyTuple_CheckExact(sequence))) {
        __pyx_t_8 = PyTuple_GET_ITEM(sequence, 0); 
        __pyx_t_7 = PyTuple_GET_ITEM(sequence, 1); 
      } else {
        __pyx_t_8 = PyList_GET_ITEM(sequence, 0); 
        __pyx_t_7 = PyList_GET_ITEM(sequence, 1); 
      }
      __Pyx_INCREF(__pyx_t_8);
      __Pyx_INCREF(__pyx_t_7);
      #else
      __pyx_t_8 = PySequence_ITEM(sequence, 0); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 42, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __pyx_t_7 = PySequence_ITEM(sequence, 1); if (unlikely(!__pyx_t_7)) __PYX_ERR(0, 42, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_7);
      #endif
      __Pyx_DECREF(__pyx_t_11); __pyx_t_11 = 0;
    } else {
      Py_ssize_t index = -1;
      __pyx_t_12 = PyObject_GetIter(__pyx_t_11); if (unlikely(!__pyx_t_12)) __PYX_ERR(0, 42, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_12);
      __Pyx_DECREF(__pyx_t_11); __pyx_t_11 = 0;
      __pyx_t_13 = Py_TYPE(__pyx_t_12)->tp_iternext;
      index = 0; __pyx_t_8 = __pyx_t_13(__pyx_t_12); if (unlikely(!__pyx_t_8)) goto __pyx_L13_unpacking_failed;
      __Pyx_GOTREF(__pyx_t_8);
      index = 1; __pyx_t_7 = __pyx_t_13(__pyx_t_12); if (unlikely(!__pyx_t_7)) goto __pyx_L13_unpacking_failed;
      __Pyx_GOTREF(__pyx_t_7);
      if (__Pyx_IternextUnpackEndCheck(__pyx_t_13(__pyx_t_12), 2) < 0) __PYX_ERR(0, 42, __pyx_L1_error)
      __pyx_t_13 = NULL;
      __Pyx_DECREF(__pyx_t_12); __pyx_t_12 = 0;
      goto __pyx_L14_unpacking_done;
      __pyx_L13_unpacking_failed:;
      __Pyx_DECREF(__pyx_t_12); __pyx_t_12 = 0;
      __pyx_t_13 = NULL;
      if (__Pyx_IterFinish() == 0) __Pyx_RaiseNeedMoreValuesError(index);
      __PYX_ERR(0, 42, __pyx_L1_error)
      __pyx_L14_unpacking_done:;
    }
    __Pyx_XDECREF_SET(__pyx_v_j, __pyx_t_8);
    __pyx_t_8 = 0;
    __Pyx_XDECREF_SET(__pyx_v_i, __pyx_t_7);
    __pyx_t_7 = 0;
    if (unlikely(__Pyx_ListComp_Append(__pyx_t_1, (PyObject*)__pyx_v_i))) __PYX_ERR(0, 42, __pyx_L1_error)
  }
  __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
  __pyx_t_14 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_1); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 42, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
  __pyx_v_keys.second = __pyx_t_14;

  /* "fwdpy/matrix.pyx":37
 *     return rv
 * 
 * cdef sort_keys_by_position(key_pair & keys,const mcont_t & mutations):             # <<<<<<<<<<<<<<
 *     #positions of neutral mutations
 *     pos = [mutations[i[0]].pos for i in keys.first]
 */

  /* function exit code */
  __pyx_r = Py_None; __Pyx_INCREF(Py_None);
  goto __pyx_L0;
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_5);
  __Pyx_XDECREF(__pyx_t_7);
  __Pyx_XDECREF(__pyx_t_8);
  __Pyx_XDECREF(__pyx_t_11);
  __Pyx_XDECREF(__pyx_t_12);
  __Pyx_AddTraceback("fwdpy.matrix.sort_keys_by_position", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = 0;
  __pyx_L0:;
  __Pyx_XDECREF(__pyx_v_pos);
  __Pyx_XDECREF(__pyx_v_i);
  __Pyx_XDECREF(__pyx_v_j);
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pyx":51
 *     .. versionadded:: 0.0.4
 *     """
 *     def __cinit__(self,const data_matrix & d):             # <<<<<<<<<<<<<<
 *         self.neutral=array.array('h',d.neutral)
 *         self.selected=array.array('h',d.selected)
 */

/* Python wrapper */
static int __pyx_pw_5fwdpy_6matrix_10DataMatrix_1__cinit__(PyObject *__pyx_v_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/
static int __pyx_pw_5fwdpy_6matrix_10DataMatrix_1__cinit__(PyObject *__pyx_v_self, PyObject *__pyx_args, PyObject *__pyx_kwds) {
  struct KTfwd::data_matrix __pyx_v_d;
  int __pyx_r;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__cinit__ (wrapper)", 0);
  {
    static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_d,0};
    PyObject* values[1] = {0};
    if (unlikely(__pyx_kwds)) {
      Py_ssize_t kw_args;
      const Py_ssize_t pos_args = PyTuple_GET_SIZE(__pyx_args);
      switch (pos_args) {
        case  1: values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
        case  0: break;
        default: goto __pyx_L5_argtuple_error;
      }
      kw_args = PyDict_Size(__pyx_kwds);
      switch (pos_args) {
        case  0:
        if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_d)) != 0)) kw_args--;
        else goto __pyx_L5_argtuple_error;
      }
      if (unlikely(kw_args > 0)) {
        if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "__cinit__") < 0)) __PYX_ERR(0, 51, __pyx_L3_error)
      }
    } else if (PyTuple_GET_SIZE(__pyx_args) != 1) {
      goto __pyx_L5_argtuple_error;
    } else {
      values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
    }
    __pyx_v_d = __pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix(values[0]); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 51, __pyx_L3_error)
  }
  goto __pyx_L4_argument_unpacking_done;
  __pyx_L5_argtuple_error:;
  __Pyx_RaiseArgtupleInvalid("__cinit__", 1, 1, 1, PyTuple_GET_SIZE(__pyx_args)); __PYX_ERR(0, 51, __pyx_L3_error)
  __pyx_L3_error:;
  __Pyx_AddTraceback("fwdpy.matrix.DataMatrix.__cinit__", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __Pyx_RefNannyFinishContext();
  return -1;
  __pyx_L4_argument_unpacking_done:;
  __pyx_r = __pyx_pf_5fwdpy_6matrix_10DataMatrix___cinit__(((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)__pyx_v_self), __pyx_v_d);

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static int __pyx_pf_5fwdpy_6matrix_10DataMatrix___cinit__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self, struct KTfwd::data_matrix __pyx_v_d) {
  int __pyx_r;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  PyObject *__pyx_t_2 = NULL;
  PyObject *__pyx_t_3 = NULL;
  PyObject *__pyx_t_4 = NULL;
  int __pyx_t_5;
  PyObject *__pyx_t_6 = NULL;
  size_t __pyx_t_7;
  Py_ssize_t __pyx_t_8;
  __Pyx_RefNannySetupContext("__cinit__", 0);

  /* "fwdpy/matrix.pyx":52
 *     """
 *     def __cinit__(self,const data_matrix & d):
 *         self.neutral=array.array('h',d.neutral)             # <<<<<<<<<<<<<<
 *         self.selected=array.array('h',d.selected)
 *         self.neutral_positions=array.array('d',d.neutral_positions)
 */
  __pyx_t_2 = __Pyx_GetModuleGlobalName(__pyx_n_s_array); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 52, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __pyx_t_3 = __Pyx_PyObject_GetAttrStr(__pyx_t_2, __pyx_n_s_array); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 52, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  __pyx_t_2 = __pyx_convert_vector_to_py_char(__pyx_v_d.neutral); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 52, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __pyx_t_4 = NULL;
  __pyx_t_5 = 0;
  if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_3))) {
    __pyx_t_4 = PyMethod_GET_SELF(__pyx_t_3);
    if (likely(__pyx_t_4)) {
      PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_3);
      __Pyx_INCREF(__pyx_t_4);
      __Pyx_INCREF(function);
      __Pyx_DECREF_SET(__pyx_t_3, function);
      __pyx_t_5 = 1;
    }
  }
  #if CYTHON_FAST_PYCALL
  if (PyFunction_Check(__pyx_t_3)) {
    PyObject *__pyx_temp[3] = {__pyx_t_4, __pyx_n_s_h, __pyx_t_2};
    __pyx_t_1 = __Pyx_PyFunction_FastCall(__pyx_t_3, __pyx_temp+1-__pyx_t_5, 2+__pyx_t_5); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 52, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_4); __pyx_t_4 = 0;
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  } else
  #endif
  #if CYTHON_FAST_PYCCALL
  if (__Pyx_PyFastCFunction_Check(__pyx_t_3)) {
    PyObject *__pyx_temp[3] = {__pyx_t_4, __pyx_n_s_h, __pyx_t_2};
    __pyx_t_1 = __Pyx_PyCFunction_FastCall(__pyx_t_3, __pyx_temp+1-__pyx_t_5, 2+__pyx_t_5); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 52, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_4); __pyx_t_4 = 0;
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  } else
  #endif
  {
    __pyx_t_6 = PyTuple_New(2+__pyx_t_5); if (unlikely(!__pyx_t_6)) __PYX_ERR(0, 52, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_6);
    if (__pyx_t_4) {
      __Pyx_GIVEREF(__pyx_t_4); PyTuple_SET_ITEM(__pyx_t_6, 0, __pyx_t_4); __pyx_t_4 = NULL;
    }
    __Pyx_INCREF(__pyx_n_s_h);
    __Pyx_GIVEREF(__pyx_n_s_h);
    PyTuple_SET_ITEM(__pyx_t_6, 0+__pyx_t_5, __pyx_n_s_h);
    __Pyx_GIVEREF(__pyx_t_2);
    PyTuple_SET_ITEM(__pyx_t_6, 1+__pyx_t_5, __pyx_t_2);
    __pyx_t_2 = 0;
    __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_3, __pyx_t_6, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 52, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_6); __pyx_t_6 = 0;
  }
  __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  __Pyx_GIVEREF(__pyx_t_1);
  __Pyx_GOTREF(__pyx_v_self->neutral);
  __Pyx_DECREF(__pyx_v_self->neutral);
  __pyx_v_self->neutral = __pyx_t_1;
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":53
 *     def __cinit__(self,const data_matrix & d):
 *         self.neutral=array.array('h',d.neutral)
 *         self.selected=array.array('h',d.selected)             # <<<<<<<<<<<<<<
 *         self.neutral_positions=array.array('d',d.neutral_positions)
 *         self.selected_positions=array.array('d',d.selected_positions)
 */
  __pyx_t_3 = __Pyx_GetModuleGlobalName(__pyx_n_s_array); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 53, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __pyx_t_6 = __Pyx_PyObject_GetAttrStr(__pyx_t_3, __pyx_n_s_array); if (unlikely(!__pyx_t_6)) __PYX_ERR(0, 53, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_6);
  __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  __pyx_t_3 = __pyx_convert_vector_to_py_char(__pyx_v_d.selected); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 53, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __pyx_t_2 = NULL;
  __pyx_t_5 = 0;
  if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_6))) {
    __pyx_t_2 = PyMethod_GET_SELF(__pyx_t_6);
    if (likely(__pyx_t_2)) {
      PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_6);
      __Pyx_INCREF(__pyx_t_2);
      __Pyx_INCREF(function);
      __Pyx_DECREF_SET(__pyx_t_6, function);
      __pyx_t_5 = 1;
    }
  }
  #if CYTHON_FAST_PYCALL
  if (PyFunction_Check(__pyx_t_6)) {
    PyObject *__pyx_temp[3] = {__pyx_t_2, __pyx_n_s_h, __pyx_t_3};
    __pyx_t_1 = __Pyx_PyFunction_FastCall(__pyx_t_6, __pyx_temp+1-__pyx_t_5, 2+__pyx_t_5); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 53, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  } else
  #endif
  #if CYTHON_FAST_PYCCALL
  if (__Pyx_PyFastCFunction_Check(__pyx_t_6)) {
    PyObject *__pyx_temp[3] = {__pyx_t_2, __pyx_n_s_h, __pyx_t_3};
    __pyx_t_1 = __Pyx_PyCFunction_FastCall(__pyx_t_6, __pyx_temp+1-__pyx_t_5, 2+__pyx_t_5); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 53, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  } else
  #endif
  {
    __pyx_t_4 = PyTuple_New(2+__pyx_t_5); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 53, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    if (__pyx_t_2) {
      __Pyx_GIVEREF(__pyx_t_2); PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_t_2); __pyx_t_2 = NULL;
    }
    __Pyx_INCREF(__pyx_n_s_h);
    __Pyx_GIVEREF(__pyx_n_s_h);
    PyTuple_SET_ITEM(__pyx_t_4, 0+__pyx_t_5, __pyx_n_s_h);
    __Pyx_GIVEREF(__pyx_t_3);
    PyTuple_SET_ITEM(__pyx_t_4, 1+__pyx_t_5, __pyx_t_3);
    __pyx_t_3 = 0;
    __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_6, __pyx_t_4, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 53, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
  }
  __Pyx_DECREF(__pyx_t_6); __pyx_t_6 = 0;
  __Pyx_GIVEREF(__pyx_t_1);
  __Pyx_GOTREF(__pyx_v_self->selected);
  __Pyx_DECREF(__pyx_v_self->selected);
  __pyx_v_self->selected = __pyx_t_1;
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":54
 *         self.neutral=array.array('h',d.neutral)
 *         self.selected=array.array('h',d.selected)
 *         self.neutral_positions=array.array('d',d.neutral_positions)             # <<<<<<<<<<<<<<
 *         self.selected_positions=array.array('d',d.selected_positions)
 *         self.neutral_popfreq=array.array('d',d.neutral_popfreq)
 */
  __pyx_t_6 = __Pyx_GetModuleGlobalName(__pyx_n_s_array); if (unlikely(!__pyx_t_6)) __PYX_ERR(0, 54, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_6);
  __pyx_t_4 = __Pyx_PyObject_GetAttrStr(__pyx_t_6, __pyx_n_s_array); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 54, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_4);
  __Pyx_DECREF(__pyx_t_6); __pyx_t_6 = 0;
  __pyx_t_6 = __pyx_convert_vector_to_py_double(__pyx_v_d.neutral_positions); if (unlikely(!__pyx_t_6)) __PYX_ERR(0, 54, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_6);
  __pyx_t_3 = NULL;
  __pyx_t_5 = 0;
  if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_4))) {
    __pyx_t_3 = PyMethod_GET_SELF(__pyx_t_4);
    if (likely(__pyx_t_3)) {
      PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_4);
      __Pyx_INCREF(__pyx_t_3);
      __Pyx_INCREF(function);
      __Pyx_DECREF_SET(__pyx_t_4, function);
      __pyx_t_5 = 1;
    }
  }
  #if CYTHON_FAST_PYCALL
  if (PyFunction_Check(__pyx_t_4)) {
    PyObject *__pyx_temp[3] = {__pyx_t_3, __pyx_n_s_d, __pyx_t_6};
    __pyx_t_1 = __Pyx_PyFunction_FastCall(__pyx_t_4, __pyx_temp+1-__pyx_t_5, 2+__pyx_t_5); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 54, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_6); __pyx_t_6 = 0;
  } else
  #endif
  #if CYTHON_FAST_PYCCALL
  if (__Pyx_PyFastCFunction_Check(__pyx_t_4)) {
    PyObject *__pyx_temp[3] = {__pyx_t_3, __pyx_n_s_d, __pyx_t_6};
    __pyx_t_1 = __Pyx_PyCFunction_FastCall(__pyx_t_4, __pyx_temp+1-__pyx_t_5, 2+__pyx_t_5); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 54, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_6); __pyx_t_6 = 0;
  } else
  #endif
  {
    __pyx_t_2 = PyTuple_New(2+__pyx_t_5); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 54, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_2);
    if (__pyx_t_3) {
      __Pyx_GIVEREF(__pyx_t_3); PyTuple_SET_ITEM(__pyx_t_2, 0, __pyx_t_3); __pyx_t_3 = NULL;
    }
    __Pyx_INCREF(__pyx_n_s_d);
    __Pyx_GIVEREF(__pyx_n_s_d);
    PyTuple_SET_ITEM(__pyx_t_2, 0+__pyx_t_5, __pyx_n_s_d);
    __Pyx_GIVEREF(__pyx_t_6);
    PyTuple_SET_ITEM(__pyx_t_2, 1+__pyx_t_5, __pyx_t_6);
    __pyx_t_6 = 0;
    __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_4, __pyx_t_2, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 54, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  }
  __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
  __Pyx_GIVEREF(__pyx_t_1);
  __Pyx_GOTREF(__pyx_v_self->neutral_positions);
  __Pyx_DECREF(__pyx_v_self->neutral_positions);
  __pyx_v_self->neutral_positions = __pyx_t_1;
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":55
 *         self.selected=array.array('h',d.selected)
 *         self.neutral_positions=array.array('d',d.neutral_positions)
 *         self.selected_positions=array.array('d',d.selected_positions)             # <<<<<<<<<<<<<<
 *         self.neutral_popfreq=array.array('d',d.neutral_popfreq)
 *         self.selected_popfreq=array.array('d',d.selected_popfreq)
 */
  __pyx_t_4 = __Pyx_GetModuleGlobalName(__pyx_n_s_array); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 55, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_4);
  __pyx_t_2 = __Pyx_PyObject_GetAttrStr(__pyx_t_4, __pyx_n_s_array); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 55, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
  __pyx_t_4 = __pyx_convert_vector_to_py_double(__pyx_v_d.selected_positions); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 55, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_4);
  __pyx_t_6 = NULL;
  __pyx_t_5 = 0;
  if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_2))) {
    __pyx_t_6 = PyMethod_GET_SELF(__pyx_t_2);
    if (likely(__pyx_t_6)) {
      PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_2);
      __Pyx_INCREF(__pyx_t_6);
      __Pyx_INCREF(function);
      __Pyx_DECREF_SET(__pyx_t_2, function);
      __pyx_t_5 = 1;
    }
  }
  #if CYTHON_FAST_PYCALL
  if (PyFunction_Check(__pyx_t_2)) {
    PyObject *__pyx_temp[3] = {__pyx_t_6, __pyx_n_s_d, __pyx_t_4};
    __pyx_t_1 = __Pyx_PyFunction_FastCall(__pyx_t_2, __pyx_temp+1-__pyx_t_5, 2+__pyx_t_5); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 55, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_6); __pyx_t_6 = 0;
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
  } else
  #endif
  #if CYTHON_FAST_PYCCALL
  if (__Pyx_PyFastCFunction_Check(__pyx_t_2)) {
    PyObject *__pyx_temp[3] = {__pyx_t_6, __pyx_n_s_d, __pyx_t_4};
    __pyx_t_1 = __Pyx_PyCFunction_FastCall(__pyx_t_2, __pyx_temp+1-__pyx_t_5, 2+__pyx_t_5); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 55, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_6); __pyx_t_6 = 0;
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
  } else
  #endif
  {
    __pyx_t_3 = PyTuple_New(2+__pyx_t_5); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 55, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    if (__pyx_t_6) {
      __Pyx_GIVEREF(__pyx_t_6); PyTuple_SET_ITEM(__pyx_t_3, 0, __pyx_t_6); __pyx_t_6 = NULL;
    }
    __Pyx_INCREF(__pyx_n_s_d);
    __Pyx_GIVEREF(__pyx_n_s_d);
    PyTuple_SET_ITEM(__pyx_t_3, 0+__pyx_t_5, __pyx_n_s_d);
    __Pyx_GIVEREF(__pyx_t_4);
    PyTuple_SET_ITEM(__pyx_t_3, 1+__pyx_t_5, __pyx_t_4);
    __pyx_t_4 = 0;
    __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_2, __pyx_t_3, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 55, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  }
  __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  __Pyx_GIVEREF(__pyx_t_1);
  __Pyx_GOTREF(__pyx_v_self->selected_positions);
  __Pyx_DECREF(__pyx_v_self->selected_positions);
  __pyx_v_self->selected_positions = __pyx_t_1;
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":56
 *         self.neutral_positions=array.array('d',d.neutral_positions)
 *         self.selected_positions=array.array('d',d.selected_positions)
 *         self.neutral_popfreq=array.array('d',d.neutral_popfreq)             # <<<<<<<<<<<<<<
 *         self.selected_popfreq=array.array('d',d.selected_popfreq)
 *         self.nrow=d.nrow
 */
  __pyx_t_2 = __Pyx_GetModuleGlobalName(__pyx_n_s_array); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 56, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __pyx_t_3 = __Pyx_PyObject_GetAttrStr(__pyx_t_2, __pyx_n_s_array); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 56, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  __pyx_t_2 = __pyx_convert_vector_to_py_double(__pyx_v_d.neutral_popfreq); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 56, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __pyx_t_4 = NULL;
  __pyx_t_5 = 0;
  if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_3))) {
    __pyx_t_4 = PyMethod_GET_SELF(__pyx_t_3);
    if (likely(__pyx_t_4)) {
      PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_3);
      __Pyx_INCREF(__pyx_t_4);
      __Pyx_INCREF(function);
      __Pyx_DECREF_SET(__pyx_t_3, function);
      __pyx_t_5 = 1;
    }
  }
  #if CYTHON_FAST_PYCALL
  if (PyFunction_Check(__pyx_t_3)) {
    PyObject *__pyx_temp[3] = {__pyx_t_4, __pyx_n_s_d, __pyx_t_2};
    __pyx_t_1 = __Pyx_PyFunction_FastCall(__pyx_t_3, __pyx_temp+1-__pyx_t_5, 2+__pyx_t_5); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 56, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_4); __pyx_t_4 = 0;
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  } else
  #endif
  #if CYTHON_FAST_PYCCALL
  if (__Pyx_PyFastCFunction_Check(__pyx_t_3)) {
    PyObject *__pyx_temp[3] = {__pyx_t_4, __pyx_n_s_d, __pyx_t_2};
    __pyx_t_1 = __Pyx_PyCFunction_FastCall(__pyx_t_3, __pyx_temp+1-__pyx_t_5, 2+__pyx_t_5); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 56, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_4); __pyx_t_4 = 0;
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  } else
  #endif
  {
    __pyx_t_6 = PyTuple_New(2+__pyx_t_5); if (unlikely(!__pyx_t_6)) __PYX_ERR(0, 56, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_6);
    if (__pyx_t_4) {
      __Pyx_GIVEREF(__pyx_t_4); PyTuple_SET_ITEM(__pyx_t_6, 0, __pyx_t_4); __pyx_t_4 = NULL;
    }
    __Pyx_INCREF(__pyx_n_s_d);
    __Pyx_GIVEREF(__pyx_n_s_d);
    PyTuple_SET_ITEM(__pyx_t_6, 0+__pyx_t_5, __pyx_n_s_d);
    __Pyx_GIVEREF(__pyx_t_2);
    PyTuple_SET_ITEM(__pyx_t_6, 1+__pyx_t_5, __pyx_t_2);
    __pyx_t_2 = 0;
    __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_3, __pyx_t_6, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 56, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_6); __pyx_t_6 = 0;
  }
  __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  __Pyx_GIVEREF(__pyx_t_1);
  __Pyx_GOTREF(__pyx_v_self->neutral_popfreq);
  __Pyx_DECREF(__pyx_v_self->neutral_popfreq);
  __pyx_v_self->neutral_popfreq = __pyx_t_1;
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":57
 *         self.selected_positions=array.array('d',d.selected_positions)
 *         self.neutral_popfreq=array.array('d',d.neutral_popfreq)
 *         self.selected_popfreq=array.array('d',d.selected_popfreq)             # <<<<<<<<<<<<<<
 *         self.nrow=d.nrow
 *         self.nn=len(self.neutral_positions)
 */
  __pyx_t_3 = __Pyx_GetModuleGlobalName(__pyx_n_s_array); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 57, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __pyx_t_6 = __Pyx_PyObject_GetAttrStr(__pyx_t_3, __pyx_n_s_array); if (unlikely(!__pyx_t_6)) __PYX_ERR(0, 57, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_6);
  __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  __pyx_t_3 = __pyx_convert_vector_to_py_double(__pyx_v_d.selected_popfreq); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 57, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __pyx_t_2 = NULL;
  __pyx_t_5 = 0;
  if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_6))) {
    __pyx_t_2 = PyMethod_GET_SELF(__pyx_t_6);
    if (likely(__pyx_t_2)) {
      PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_6);
      __Pyx_INCREF(__pyx_t_2);
      __Pyx_INCREF(function);
      __Pyx_DECREF_SET(__pyx_t_6, function);
      __pyx_t_5 = 1;
    }
  }
  #if CYTHON_FAST_PYCALL
  if (PyFunction_Check(__pyx_t_6)) {
    PyObject *__pyx_temp[3] = {__pyx_t_2, __pyx_n_s_d, __pyx_t_3};
    __pyx_t_1 = __Pyx_PyFunction_FastCall(__pyx_t_6, __pyx_temp+1-__pyx_t_5, 2+__pyx_t_5); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 57, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  } else
  #endif
  #if CYTHON_FAST_PYCCALL
  if (__Pyx_PyFastCFunction_Check(__pyx_t_6)) {
    PyObject *__pyx_temp[3] = {__pyx_t_2, __pyx_n_s_d, __pyx_t_3};
    __pyx_t_1 = __Pyx_PyCFunction_FastCall(__pyx_t_6, __pyx_temp+1-__pyx_t_5, 2+__pyx_t_5); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 57, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  } else
  #endif
  {
    __pyx_t_4 = PyTuple_New(2+__pyx_t_5); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 57, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    if (__pyx_t_2) {
      __Pyx_GIVEREF(__pyx_t_2); PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_t_2); __pyx_t_2 = NULL;
    }
    __Pyx_INCREF(__pyx_n_s_d);
    __Pyx_GIVEREF(__pyx_n_s_d);
    PyTuple_SET_ITEM(__pyx_t_4, 0+__pyx_t_5, __pyx_n_s_d);
    __Pyx_GIVEREF(__pyx_t_3);
    PyTuple_SET_ITEM(__pyx_t_4, 1+__pyx_t_5, __pyx_t_3);
    __pyx_t_3 = 0;
    __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_6, __pyx_t_4, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 57, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
  }
  __Pyx_DECREF(__pyx_t_6); __pyx_t_6 = 0;
  __Pyx_GIVEREF(__pyx_t_1);
  __Pyx_GOTREF(__pyx_v_self->selected_popfreq);
  __Pyx_DECREF(__pyx_v_self->selected_popfreq);
  __pyx_v_self->selected_popfreq = __pyx_t_1;
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":58
 *         self.neutral_popfreq=array.array('d',d.neutral_popfreq)
 *         self.selected_popfreq=array.array('d',d.selected_popfreq)
 *         self.nrow=d.nrow             # <<<<<<<<<<<<<<
 *         self.nn=len(self.neutral_positions)
 *         self.ns=len(self.selected_positions)
 */
  __pyx_t_7 = __pyx_v_d.nrow;
  __pyx_v_self->nrow = __pyx_t_7;

  /* "fwdpy/matrix.pyx":59
 *         self.selected_popfreq=array.array('d',d.selected_popfreq)
 *         self.nrow=d.nrow
 *         self.nn=len(self.neutral_positions)             # <<<<<<<<<<<<<<
 *         self.ns=len(self.selected_positions)
 *     def nmatrix(self,dtype = numpy.dtype('i1')):
 */
  __pyx_t_1 = __pyx_v_self->neutral_positions;
  __Pyx_INCREF(__pyx_t_1);
  __pyx_t_8 = PyObject_Length(__pyx_t_1); if (unlikely(__pyx_t_8 == -1)) __PYX_ERR(0, 59, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
  __pyx_v_self->nn = __pyx_t_8;

  /* "fwdpy/matrix.pyx":60
 *         self.nrow=d.nrow
 *         self.nn=len(self.neutral_positions)
 *         self.ns=len(self.selected_positions)             # <<<<<<<<<<<<<<
 *     def nmatrix(self,dtype = numpy.dtype('i1')):
 *         """
 */
  __pyx_t_1 = __pyx_v_self->selected_positions;
  __Pyx_INCREF(__pyx_t_1);
  __pyx_t_8 = PyObject_Length(__pyx_t_1); if (unlikely(__pyx_t_8 == -1)) __PYX_ERR(0, 60, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
  __pyx_v_self->ns = __pyx_t_8;

  /* "fwdpy/matrix.pyx":51
 *     .. versionadded:: 0.0.4
 *     """
 *     def __cinit__(self,const data_matrix & d):             # <<<<<<<<<<<<<<
 *         self.neutral=array.array('h',d.neutral)
 *         self.selected=array.array('h',d.selected)
 */

  /* function exit code */
  __pyx_r = 0;
  goto __pyx_L0;
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_2);
  __Pyx_XDECREF(__pyx_t_3);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_XDECREF(__pyx_t_6);
  __Pyx_AddTraceback("fwdpy.matrix.DataMatrix.__cinit__", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = -1;
  __pyx_L0:;
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pyx":61
 *         self.nn=len(self.neutral_positions)
 *         self.ns=len(self.selected_positions)
 *     def nmatrix(self,dtype = numpy.dtype('i1')):             # <<<<<<<<<<<<<<
 *         """
 *         Returns matrix of neutral sites
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_3nmatrix(PyObject *__pyx_v_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/
static char __pyx_doc_5fwdpy_6matrix_10DataMatrix_2nmatrix[] = "\n        Returns matrix of neutral sites\n\n        :param dtype: (numpy.dtype('i1')) Data type for matrix.  Default is 8-bit integer.\n        :rtype: numpy.array or None if the matrix is empty\n        ";
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_3nmatrix(PyObject *__pyx_v_self, PyObject *__pyx_args, PyObject *__pyx_kwds) {
  PyObject *__pyx_v_dtype = 0;
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("nmatrix (wrapper)", 0);
  {
    static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_dtype,0};
    PyObject* values[1] = {0};
    values[0] = __pyx_k_;
    if (unlikely(__pyx_kwds)) {
      Py_ssize_t kw_args;
      const Py_ssize_t pos_args = PyTuple_GET_SIZE(__pyx_args);
      switch (pos_args) {
        case  1: values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
        case  0: break;
        default: goto __pyx_L5_argtuple_error;
      }
      kw_args = PyDict_Size(__pyx_kwds);
      switch (pos_args) {
        case  0:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_dtype);
          if (value) { values[0] = value; kw_args--; }
        }
      }
      if (unlikely(kw_args > 0)) {
        if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "nmatrix") < 0)) __PYX_ERR(0, 61, __pyx_L3_error)
      }
    } else {
      switch (PyTuple_GET_SIZE(__pyx_args)) {
        case  1: values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
        case  0: break;
        default: goto __pyx_L5_argtuple_error;
      }
    }
    __pyx_v_dtype = values[0];
  }
  goto __pyx_L4_argument_unpacking_done;
  __pyx_L5_argtuple_error:;
  __Pyx_RaiseArgtupleInvalid("nmatrix", 0, 0, 1, PyTuple_GET_SIZE(__pyx_args)); __PYX_ERR(0, 61, __pyx_L3_error)
  __pyx_L3_error:;
  __Pyx_AddTraceback("fwdpy.matrix.DataMatrix.nmatrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __Pyx_RefNannyFinishContext();
  return NULL;
  __pyx_L4_argument_unpacking_done:;
  __pyx_r = __pyx_pf_5fwdpy_6matrix_10DataMatrix_2nmatrix(((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)__pyx_v_self), __pyx_v_dtype);

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_2nmatrix(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self, PyObject *__pyx_v_dtype) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  int __pyx_t_1;
  PyObject *__pyx_t_2 = NULL;
  PyObject *__pyx_t_3 = NULL;
  PyObject *__pyx_t_4 = NULL;
  PyObject *__pyx_t_5 = NULL;
  PyObject *__pyx_t_6 = NULL;
  PyObject *__pyx_t_7 = NULL;
  int __pyx_t_8;
  __Pyx_RefNannySetupContext("nmatrix", 0);

  /* "fwdpy/matrix.pyx":68
 *         :rtype: numpy.array or None if the matrix is empty
 *         """
 *         if self.nn==0:             # <<<<<<<<<<<<<<
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 */
  __pyx_t_1 = ((__pyx_v_self->nn == 0) != 0);
  if (__pyx_t_1) {

    /* "fwdpy/matrix.pyx":69
 *         """
 *         if self.nn==0:
 *             return None             # <<<<<<<<<<<<<<
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 *     def smatrix(self,dtype = numpy.dtype('i1')):
 */
    __Pyx_XDECREF(__pyx_r);
    __Pyx_INCREF(Py_None);
    __pyx_r = Py_None;
    goto __pyx_L0;

    /* "fwdpy/matrix.pyx":68
 *         :rtype: numpy.array or None if the matrix is empty
 *         """
 *         if self.nn==0:             # <<<<<<<<<<<<<<
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 */
  }

  /* "fwdpy/matrix.pyx":70
 *         if self.nn==0:
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])             # <<<<<<<<<<<<<<
 *     def smatrix(self,dtype = numpy.dtype('i1')):
 *         """
 */
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_3 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 70, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __pyx_t_4 = __Pyx_PyObject_GetAttrStr(__pyx_t_3, __pyx_n_s_reshape); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 70, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_4);
  __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  __pyx_t_3 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 70, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __pyx_t_5 = __Pyx_PyObject_GetAttrStr(__pyx_t_3, __pyx_n_s_array); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 70, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_5);
  __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  __pyx_t_3 = PyTuple_New(1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 70, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __Pyx_INCREF(__pyx_v_self->neutral);
  __Pyx_GIVEREF(__pyx_v_self->neutral);
  PyTuple_SET_ITEM(__pyx_t_3, 0, __pyx_v_self->neutral);
  __pyx_t_6 = PyDict_New(); if (unlikely(!__pyx_t_6)) __PYX_ERR(0, 70, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_6);
  if (PyDict_SetItem(__pyx_t_6, __pyx_n_s_dtype, __pyx_v_dtype) < 0) __PYX_ERR(0, 70, __pyx_L1_error)
  __pyx_t_7 = __Pyx_PyObject_Call(__pyx_t_5, __pyx_t_3, __pyx_t_6); if (unlikely(!__pyx_t_7)) __PYX_ERR(0, 70, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_7);
  __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
  __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  __Pyx_DECREF(__pyx_t_6); __pyx_t_6 = 0;
  __pyx_t_6 = __Pyx_PyInt_From_int(__pyx_v_self->nrow); if (unlikely(!__pyx_t_6)) __PYX_ERR(0, 70, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_6);
  __pyx_t_3 = __Pyx_PyInt_From_int(__pyx_v_self->nn); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 70, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __pyx_t_5 = PyList_New(2); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 70, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_5);
  __Pyx_GIVEREF(__pyx_t_6);
  PyList_SET_ITEM(__pyx_t_5, 0, __pyx_t_6);
  __Pyx_GIVEREF(__pyx_t_3);
  PyList_SET_ITEM(__pyx_t_5, 1, __pyx_t_3);
  __pyx_t_6 = 0;
  __pyx_t_3 = 0;
  __pyx_t_3 = NULL;
  __pyx_t_8 = 0;
  if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_4))) {
    __pyx_t_3 = PyMethod_GET_SELF(__pyx_t_4);
    if (likely(__pyx_t_3)) {
      PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_4);
      __Pyx_INCREF(__pyx_t_3);
      __Pyx_INCREF(function);
      __Pyx_DECREF_SET(__pyx_t_4, function);
      __pyx_t_8 = 1;
    }
  }
  #if CYTHON_FAST_PYCALL
  if (PyFunction_Check(__pyx_t_4)) {
    PyObject *__pyx_temp[3] = {__pyx_t_3, __pyx_t_7, __pyx_t_5};
    __pyx_t_2 = __Pyx_PyFunction_FastCall(__pyx_t_4, __pyx_temp+1-__pyx_t_8, 2+__pyx_t_8); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 70, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
    __Pyx_GOTREF(__pyx_t_2);
    __Pyx_DECREF(__pyx_t_7); __pyx_t_7 = 0;
    __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
  } else
  #endif
  #if CYTHON_FAST_PYCCALL
  if (__Pyx_PyFastCFunction_Check(__pyx_t_4)) {
    PyObject *__pyx_temp[3] = {__pyx_t_3, __pyx_t_7, __pyx_t_5};
    __pyx_t_2 = __Pyx_PyCFunction_FastCall(__pyx_t_4, __pyx_temp+1-__pyx_t_8, 2+__pyx_t_8); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 70, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
    __Pyx_GOTREF(__pyx_t_2);
    __Pyx_DECREF(__pyx_t_7); __pyx_t_7 = 0;
    __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
  } else
  #endif
  {
    __pyx_t_6 = PyTuple_New(2+__pyx_t_8); if (unlikely(!__pyx_t_6)) __PYX_ERR(0, 70, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_6);
    if (__pyx_t_3) {
      __Pyx_GIVEREF(__pyx_t_3); PyTuple_SET_ITEM(__pyx_t_6, 0, __pyx_t_3); __pyx_t_3 = NULL;
    }
    __Pyx_GIVEREF(__pyx_t_7);
    PyTuple_SET_ITEM(__pyx_t_6, 0+__pyx_t_8, __pyx_t_7);
    __Pyx_GIVEREF(__pyx_t_5);
    PyTuple_SET_ITEM(__pyx_t_6, 1+__pyx_t_8, __pyx_t_5);
    __pyx_t_7 = 0;
    __pyx_t_5 = 0;
    __pyx_t_2 = __Pyx_PyObject_Call(__pyx_t_4, __pyx_t_6, NULL); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 70, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_2);
    __Pyx_DECREF(__pyx_t_6); __pyx_t_6 = 0;
  }
  __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
  __pyx_r = __pyx_t_2;
  __pyx_t_2 = 0;
  goto __pyx_L0;

  /* "fwdpy/matrix.pyx":61
 *         self.nn=len(self.neutral_positions)
 *         self.ns=len(self.selected_positions)
 *     def nmatrix(self,dtype = numpy.dtype('i1')):             # <<<<<<<<<<<<<<
 *         """
 *         Returns matrix of neutral sites
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_2);
  __Pyx_XDECREF(__pyx_t_3);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_XDECREF(__pyx_t_5);
  __Pyx_XDECREF(__pyx_t_6);
  __Pyx_XDECREF(__pyx_t_7);
  __Pyx_AddTraceback("fwdpy.matrix.DataMatrix.nmatrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pyx":71
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 *     def smatrix(self,dtype = numpy.dtype('i1')):             # <<<<<<<<<<<<<<
 *         """
 *         Returns matrix of selected sites
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_5smatrix(PyObject *__pyx_v_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/
static char __pyx_doc_5fwdpy_6matrix_10DataMatrix_4smatrix[] = "\n        Returns matrix of selected sites\n\n        :param dtype: (numpy.dtype('i1')) Data type for matrix.  Default is 8-bit integer.\n        :rtype: numpy.array or None if the matrix is empty\n        ";
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_5smatrix(PyObject *__pyx_v_self, PyObject *__pyx_args, PyObject *__pyx_kwds) {
  PyObject *__pyx_v_dtype = 0;
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("smatrix (wrapper)", 0);
  {
    static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_dtype,0};
    PyObject* values[1] = {0};
    values[0] = __pyx_k__2;
    if (unlikely(__pyx_kwds)) {
      Py_ssize_t kw_args;
      const Py_ssize_t pos_args = PyTuple_GET_SIZE(__pyx_args);
      switch (pos_args) {
        case  1: values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
        case  0: break;
        default: goto __pyx_L5_argtuple_error;
      }
      kw_args = PyDict_Size(__pyx_kwds);
      switch (pos_args) {
        case  0:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_dtype);
          if (value) { values[0] = value; kw_args--; }
        }
      }
      if (unlikely(kw_args > 0)) {
        if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "smatrix") < 0)) __PYX_ERR(0, 71, __pyx_L3_error)
      }
    } else {
      switch (PyTuple_GET_SIZE(__pyx_args)) {
        case  1: values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
        case  0: break;
        default: goto __pyx_L5_argtuple_error;
      }
    }
    __pyx_v_dtype = values[0];
  }
  goto __pyx_L4_argument_unpacking_done;
  __pyx_L5_argtuple_error:;
  __Pyx_RaiseArgtupleInvalid("smatrix", 0, 0, 1, PyTuple_GET_SIZE(__pyx_args)); __PYX_ERR(0, 71, __pyx_L3_error)
  __pyx_L3_error:;
  __Pyx_AddTraceback("fwdpy.matrix.DataMatrix.smatrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __Pyx_RefNannyFinishContext();
  return NULL;
  __pyx_L4_argument_unpacking_done:;
  __pyx_r = __pyx_pf_5fwdpy_6matrix_10DataMatrix_4smatrix(((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)__pyx_v_self), __pyx_v_dtype);

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_4smatrix(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self, PyObject *__pyx_v_dtype) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  int __pyx_t_1;
  PyObject *__pyx_t_2 = NULL;
  PyObject *__pyx_t_3 = NULL;
  PyObject *__pyx_t_4 = NULL;
  PyObject *__pyx_t_5 = NULL;
  PyObject *__pyx_t_6 = NULL;
  PyObject *__pyx_t_7 = NULL;
  int __pyx_t_8;
  __Pyx_RefNannySetupContext("smatrix", 0);

  /* "fwdpy/matrix.pyx":78
 *         :rtype: numpy.array or None if the matrix is empty
 *         """
 *         if self.ns==0:             # <<<<<<<<<<<<<<
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 */
  __pyx_t_1 = ((__pyx_v_self->ns == 0) != 0);
  if (__pyx_t_1) {

    /* "fwdpy/matrix.pyx":79
 *         """
 *         if self.ns==0:
 *             return None             # <<<<<<<<<<<<<<
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 *     def matrix(self,dtype = numpy.dtype('i1')):
 */
    __Pyx_XDECREF(__pyx_r);
    __Pyx_INCREF(Py_None);
    __pyx_r = Py_None;
    goto __pyx_L0;

    /* "fwdpy/matrix.pyx":78
 *         :rtype: numpy.array or None if the matrix is empty
 *         """
 *         if self.ns==0:             # <<<<<<<<<<<<<<
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 */
  }

  /* "fwdpy/matrix.pyx":80
 *         if self.ns==0:
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])             # <<<<<<<<<<<<<<
 *     def matrix(self,dtype = numpy.dtype('i1')):
 *         """
 */
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_3 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 80, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __pyx_t_4 = __Pyx_PyObject_GetAttrStr(__pyx_t_3, __pyx_n_s_reshape); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 80, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_4);
  __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  __pyx_t_3 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 80, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __pyx_t_5 = __Pyx_PyObject_GetAttrStr(__pyx_t_3, __pyx_n_s_array); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 80, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_5);
  __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  __pyx_t_3 = PyTuple_New(1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 80, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __Pyx_INCREF(__pyx_v_self->neutral);
  __Pyx_GIVEREF(__pyx_v_self->neutral);
  PyTuple_SET_ITEM(__pyx_t_3, 0, __pyx_v_self->neutral);
  __pyx_t_6 = PyDict_New(); if (unlikely(!__pyx_t_6)) __PYX_ERR(0, 80, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_6);
  if (PyDict_SetItem(__pyx_t_6, __pyx_n_s_dtype, __pyx_v_dtype) < 0) __PYX_ERR(0, 80, __pyx_L1_error)
  __pyx_t_7 = __Pyx_PyObject_Call(__pyx_t_5, __pyx_t_3, __pyx_t_6); if (unlikely(!__pyx_t_7)) __PYX_ERR(0, 80, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_7);
  __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
  __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  __Pyx_DECREF(__pyx_t_6); __pyx_t_6 = 0;
  __pyx_t_6 = __Pyx_PyInt_From_int(__pyx_v_self->nrow); if (unlikely(!__pyx_t_6)) __PYX_ERR(0, 80, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_6);
  __pyx_t_3 = __Pyx_PyInt_From_int(__pyx_v_self->nn); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 80, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __pyx_t_5 = PyList_New(2); if (unlikely(!__pyx_t_5)) __PYX_ERR(0, 80, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_5);
  __Pyx_GIVEREF(__pyx_t_6);
  PyList_SET_ITEM(__pyx_t_5, 0, __pyx_t_6);
  __Pyx_GIVEREF(__pyx_t_3);
  PyList_SET_ITEM(__pyx_t_5, 1, __pyx_t_3);
  __pyx_t_6 = 0;
  __pyx_t_3 = 0;
  __pyx_t_3 = NULL;
  __pyx_t_8 = 0;
  if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_4))) {
    __pyx_t_3 = PyMethod_GET_SELF(__pyx_t_4);
    if (likely(__pyx_t_3)) {
      PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_4);
      __Pyx_INCREF(__pyx_t_3);
      __Pyx_INCREF(function);
      __Pyx_DECREF_SET(__pyx_t_4, function);
      __pyx_t_8 = 1;
    }
  }
  #if CYTHON_FAST_PYCALL
  if (PyFunction_Check(__pyx_t_4)) {
    PyObject *__pyx_temp[3] = {__pyx_t_3, __pyx_t_7, __pyx_t_5};
    __pyx_t_2 = __Pyx_PyFunction_FastCall(__pyx_t_4, __pyx_temp+1-__pyx_t_8, 2+__pyx_t_8); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 80, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
    __Pyx_GOTREF(__pyx_t_2);
    __Pyx_DECREF(__pyx_t_7); __pyx_t_7 = 0;
    __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
  } else
  #endif
  #if CYTHON_FAST_PYCCALL
  if (__Pyx_PyFastCFunction_Check(__pyx_t_4)) {
    PyObject *__pyx_temp[3] = {__pyx_t_3, __pyx_t_7, __pyx_t_5};
    __pyx_t_2 = __Pyx_PyCFunction_FastCall(__pyx_t_4, __pyx_temp+1-__pyx_t_8, 2+__pyx_t_8); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 80, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
    __Pyx_GOTREF(__pyx_t_2);
    __Pyx_DECREF(__pyx_t_7); __pyx_t_7 = 0;
    __Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
  } else
  #endif
  {
    __pyx_t_6 = PyTuple_New(2+__pyx_t_8); if (unlikely(!__pyx_t_6)) __PYX_ERR(0, 80, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_6);
    if (__pyx_t_3) {
      __Pyx_GIVEREF(__pyx_t_3); PyTuple_SET_ITEM(__pyx_t_6, 0, __pyx_t_3); __pyx_t_3 = NULL;
    }
    __Pyx_GIVEREF(__pyx_t_7);
    PyTuple_SET_ITEM(__pyx_t_6, 0+__pyx_t_8, __pyx_t_7);
    __Pyx_GIVEREF(__pyx_t_5);
    PyTuple_SET_ITEM(__pyx_t_6, 1+__pyx_t_8, __pyx_t_5);
    __pyx_t_7 = 0;
    __pyx_t_5 = 0;
    __pyx_t_2 = __Pyx_PyObject_Call(__pyx_t_4, __pyx_t_6, NULL); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 80, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_2);
    __Pyx_DECREF(__pyx_t_6); __pyx_t_6 = 0;
  }
  __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
  __pyx_r = __pyx_t_2;
  __pyx_t_2 = 0;
  goto __pyx_L0;

  /* "fwdpy/matrix.pyx":71
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 *     def smatrix(self,dtype = numpy.dtype('i1')):             # <<<<<<<<<<<<<<
 *         """
 *         Returns matrix of selected sites
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_2);
  __Pyx_XDECREF(__pyx_t_3);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_XDECREF(__pyx_t_5);
  __Pyx_XDECREF(__pyx_t_6);
  __Pyx_XDECREF(__pyx_t_7);
  __Pyx_AddTraceback("fwdpy.matrix.DataMatrix.smatrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pyx":81
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 *     def matrix(self,dtype = numpy.dtype('i1')):             # <<<<<<<<<<<<<<
 *         """
 *         Returns matrix of neutral and selected sites.  If either matrix is empty, the other
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_7matrix(PyObject *__pyx_v_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/
static char __pyx_doc_5fwdpy_6matrix_10DataMatrix_6matrix[] = "\n        Returns matrix of neutral and selected sites.  If either matrix is empty, the other\n        is returned.  Otherwise, the neutral and selected matrix are appended (neutral columns\n        first, then selected).\n\n        :param dtype: (numpy.dtype('i1')) Data type for matrix.  Default is 8-bit integer.\n        :rtype: numpy.array or None if the matrix is empty\n        ";
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_7matrix(PyObject *__pyx_v_self, PyObject *__pyx_args, PyObject *__pyx_kwds) {
  PyObject *__pyx_v_dtype = 0;
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("matrix (wrapper)", 0);
  {
    static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_dtype,0};
    PyObject* values[1] = {0};
    values[0] = __pyx_k__3;
    if (unlikely(__pyx_kwds)) {
      Py_ssize_t kw_args;
      const Py_ssize_t pos_args = PyTuple_GET_SIZE(__pyx_args);
      switch (pos_args) {
        case  1: values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
        case  0: break;
        default: goto __pyx_L5_argtuple_error;
      }
      kw_args = PyDict_Size(__pyx_kwds);
      switch (pos_args) {
        case  0:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_dtype);
          if (value) { values[0] = value; kw_args--; }
        }
      }
      if (unlikely(kw_args > 0)) {
        if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "matrix") < 0)) __PYX_ERR(0, 81, __pyx_L3_error)
      }
    } else {
      switch (PyTuple_GET_SIZE(__pyx_args)) {
        case  1: values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
        case  0: break;
        default: goto __pyx_L5_argtuple_error;
      }
    }
    __pyx_v_dtype = values[0];
  }
  goto __pyx_L4_argument_unpacking_done;
  __pyx_L5_argtuple_error:;
  __Pyx_RaiseArgtupleInvalid("matrix", 0, 0, 1, PyTuple_GET_SIZE(__pyx_args)); __PYX_ERR(0, 81, __pyx_L3_error)
  __pyx_L3_error:;
  __Pyx_AddTraceback("fwdpy.matrix.DataMatrix.matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __Pyx_RefNannyFinishContext();
  return NULL;
  __pyx_L4_argument_unpacking_done:;
  __pyx_r = __pyx_pf_5fwdpy_6matrix_10DataMatrix_6matrix(((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)__pyx_v_self), __pyx_v_dtype);

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_6matrix(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self, PyObject *__pyx_v_dtype) {
  PyObject *__pyx_v_n = NULL;
  PyObject *__pyx_v_s = NULL;
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  PyObject *__pyx_t_2 = NULL;
  PyObject *__pyx_t_3 = NULL;
  PyObject *__pyx_t_4 = NULL;
  int __pyx_t_5;
  int __pyx_t_6;
  int __pyx_t_7;
  __Pyx_RefNannySetupContext("matrix", 0);

  /* "fwdpy/matrix.pyx":90
 *         :rtype: numpy.array or None if the matrix is empty
 *         """
 *         n = self.nmatrix(dtype)             # <<<<<<<<<<<<<<
 *         s = self.smatrix(dtype)
 *         if n is None:
 */
  __pyx_t_2 = __Pyx_PyObject_GetAttrStr(((PyObject *)__pyx_v_self), __pyx_n_s_nmatrix); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 90, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __pyx_t_3 = NULL;
  if (CYTHON_UNPACK_METHODS && likely(PyMethod_Check(__pyx_t_2))) {
    __pyx_t_3 = PyMethod_GET_SELF(__pyx_t_2);
    if (likely(__pyx_t_3)) {
      PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_2);
      __Pyx_INCREF(__pyx_t_3);
      __Pyx_INCREF(function);
      __Pyx_DECREF_SET(__pyx_t_2, function);
    }
  }
  if (!__pyx_t_3) {
    __pyx_t_1 = __Pyx_PyObject_CallOneArg(__pyx_t_2, __pyx_v_dtype); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 90, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
  } else {
    #if CYTHON_FAST_PYCALL
    if (PyFunction_Check(__pyx_t_2)) {
      PyObject *__pyx_temp[2] = {__pyx_t_3, __pyx_v_dtype};
      __pyx_t_1 = __Pyx_PyFunction_FastCall(__pyx_t_2, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 90, __pyx_L1_error)
      __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
      __Pyx_GOTREF(__pyx_t_1);
    } else
    #endif
    #if CYTHON_FAST_PYCCALL
    if (__Pyx_PyFastCFunction_Check(__pyx_t_2)) {
      PyObject *__pyx_temp[2] = {__pyx_t_3, __pyx_v_dtype};
      __pyx_t_1 = __Pyx_PyCFunction_FastCall(__pyx_t_2, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 90, __pyx_L1_error)
      __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
      __Pyx_GOTREF(__pyx_t_1);
    } else
    #endif
    {
      __pyx_t_4 = PyTuple_New(1+1); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 90, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_4);
      __Pyx_GIVEREF(__pyx_t_3); PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_t_3); __pyx_t_3 = NULL;
      __Pyx_INCREF(__pyx_v_dtype);
      __Pyx_GIVEREF(__pyx_v_dtype);
      PyTuple_SET_ITEM(__pyx_t_4, 0+1, __pyx_v_dtype);
      __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_2, __pyx_t_4, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 90, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_1);
      __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
    }
  }
  __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  __pyx_v_n = __pyx_t_1;
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":91
 *         """
 *         n = self.nmatrix(dtype)
 *         s = self.smatrix(dtype)             # <<<<<<<<<<<<<<
 *         if n is None:
 *             if s is None: return None
 */
  __pyx_t_2 = __Pyx_PyObject_GetAttrStr(((PyObject *)__pyx_v_self), __pyx_n_s_smatrix); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 91, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __pyx_t_4 = NULL;
  if (CYTHON_UNPACK_METHODS && likely(PyMethod_Check(__pyx_t_2))) {
    __pyx_t_4 = PyMethod_GET_SELF(__pyx_t_2);
    if (likely(__pyx_t_4)) {
      PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_2);
      __Pyx_INCREF(__pyx_t_4);
      __Pyx_INCREF(function);
      __Pyx_DECREF_SET(__pyx_t_2, function);
    }
  }
  if (!__pyx_t_4) {
    __pyx_t_1 = __Pyx_PyObject_CallOneArg(__pyx_t_2, __pyx_v_dtype); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 91, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
  } else {
    #if CYTHON_FAST_PYCALL
    if (PyFunction_Check(__pyx_t_2)) {
      PyObject *__pyx_temp[2] = {__pyx_t_4, __pyx_v_dtype};
      __pyx_t_1 = __Pyx_PyFunction_FastCall(__pyx_t_2, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 91, __pyx_L1_error)
      __Pyx_XDECREF(__pyx_t_4); __pyx_t_4 = 0;
      __Pyx_GOTREF(__pyx_t_1);
    } else
    #endif
    #if CYTHON_FAST_PYCCALL
    if (__Pyx_PyFastCFunction_Check(__pyx_t_2)) {
      PyObject *__pyx_temp[2] = {__pyx_t_4, __pyx_v_dtype};
      __pyx_t_1 = __Pyx_PyCFunction_FastCall(__pyx_t_2, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 91, __pyx_L1_error)
      __Pyx_XDECREF(__pyx_t_4); __pyx_t_4 = 0;
      __Pyx_GOTREF(__pyx_t_1);
    } else
    #endif
    {
      __pyx_t_3 = PyTuple_New(1+1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 91, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_3);
      __Pyx_GIVEREF(__pyx_t_4); PyTuple_SET_ITEM(__pyx_t_3, 0, __pyx_t_4); __pyx_t_4 = NULL;
      __Pyx_INCREF(__pyx_v_dtype);
      __Pyx_GIVEREF(__pyx_v_dtype);
      PyTuple_SET_ITEM(__pyx_t_3, 0+1, __pyx_v_dtype);
      __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_2, __pyx_t_3, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 91, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_1);
      __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    }
  }
  __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  __pyx_v_s = __pyx_t_1;
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":92
 *         n = self.nmatrix(dtype)
 *         s = self.smatrix(dtype)
 *         if n is None:             # <<<<<<<<<<<<<<
 *             if s is None: return None
 *             else: return s
 */
  __pyx_t_5 = (__pyx_v_n == Py_None);
  __pyx_t_6 = (__pyx_t_5 != 0);
  if (__pyx_t_6) {

    /* "fwdpy/matrix.pyx":93
 *         s = self.smatrix(dtype)
 *         if n is None:
 *             if s is None: return None             # <<<<<<<<<<<<<<
 *             else: return s
 *         if s is None: return n
 */
    __pyx_t_6 = (__pyx_v_s == Py_None);
    __pyx_t_5 = (__pyx_t_6 != 0);
    if (__pyx_t_5) {
      __Pyx_XDECREF(__pyx_r);
      __Pyx_INCREF(Py_None);
      __pyx_r = Py_None;
      goto __pyx_L0;
    }

    /* "fwdpy/matrix.pyx":94
 *         if n is None:
 *             if s is None: return None
 *             else: return s             # <<<<<<<<<<<<<<
 *         if s is None: return n
 *         return numpy.append(n,s,1)
 */
    /*else*/ {
      __Pyx_XDECREF(__pyx_r);
      __Pyx_INCREF(__pyx_v_s);
      __pyx_r = __pyx_v_s;
      goto __pyx_L0;
    }

    /* "fwdpy/matrix.pyx":92
 *         n = self.nmatrix(dtype)
 *         s = self.smatrix(dtype)
 *         if n is None:             # <<<<<<<<<<<<<<
 *             if s is None: return None
 *             else: return s
 */
  }

  /* "fwdpy/matrix.pyx":95
 *             if s is None: return None
 *             else: return s
 *         if s is None: return n             # <<<<<<<<<<<<<<
 *         return numpy.append(n,s,1)
 * 
 */
  __pyx_t_5 = (__pyx_v_s == Py_None);
  __pyx_t_6 = (__pyx_t_5 != 0);
  if (__pyx_t_6) {
    __Pyx_XDECREF(__pyx_r);
    __Pyx_INCREF(__pyx_v_n);
    __pyx_r = __pyx_v_n;
    goto __pyx_L0;
  }

  /* "fwdpy/matrix.pyx":96
 *             else: return s
 *         if s is None: return n
 *         return numpy.append(n,s,1)             # <<<<<<<<<<<<<<
 * 
 * cdef class GenotypeMatrix(DataMatrix):
 */
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_2 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 96, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __pyx_t_3 = __Pyx_PyObject_GetAttrStr(__pyx_t_2, __pyx_n_s_append); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 96, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  __pyx_t_2 = NULL;
  __pyx_t_7 = 0;
  if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_3))) {
    __pyx_t_2 = PyMethod_GET_SELF(__pyx_t_3);
    if (likely(__pyx_t_2)) {
      PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_3);
      __Pyx_INCREF(__pyx_t_2);
      __Pyx_INCREF(function);
      __Pyx_DECREF_SET(__pyx_t_3, function);
      __pyx_t_7 = 1;
    }
  }
  #if CYTHON_FAST_PYCALL
  if (PyFunction_Check(__pyx_t_3)) {
    PyObject *__pyx_temp[4] = {__pyx_t_2, __pyx_v_n, __pyx_v_s, __pyx_int_1};
    __pyx_t_1 = __Pyx_PyFunction_FastCall(__pyx_t_3, __pyx_temp+1-__pyx_t_7, 3+__pyx_t_7); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 96, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;
    __Pyx_GOTREF(__pyx_t_1);
  } else
  #endif
  #if CYTHON_FAST_PYCCALL
  if (__Pyx_PyFastCFunction_Check(__pyx_t_3)) {
    PyObject *__pyx_temp[4] = {__pyx_t_2, __pyx_v_n, __pyx_v_s, __pyx_int_1};
    __pyx_t_1 = __Pyx_PyCFunction_FastCall(__pyx_t_3, __pyx_temp+1-__pyx_t_7, 3+__pyx_t_7); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 96, __pyx_L1_error)
    __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;
    __Pyx_GOTREF(__pyx_t_1);
  } else
  #endif
  {
    __pyx_t_4 = PyTuple_New(3+__pyx_t_7); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 96, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    if (__pyx_t_2) {
      __Pyx_GIVEREF(__pyx_t_2); PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_t_2); __pyx_t_2 = NULL;
    }
    __Pyx_INCREF(__pyx_v_n);
    __Pyx_GIVEREF(__pyx_v_n);
    PyTuple_SET_ITEM(__pyx_t_4, 0+__pyx_t_7, __pyx_v_n);
    __Pyx_INCREF(__pyx_v_s);
    __Pyx_GIVEREF(__pyx_v_s);
    PyTuple_SET_ITEM(__pyx_t_4, 1+__pyx_t_7, __pyx_v_s);
    __Pyx_INCREF(__pyx_int_1);
    __Pyx_GIVEREF(__pyx_int_1);
    PyTuple_SET_ITEM(__pyx_t_4, 2+__pyx_t_7, __pyx_int_1);
    __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_3, __pyx_t_4, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 96, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
  }
  __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  __pyx_r = __pyx_t_1;
  __pyx_t_1 = 0;
  goto __pyx_L0;

  /* "fwdpy/matrix.pyx":81
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 *     def matrix(self,dtype = numpy.dtype('i1')):             # <<<<<<<<<<<<<<
 *         """
 *         Returns matrix of neutral and selected sites.  If either matrix is empty, the other
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_2);
  __Pyx_XDECREF(__pyx_t_3);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_AddTraceback("fwdpy.matrix.DataMatrix.matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_XDECREF(__pyx_v_n);
  __Pyx_XDECREF(__pyx_v_s);
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pxd":27
 * 
 * cdef class DataMatrix(object):
 *     cdef readonly object neutral             # <<<<<<<<<<<<<<
 *     """Data for neutral positions"""
 *     cdef readonly object selected
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_7neutral_1__get__(PyObject *__pyx_v_self); /*proto*/
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_7neutral_1__get__(PyObject *__pyx_v_self) {
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__ (wrapper)", 0);
  __pyx_r = __pyx_pf_5fwdpy_6matrix_10DataMatrix_7neutral___get__(((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)__pyx_v_self));

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_7neutral___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__", 0);
  __Pyx_XDECREF(__pyx_r);
  __Pyx_INCREF(__pyx_v_self->neutral);
  __pyx_r = __pyx_v_self->neutral;
  goto __pyx_L0;

  /* function exit code */
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pxd":29
 *     cdef readonly object neutral
 *     """Data for neutral positions"""
 *     cdef readonly object selected             # <<<<<<<<<<<<<<
 *     """Data for selected positions"""
 *     cdef readonly object neutral_positions
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_8selected_1__get__(PyObject *__pyx_v_self); /*proto*/
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_8selected_1__get__(PyObject *__pyx_v_self) {
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__ (wrapper)", 0);
  __pyx_r = __pyx_pf_5fwdpy_6matrix_10DataMatrix_8selected___get__(((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)__pyx_v_self));

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_8selected___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__", 0);
  __Pyx_XDECREF(__pyx_r);
  __Pyx_INCREF(__pyx_v_self->selected);
  __pyx_r = __pyx_v_self->selected;
  goto __pyx_L0;

  /* function exit code */
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pxd":31
 *     cdef readonly object selected
 *     """Data for selected positions"""
 *     cdef readonly object neutral_positions             # <<<<<<<<<<<<<<
 *     """Neutral positions"""
 *     cdef readonly object selected_positions
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_17neutral_positions_1__get__(PyObject *__pyx_v_self); /*proto*/
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_17neutral_positions_1__get__(PyObject *__pyx_v_self) {
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__ (wrapper)", 0);
  __pyx_r = __pyx_pf_5fwdpy_6matrix_10DataMatrix_17neutral_positions___get__(((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)__pyx_v_self));

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_17neutral_positions___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__", 0);
  __Pyx_XDECREF(__pyx_r);
  __Pyx_INCREF(__pyx_v_self->neutral_positions);
  __pyx_r = __pyx_v_self->neutral_positions;
  goto __pyx_L0;

  /* function exit code */
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pxd":33
 *     cdef readonly object neutral_positions
 *     """Neutral positions"""
 *     cdef readonly object selected_positions             # <<<<<<<<<<<<<<
 *     """selected positions"""
 *     cdef readonly object neutral_popfreq
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_18selected_positions_1__get__(PyObject *__pyx_v_self); /*proto*/
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_18selected_positions_1__get__(PyObject *__pyx_v_self) {
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__ (wrapper)", 0);
  __pyx_r = __pyx_pf_5fwdpy_6matrix_10DataMatrix_18selected_positions___get__(((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)__pyx_v_self));

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_18selected_positions___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__", 0);
  __Pyx_XDECREF(__pyx_r);
  __Pyx_INCREF(__pyx_v_self->selected_positions);
  __pyx_r = __pyx_v_self->selected_positions;
  goto __pyx_L0;

  /* function exit code */
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pxd":35
 *     cdef readonly object selected_positions
 *     """selected positions"""
 *     cdef readonly object neutral_popfreq             # <<<<<<<<<<<<<<
 *     """Neutral frequencies in simulation"""
 *     cdef readonly object selected_popfreq
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_15neutral_popfreq_1__get__(PyObject *__pyx_v_self); /*proto*/
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_15neutral_popfreq_1__get__(PyObject *__pyx_v_self) {
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__ (wrapper)", 0);
  __pyx_r = __pyx_pf_5fwdpy_6matrix_10DataMatrix_15neutral_popfreq___get__(((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)__pyx_v_self));

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_15neutral_popfreq___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__", 0);
  __Pyx_XDECREF(__pyx_r);
  __Pyx_INCREF(__pyx_v_self->neutral_popfreq);
  __pyx_r = __pyx_v_self->neutral_popfreq;
  goto __pyx_L0;

  /* function exit code */
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pxd":37
 *     cdef readonly object neutral_popfreq
 *     """Neutral frequencies in simulation"""
 *     cdef readonly object selected_popfreq             # <<<<<<<<<<<<<<
 *     """selected frequencies in simulation"""
 *     cdef readonly int nrow
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_16selected_popfreq_1__get__(PyObject *__pyx_v_self); /*proto*/
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_16selected_popfreq_1__get__(PyObject *__pyx_v_self) {
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__ (wrapper)", 0);
  __pyx_r = __pyx_pf_5fwdpy_6matrix_10DataMatrix_16selected_popfreq___get__(((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)__pyx_v_self));

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_16selected_popfreq___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__", 0);
  __Pyx_XDECREF(__pyx_r);
  __Pyx_INCREF(__pyx_v_self->selected_popfreq);
  __pyx_r = __pyx_v_self->selected_popfreq;
  goto __pyx_L0;

  /* function exit code */
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pxd":39
 *     cdef readonly object selected_popfreq
 *     """selected frequencies in simulation"""
 *     cdef readonly int nrow             # <<<<<<<<<<<<<<
 *     """Number of rows"""
 *     cdef readonly int nn
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_4nrow_1__get__(PyObject *__pyx_v_self); /*proto*/
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_4nrow_1__get__(PyObject *__pyx_v_self) {
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__ (wrapper)", 0);
  __pyx_r = __pyx_pf_5fwdpy_6matrix_10DataMatrix_4nrow___get__(((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)__pyx_v_self));

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_4nrow___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  __Pyx_RefNannySetupContext("__get__", 0);
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_1 = __Pyx_PyInt_From_int(__pyx_v_self->nrow); if (unlikely(!__pyx_t_1)) __PYX_ERR(1, 39, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_r = __pyx_t_1;
  __pyx_t_1 = 0;
  goto __pyx_L0;

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_AddTraceback("fwdpy.matrix.DataMatrix.nrow.__get__", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pxd":41
 *     cdef readonly int nrow
 *     """Number of rows"""
 *     cdef readonly int nn             # <<<<<<<<<<<<<<
 *     """Number of neutral mutations"""
 *     cdef readonly int ns
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_2nn_1__get__(PyObject *__pyx_v_self); /*proto*/
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_2nn_1__get__(PyObject *__pyx_v_self) {
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__ (wrapper)", 0);
  __pyx_r = __pyx_pf_5fwdpy_6matrix_10DataMatrix_2nn___get__(((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)__pyx_v_self));

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_2nn___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  __Pyx_RefNannySetupContext("__get__", 0);
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_1 = __Pyx_PyInt_From_int(__pyx_v_self->nn); if (unlikely(!__pyx_t_1)) __PYX_ERR(1, 41, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_r = __pyx_t_1;
  __pyx_t_1 = 0;
  goto __pyx_L0;

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_AddTraceback("fwdpy.matrix.DataMatrix.nn.__get__", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pxd":43
 *     cdef readonly int nn
 *     """Number of neutral mutations"""
 *     cdef readonly int ns             # <<<<<<<<<<<<<<
 *     """Number of selected nutations"""
 * 
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_2ns_1__get__(PyObject *__pyx_v_self); /*proto*/
static PyObject *__pyx_pw_5fwdpy_6matrix_10DataMatrix_2ns_1__get__(PyObject *__pyx_v_self) {
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__get__ (wrapper)", 0);
  __pyx_r = __pyx_pf_5fwdpy_6matrix_10DataMatrix_2ns___get__(((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)__pyx_v_self));

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_10DataMatrix_2ns___get__(struct __pyx_obj_5fwdpy_6matrix_DataMatrix *__pyx_v_self) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  __Pyx_RefNannySetupContext("__get__", 0);
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_1 = __Pyx_PyInt_From_int(__pyx_v_self->ns); if (unlikely(!__pyx_t_1)) __PYX_ERR(1, 43, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_r = __pyx_t_1;
  __pyx_t_1 = 0;
  goto __pyx_L0;

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_AddTraceback("fwdpy.matrix.DataMatrix.ns.__get__", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pyx":110
 *     wiht pylibseq/libsequence.
 *     """
 *     def as_sample(self):             # <<<<<<<<<<<<<<
 *         """
 *         Return a representation of the data in a form
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_15HaplotypeMatrix_1as_sample(PyObject *__pyx_v_self, CYTHON_UNUSED PyObject *unused); /*proto*/
static char __pyx_doc_5fwdpy_6matrix_15HaplotypeMatrix_as_sample[] = "\n        Return a representation of the data in a form \n        usable in pylibseq.\n\n        :return: A dictionary with elements 'neutral' and 'selected'\n\n        :rtype: dict\n\n        ";
static PyObject *__pyx_pw_5fwdpy_6matrix_15HaplotypeMatrix_1as_sample(PyObject *__pyx_v_self, CYTHON_UNUSED PyObject *unused) {
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("as_sample (wrapper)", 0);
  __pyx_r = __pyx_pf_5fwdpy_6matrix_15HaplotypeMatrix_as_sample(((struct __pyx_obj_5fwdpy_6matrix_HaplotypeMatrix *)__pyx_v_self));

  /* function exit code */
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_15HaplotypeMatrix_as_sample(struct __pyx_obj_5fwdpy_6matrix_HaplotypeMatrix *__pyx_v_self) {
  PyObject *__pyx_v_nm = NULL;
  PyObject *__pyx_v_sm = NULL;
  PyObject *__pyx_v_ss = NULL;
  PyObject *__pyx_v_rv = NULL;
  PyObject *__pyx_v_ns = NULL;
  PyObject *__pyx_v_col = NULL;
  PyObject *__pyx_v_nsi = NULL;
  PyObject *__pyx_v_ssi = NULL;
  PyObject *__pyx_v_i = NULL;
  PyObject *__pyx_v_j = NULL;
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  PyObject *__pyx_t_2 = NULL;
  PyObject *__pyx_t_3 = NULL;
  int __pyx_t_4;
  int __pyx_t_5;
  Py_ssize_t __pyx_t_6;
  PyObject *(*__pyx_t_7)(PyObject *);
  PyObject *__pyx_t_8 = NULL;
  PyObject *__pyx_t_9 = NULL;
  PyObject *__pyx_t_10 = NULL;
  int __pyx_t_11;
  PyObject *(*__pyx_t_12)(PyObject *);
  __Pyx_RefNannySetupContext("as_sample", 0);

  /* "fwdpy/matrix.pyx":120
 * 
 *         """
 *         nm = self.nmatrix()             # <<<<<<<<<<<<<<
 *         sm = self.smatrix()
 *         #These will be lists of lists of characters,
 */
  __pyx_t_2 = __Pyx_PyObject_GetAttrStr(((PyObject *)__pyx_v_self), __pyx_n_s_nmatrix); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 120, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __pyx_t_3 = NULL;
  if (CYTHON_UNPACK_METHODS && likely(PyMethod_Check(__pyx_t_2))) {
    __pyx_t_3 = PyMethod_GET_SELF(__pyx_t_2);
    if (likely(__pyx_t_3)) {
      PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_2);
      __Pyx_INCREF(__pyx_t_3);
      __Pyx_INCREF(function);
      __Pyx_DECREF_SET(__pyx_t_2, function);
    }
  }
  if (__pyx_t_3) {
    __pyx_t_1 = __Pyx_PyObject_CallOneArg(__pyx_t_2, __pyx_t_3); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 120, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  } else {
    __pyx_t_1 = __Pyx_PyObject_CallNoArg(__pyx_t_2); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 120, __pyx_L1_error)
  }
  __Pyx_GOTREF(__pyx_t_1);
  __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  __pyx_v_nm = __pyx_t_1;
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":121
 *         """
 *         nm = self.nmatrix()
 *         sm = self.smatrix()             # <<<<<<<<<<<<<<
 *         #These will be lists of lists of characters,
 *         #to be converted into list of tuple of float,string
 */
  __pyx_t_2 = __Pyx_PyObject_GetAttrStr(((PyObject *)__pyx_v_self), __pyx_n_s_smatrix); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 121, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __pyx_t_3 = NULL;
  if (CYTHON_UNPACK_METHODS && likely(PyMethod_Check(__pyx_t_2))) {
    __pyx_t_3 = PyMethod_GET_SELF(__pyx_t_2);
    if (likely(__pyx_t_3)) {
      PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_2);
      __Pyx_INCREF(__pyx_t_3);
      __Pyx_INCREF(function);
      __Pyx_DECREF_SET(__pyx_t_2, function);
    }
  }
  if (__pyx_t_3) {
    __pyx_t_1 = __Pyx_PyObject_CallOneArg(__pyx_t_2, __pyx_t_3); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 121, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
  } else {
    __pyx_t_1 = __Pyx_PyObject_CallNoArg(__pyx_t_2); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 121, __pyx_L1_error)
  }
  __Pyx_GOTREF(__pyx_t_1);
  __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  __pyx_v_sm = __pyx_t_1;
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":124
 *         #These will be lists of lists of characters,
 *         #to be converted into list of tuple of float,string
 *         ss=[]             # <<<<<<<<<<<<<<
 * 
 *         rv={'neutral':[],'selected':[]}
 */
  __pyx_t_1 = PyList_New(0); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 124, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_v_ss = ((PyObject*)__pyx_t_1);
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":126
 *         ss=[]
 * 
 *         rv={'neutral':[],'selected':[]}             # <<<<<<<<<<<<<<
 *         if nm is not None:
 *             ns=[]
 */
  __pyx_t_1 = PyDict_New(); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 126, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_t_2 = PyList_New(0); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 126, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_neutral, __pyx_t_2) < 0) __PYX_ERR(0, 126, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  __pyx_t_2 = PyList_New(0); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 126, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  if (PyDict_SetItem(__pyx_t_1, __pyx_n_s_selected, __pyx_t_2) < 0) __PYX_ERR(0, 126, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  __pyx_v_rv = ((PyObject*)__pyx_t_1);
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":127
 * 
 *         rv={'neutral':[],'selected':[]}
 *         if nm is not None:             # <<<<<<<<<<<<<<
 *             ns=[]
 *             for col in range(nm.shape[1]):
 */
  __pyx_t_4 = (__pyx_v_nm != Py_None);
  __pyx_t_5 = (__pyx_t_4 != 0);
  if (__pyx_t_5) {

    /* "fwdpy/matrix.pyx":128
 *         rv={'neutral':[],'selected':[]}
 *         if nm is not None:
 *             ns=[]             # <<<<<<<<<<<<<<
 *             for col in range(nm.shape[1]):
 *                 nsi=numpy.array(['0']*nm.shape[0])
 */
    __pyx_t_1 = PyList_New(0); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 128, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __pyx_v_ns = ((PyObject*)__pyx_t_1);
    __pyx_t_1 = 0;

    /* "fwdpy/matrix.pyx":129
 *         if nm is not None:
 *             ns=[]
 *             for col in range(nm.shape[1]):             # <<<<<<<<<<<<<<
 *                 nsi=numpy.array(['0']*nm.shape[0])
 *                 nsi[numpy.where(nm[:,col]==1)[0]]='1'
 */
    __pyx_t_1 = __Pyx_PyObject_GetAttrStr(__pyx_v_nm, __pyx_n_s_shape); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 129, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __pyx_t_2 = __Pyx_GetItemInt(__pyx_t_1, 1, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 129, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_2);
    __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
    __pyx_t_1 = PyTuple_New(1); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 129, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_GIVEREF(__pyx_t_2);
    PyTuple_SET_ITEM(__pyx_t_1, 0, __pyx_t_2);
    __pyx_t_2 = 0;
    __pyx_t_2 = __Pyx_PyObject_Call(__pyx_builtin_range, __pyx_t_1, NULL); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 129, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_2);
    __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
    if (likely(PyList_CheckExact(__pyx_t_2)) || PyTuple_CheckExact(__pyx_t_2)) {
      __pyx_t_1 = __pyx_t_2; __Pyx_INCREF(__pyx_t_1); __pyx_t_6 = 0;
      __pyx_t_7 = NULL;
    } else {
      __pyx_t_6 = -1; __pyx_t_1 = PyObject_GetIter(__pyx_t_2); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 129, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_1);
      __pyx_t_7 = Py_TYPE(__pyx_t_1)->tp_iternext; if (unlikely(!__pyx_t_7)) __PYX_ERR(0, 129, __pyx_L1_error)
    }
    __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
    for (;;) {
      if (likely(!__pyx_t_7)) {
        if (likely(PyList_CheckExact(__pyx_t_1))) {
          if (__pyx_t_6 >= PyList_GET_SIZE(__pyx_t_1)) break;
          #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
          __pyx_t_2 = PyList_GET_ITEM(__pyx_t_1, __pyx_t_6); __Pyx_INCREF(__pyx_t_2); __pyx_t_6++; if (unlikely(0 < 0)) __PYX_ERR(0, 129, __pyx_L1_error)
          #else
          __pyx_t_2 = PySequence_ITEM(__pyx_t_1, __pyx_t_6); __pyx_t_6++; if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 129, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_2);
          #endif
        } else {
          if (__pyx_t_6 >= PyTuple_GET_SIZE(__pyx_t_1)) break;
          #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
          __pyx_t_2 = PyTuple_GET_ITEM(__pyx_t_1, __pyx_t_6); __Pyx_INCREF(__pyx_t_2); __pyx_t_6++; if (unlikely(0 < 0)) __PYX_ERR(0, 129, __pyx_L1_error)
          #else
          __pyx_t_2 = PySequence_ITEM(__pyx_t_1, __pyx_t_6); __pyx_t_6++; if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 129, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_2);
          #endif
        }
      } else {
        __pyx_t_2 = __pyx_t_7(__pyx_t_1);
        if (unlikely(!__pyx_t_2)) {
          PyObject* exc_type = PyErr_Occurred();
          if (exc_type) {
            if (likely(exc_type == PyExc_StopIteration || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration))) PyErr_Clear();
            else __PYX_ERR(0, 129, __pyx_L1_error)
          }
          break;
        }
        __Pyx_GOTREF(__pyx_t_2);
      }
      __Pyx_XDECREF_SET(__pyx_v_col, __pyx_t_2);
      __pyx_t_2 = 0;

      /* "fwdpy/matrix.pyx":130
 *             ns=[]
 *             for col in range(nm.shape[1]):
 *                 nsi=numpy.array(['0']*nm.shape[0])             # <<<<<<<<<<<<<<
 *                 nsi[numpy.where(nm[:,col]==1)[0]]='1'
 *                 nsi[numpy.where(nm[:,col]==2)[0]]='2'
 */
      __pyx_t_3 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 130, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_3);
      __pyx_t_8 = __Pyx_PyObject_GetAttrStr(__pyx_t_3, __pyx_n_s_array); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 130, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
      __pyx_t_3 = __Pyx_PyObject_GetAttrStr(__pyx_v_nm, __pyx_n_s_shape); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 130, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_3);
      __pyx_t_9 = __Pyx_GetItemInt(__pyx_t_3, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 130, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
      __pyx_t_3 = PyList_New(1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 130, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_3);
      __Pyx_INCREF(__pyx_kp_s_0);
      __Pyx_GIVEREF(__pyx_kp_s_0);
      PyList_SET_ITEM(__pyx_t_3, 0, __pyx_kp_s_0);
      { PyObject* __pyx_temp = PyNumber_InPlaceMultiply(__pyx_t_3, __pyx_t_9); if (unlikely(!__pyx_temp)) __PYX_ERR(0, 130, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_temp);
        __Pyx_DECREF(__pyx_t_3);
        __pyx_t_3 = __pyx_temp;
      }
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __pyx_t_9 = NULL;
      if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_8))) {
        __pyx_t_9 = PyMethod_GET_SELF(__pyx_t_8);
        if (likely(__pyx_t_9)) {
          PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_8);
          __Pyx_INCREF(__pyx_t_9);
          __Pyx_INCREF(function);
          __Pyx_DECREF_SET(__pyx_t_8, function);
        }
      }
      if (!__pyx_t_9) {
        __pyx_t_2 = __Pyx_PyObject_CallOneArg(__pyx_t_8, __pyx_t_3); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 130, __pyx_L1_error)
        __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
        __Pyx_GOTREF(__pyx_t_2);
      } else {
        #if CYTHON_FAST_PYCALL
        if (PyFunction_Check(__pyx_t_8)) {
          PyObject *__pyx_temp[2] = {__pyx_t_9, __pyx_t_3};
          __pyx_t_2 = __Pyx_PyFunction_FastCall(__pyx_t_8, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 130, __pyx_L1_error)
          __Pyx_XDECREF(__pyx_t_9); __pyx_t_9 = 0;
          __Pyx_GOTREF(__pyx_t_2);
          __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
        } else
        #endif
        #if CYTHON_FAST_PYCCALL
        if (__Pyx_PyFastCFunction_Check(__pyx_t_8)) {
          PyObject *__pyx_temp[2] = {__pyx_t_9, __pyx_t_3};
          __pyx_t_2 = __Pyx_PyCFunction_FastCall(__pyx_t_8, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 130, __pyx_L1_error)
          __Pyx_XDECREF(__pyx_t_9); __pyx_t_9 = 0;
          __Pyx_GOTREF(__pyx_t_2);
          __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
        } else
        #endif
        {
          __pyx_t_10 = PyTuple_New(1+1); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 130, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_10);
          __Pyx_GIVEREF(__pyx_t_9); PyTuple_SET_ITEM(__pyx_t_10, 0, __pyx_t_9); __pyx_t_9 = NULL;
          __Pyx_GIVEREF(__pyx_t_3);
          PyTuple_SET_ITEM(__pyx_t_10, 0+1, __pyx_t_3);
          __pyx_t_3 = 0;
          __pyx_t_2 = __Pyx_PyObject_Call(__pyx_t_8, __pyx_t_10, NULL); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 130, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_2);
          __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
        }
      }
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __Pyx_XDECREF_SET(__pyx_v_nsi, __pyx_t_2);
      __pyx_t_2 = 0;

      /* "fwdpy/matrix.pyx":131
 *             for col in range(nm.shape[1]):
 *                 nsi=numpy.array(['0']*nm.shape[0])
 *                 nsi[numpy.where(nm[:,col]==1)[0]]='1'             # <<<<<<<<<<<<<<
 *                 nsi[numpy.where(nm[:,col]==2)[0]]='2'
 *                 ns.append(nsi)
 */
      __pyx_t_8 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 131, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __pyx_t_10 = __Pyx_PyObject_GetAttrStr(__pyx_t_8, __pyx_n_s_where); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 131, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_10);
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_8 = PyTuple_New(2); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 131, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_INCREF(__pyx_slice__4);
      __Pyx_GIVEREF(__pyx_slice__4);
      PyTuple_SET_ITEM(__pyx_t_8, 0, __pyx_slice__4);
      __Pyx_INCREF(__pyx_v_col);
      __Pyx_GIVEREF(__pyx_v_col);
      PyTuple_SET_ITEM(__pyx_t_8, 1, __pyx_v_col);
      __pyx_t_3 = PyObject_GetItem(__pyx_v_nm, __pyx_t_8); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 131, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_3);
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_8 = __Pyx_PyInt_EqObjC(__pyx_t_3, __pyx_int_1, 1, 0); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 131, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
      __pyx_t_3 = NULL;
      if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_10))) {
        __pyx_t_3 = PyMethod_GET_SELF(__pyx_t_10);
        if (likely(__pyx_t_3)) {
          PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_10);
          __Pyx_INCREF(__pyx_t_3);
          __Pyx_INCREF(function);
          __Pyx_DECREF_SET(__pyx_t_10, function);
        }
      }
      if (!__pyx_t_3) {
        __pyx_t_2 = __Pyx_PyObject_CallOneArg(__pyx_t_10, __pyx_t_8); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 131, __pyx_L1_error)
        __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
        __Pyx_GOTREF(__pyx_t_2);
      } else {
        #if CYTHON_FAST_PYCALL
        if (PyFunction_Check(__pyx_t_10)) {
          PyObject *__pyx_temp[2] = {__pyx_t_3, __pyx_t_8};
          __pyx_t_2 = __Pyx_PyFunction_FastCall(__pyx_t_10, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 131, __pyx_L1_error)
          __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
          __Pyx_GOTREF(__pyx_t_2);
          __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
        } else
        #endif
        #if CYTHON_FAST_PYCCALL
        if (__Pyx_PyFastCFunction_Check(__pyx_t_10)) {
          PyObject *__pyx_temp[2] = {__pyx_t_3, __pyx_t_8};
          __pyx_t_2 = __Pyx_PyCFunction_FastCall(__pyx_t_10, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 131, __pyx_L1_error)
          __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
          __Pyx_GOTREF(__pyx_t_2);
          __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
        } else
        #endif
        {
          __pyx_t_9 = PyTuple_New(1+1); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 131, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_9);
          __Pyx_GIVEREF(__pyx_t_3); PyTuple_SET_ITEM(__pyx_t_9, 0, __pyx_t_3); __pyx_t_3 = NULL;
          __Pyx_GIVEREF(__pyx_t_8);
          PyTuple_SET_ITEM(__pyx_t_9, 0+1, __pyx_t_8);
          __pyx_t_8 = 0;
          __pyx_t_2 = __Pyx_PyObject_Call(__pyx_t_10, __pyx_t_9, NULL); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 131, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_2);
          __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
        }
      }
      __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
      __pyx_t_10 = __Pyx_GetItemInt(__pyx_t_2, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 131, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_10);
      __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
      if (unlikely(PyObject_SetItem(__pyx_v_nsi, __pyx_t_10, __pyx_kp_s_1) < 0)) __PYX_ERR(0, 131, __pyx_L1_error)
      __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;

      /* "fwdpy/matrix.pyx":132
 *                 nsi=numpy.array(['0']*nm.shape[0])
 *                 nsi[numpy.where(nm[:,col]==1)[0]]='1'
 *                 nsi[numpy.where(nm[:,col]==2)[0]]='2'             # <<<<<<<<<<<<<<
 *                 ns.append(nsi)
 *             rv['neutral']=[(i,"".join(j)) for i,j in zip(self.neutral_positions,ns)]
 */
      __pyx_t_2 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 132, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_2);
      __pyx_t_9 = __Pyx_PyObject_GetAttrStr(__pyx_t_2, __pyx_n_s_where); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 132, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
      __pyx_t_2 = PyTuple_New(2); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 132, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_2);
      __Pyx_INCREF(__pyx_slice__5);
      __Pyx_GIVEREF(__pyx_slice__5);
      PyTuple_SET_ITEM(__pyx_t_2, 0, __pyx_slice__5);
      __Pyx_INCREF(__pyx_v_col);
      __Pyx_GIVEREF(__pyx_v_col);
      PyTuple_SET_ITEM(__pyx_t_2, 1, __pyx_v_col);
      __pyx_t_8 = PyObject_GetItem(__pyx_v_nm, __pyx_t_2); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 132, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
      __pyx_t_2 = __Pyx_PyInt_EqObjC(__pyx_t_8, __pyx_int_2, 2, 0); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 132, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_2);
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_8 = NULL;
      if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_9))) {
        __pyx_t_8 = PyMethod_GET_SELF(__pyx_t_9);
        if (likely(__pyx_t_8)) {
          PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_9);
          __Pyx_INCREF(__pyx_t_8);
          __Pyx_INCREF(function);
          __Pyx_DECREF_SET(__pyx_t_9, function);
        }
      }
      if (!__pyx_t_8) {
        __pyx_t_10 = __Pyx_PyObject_CallOneArg(__pyx_t_9, __pyx_t_2); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 132, __pyx_L1_error)
        __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
        __Pyx_GOTREF(__pyx_t_10);
      } else {
        #if CYTHON_FAST_PYCALL
        if (PyFunction_Check(__pyx_t_9)) {
          PyObject *__pyx_temp[2] = {__pyx_t_8, __pyx_t_2};
          __pyx_t_10 = __Pyx_PyFunction_FastCall(__pyx_t_9, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 132, __pyx_L1_error)
          __Pyx_XDECREF(__pyx_t_8); __pyx_t_8 = 0;
          __Pyx_GOTREF(__pyx_t_10);
          __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
        } else
        #endif
        #if CYTHON_FAST_PYCCALL
        if (__Pyx_PyFastCFunction_Check(__pyx_t_9)) {
          PyObject *__pyx_temp[2] = {__pyx_t_8, __pyx_t_2};
          __pyx_t_10 = __Pyx_PyCFunction_FastCall(__pyx_t_9, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 132, __pyx_L1_error)
          __Pyx_XDECREF(__pyx_t_8); __pyx_t_8 = 0;
          __Pyx_GOTREF(__pyx_t_10);
          __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
        } else
        #endif
        {
          __pyx_t_3 = PyTuple_New(1+1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 132, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_3);
          __Pyx_GIVEREF(__pyx_t_8); PyTuple_SET_ITEM(__pyx_t_3, 0, __pyx_t_8); __pyx_t_8 = NULL;
          __Pyx_GIVEREF(__pyx_t_2);
          PyTuple_SET_ITEM(__pyx_t_3, 0+1, __pyx_t_2);
          __pyx_t_2 = 0;
          __pyx_t_10 = __Pyx_PyObject_Call(__pyx_t_9, __pyx_t_3, NULL); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 132, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_10);
          __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
        }
      }
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __pyx_t_9 = __Pyx_GetItemInt(__pyx_t_10, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 132, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
      if (unlikely(PyObject_SetItem(__pyx_v_nsi, __pyx_t_9, __pyx_kp_s_2) < 0)) __PYX_ERR(0, 132, __pyx_L1_error)
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;

      /* "fwdpy/matrix.pyx":133
 *                 nsi[numpy.where(nm[:,col]==1)[0]]='1'
 *                 nsi[numpy.where(nm[:,col]==2)[0]]='2'
 *                 ns.append(nsi)             # <<<<<<<<<<<<<<
 *             rv['neutral']=[(i,"".join(j)) for i,j in zip(self.neutral_positions,ns)]
 *         if sm is not None:
 */
      __pyx_t_11 = __Pyx_PyList_Append(__pyx_v_ns, __pyx_v_nsi); if (unlikely(__pyx_t_11 == -1)) __PYX_ERR(0, 133, __pyx_L1_error)

      /* "fwdpy/matrix.pyx":129
 *         if nm is not None:
 *             ns=[]
 *             for col in range(nm.shape[1]):             # <<<<<<<<<<<<<<
 *                 nsi=numpy.array(['0']*nm.shape[0])
 *                 nsi[numpy.where(nm[:,col]==1)[0]]='1'
 */
    }
    __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

    /* "fwdpy/matrix.pyx":134
 *                 nsi[numpy.where(nm[:,col]==2)[0]]='2'
 *                 ns.append(nsi)
 *             rv['neutral']=[(i,"".join(j)) for i,j in zip(self.neutral_positions,ns)]             # <<<<<<<<<<<<<<
 *         if sm is not None:
 *             ss=[]
 */
    __pyx_t_1 = PyList_New(0); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 134, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __pyx_t_9 = PyTuple_New(2); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 134, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_9);
    __Pyx_INCREF(__pyx_v_self->__pyx_base.neutral_positions);
    __Pyx_GIVEREF(__pyx_v_self->__pyx_base.neutral_positions);
    PyTuple_SET_ITEM(__pyx_t_9, 0, __pyx_v_self->__pyx_base.neutral_positions);
    __Pyx_INCREF(__pyx_v_ns);
    __Pyx_GIVEREF(__pyx_v_ns);
    PyTuple_SET_ITEM(__pyx_t_9, 1, __pyx_v_ns);
    __pyx_t_10 = __Pyx_PyObject_Call(__pyx_builtin_zip, __pyx_t_9, NULL); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 134, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_10);
    __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
    if (likely(PyList_CheckExact(__pyx_t_10)) || PyTuple_CheckExact(__pyx_t_10)) {
      __pyx_t_9 = __pyx_t_10; __Pyx_INCREF(__pyx_t_9); __pyx_t_6 = 0;
      __pyx_t_7 = NULL;
    } else {
      __pyx_t_6 = -1; __pyx_t_9 = PyObject_GetIter(__pyx_t_10); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 134, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __pyx_t_7 = Py_TYPE(__pyx_t_9)->tp_iternext; if (unlikely(!__pyx_t_7)) __PYX_ERR(0, 134, __pyx_L1_error)
    }
    __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
    for (;;) {
      if (likely(!__pyx_t_7)) {
        if (likely(PyList_CheckExact(__pyx_t_9))) {
          if (__pyx_t_6 >= PyList_GET_SIZE(__pyx_t_9)) break;
          #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
          __pyx_t_10 = PyList_GET_ITEM(__pyx_t_9, __pyx_t_6); __Pyx_INCREF(__pyx_t_10); __pyx_t_6++; if (unlikely(0 < 0)) __PYX_ERR(0, 134, __pyx_L1_error)
          #else
          __pyx_t_10 = PySequence_ITEM(__pyx_t_9, __pyx_t_6); __pyx_t_6++; if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 134, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_10);
          #endif
        } else {
          if (__pyx_t_6 >= PyTuple_GET_SIZE(__pyx_t_9)) break;
          #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
          __pyx_t_10 = PyTuple_GET_ITEM(__pyx_t_9, __pyx_t_6); __Pyx_INCREF(__pyx_t_10); __pyx_t_6++; if (unlikely(0 < 0)) __PYX_ERR(0, 134, __pyx_L1_error)
          #else
          __pyx_t_10 = PySequence_ITEM(__pyx_t_9, __pyx_t_6); __pyx_t_6++; if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 134, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_10);
          #endif
        }
      } else {
        __pyx_t_10 = __pyx_t_7(__pyx_t_9);
        if (unlikely(!__pyx_t_10)) {
          PyObject* exc_type = PyErr_Occurred();
          if (exc_type) {
            if (likely(exc_type == PyExc_StopIteration || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration))) PyErr_Clear();
            else __PYX_ERR(0, 134, __pyx_L1_error)
          }
          break;
        }
        __Pyx_GOTREF(__pyx_t_10);
      }
      if ((likely(PyTuple_CheckExact(__pyx_t_10))) || (PyList_CheckExact(__pyx_t_10))) {
        PyObject* sequence = __pyx_t_10;
        #if !CYTHON_COMPILING_IN_PYPY
        Py_ssize_t size = Py_SIZE(sequence);
        #else
        Py_ssize_t size = PySequence_Size(sequence);
        #endif
        if (unlikely(size != 2)) {
          if (size > 2) __Pyx_RaiseTooManyValuesError(2);
          else if (size >= 0) __Pyx_RaiseNeedMoreValuesError(size);
          __PYX_ERR(0, 134, __pyx_L1_error)
        }
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        if (likely(PyTuple_CheckExact(sequence))) {
          __pyx_t_3 = PyTuple_GET_ITEM(sequence, 0); 
          __pyx_t_2 = PyTuple_GET_ITEM(sequence, 1); 
        } else {
          __pyx_t_3 = PyList_GET_ITEM(sequence, 0); 
          __pyx_t_2 = PyList_GET_ITEM(sequence, 1); 
        }
        __Pyx_INCREF(__pyx_t_3);
        __Pyx_INCREF(__pyx_t_2);
        #else
        __pyx_t_3 = PySequence_ITEM(sequence, 0); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 134, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_3);
        __pyx_t_2 = PySequence_ITEM(sequence, 1); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 134, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_2);
        #endif
        __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
      } else {
        Py_ssize_t index = -1;
        __pyx_t_8 = PyObject_GetIter(__pyx_t_10); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 134, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_8);
        __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
        __pyx_t_12 = Py_TYPE(__pyx_t_8)->tp_iternext;
        index = 0; __pyx_t_3 = __pyx_t_12(__pyx_t_8); if (unlikely(!__pyx_t_3)) goto __pyx_L8_unpacking_failed;
        __Pyx_GOTREF(__pyx_t_3);
        index = 1; __pyx_t_2 = __pyx_t_12(__pyx_t_8); if (unlikely(!__pyx_t_2)) goto __pyx_L8_unpacking_failed;
        __Pyx_GOTREF(__pyx_t_2);
        if (__Pyx_IternextUnpackEndCheck(__pyx_t_12(__pyx_t_8), 2) < 0) __PYX_ERR(0, 134, __pyx_L1_error)
        __pyx_t_12 = NULL;
        __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
        goto __pyx_L9_unpacking_done;
        __pyx_L8_unpacking_failed:;
        __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
        __pyx_t_12 = NULL;
        if (__Pyx_IterFinish() == 0) __Pyx_RaiseNeedMoreValuesError(index);
        __PYX_ERR(0, 134, __pyx_L1_error)
        __pyx_L9_unpacking_done:;
      }
      __Pyx_XDECREF_SET(__pyx_v_i, __pyx_t_3);
      __pyx_t_3 = 0;
      __Pyx_XDECREF_SET(__pyx_v_j, __pyx_t_2);
      __pyx_t_2 = 0;
      __pyx_t_10 = __Pyx_PyString_Join(__pyx_kp_s__6, __pyx_v_j); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 134, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_10);
      __pyx_t_2 = PyTuple_New(2); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 134, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_2);
      __Pyx_INCREF(__pyx_v_i);
      __Pyx_GIVEREF(__pyx_v_i);
      PyTuple_SET_ITEM(__pyx_t_2, 0, __pyx_v_i);
      __Pyx_GIVEREF(__pyx_t_10);
      PyTuple_SET_ITEM(__pyx_t_2, 1, __pyx_t_10);
      __pyx_t_10 = 0;
      if (unlikely(__Pyx_ListComp_Append(__pyx_t_1, (PyObject*)__pyx_t_2))) __PYX_ERR(0, 134, __pyx_L1_error)
      __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
    }
    __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
    if (unlikely(PyDict_SetItem(__pyx_v_rv, __pyx_n_s_neutral, __pyx_t_1) < 0)) __PYX_ERR(0, 134, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

    /* "fwdpy/matrix.pyx":127
 * 
 *         rv={'neutral':[],'selected':[]}
 *         if nm is not None:             # <<<<<<<<<<<<<<
 *             ns=[]
 *             for col in range(nm.shape[1]):
 */
  }

  /* "fwdpy/matrix.pyx":135
 *                 ns.append(nsi)
 *             rv['neutral']=[(i,"".join(j)) for i,j in zip(self.neutral_positions,ns)]
 *         if sm is not None:             # <<<<<<<<<<<<<<
 *             ss=[]
 *             for col in range(sm.shape[1]):
 */
  __pyx_t_5 = (__pyx_v_sm != Py_None);
  __pyx_t_4 = (__pyx_t_5 != 0);
  if (__pyx_t_4) {

    /* "fwdpy/matrix.pyx":136
 *             rv['neutral']=[(i,"".join(j)) for i,j in zip(self.neutral_positions,ns)]
 *         if sm is not None:
 *             ss=[]             # <<<<<<<<<<<<<<
 *             for col in range(sm.shape[1]):
 *                 ssi=numpy.array(['0']*sm.shape[0])
 */
    __pyx_t_1 = PyList_New(0); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 136, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_DECREF_SET(__pyx_v_ss, ((PyObject*)__pyx_t_1));
    __pyx_t_1 = 0;

    /* "fwdpy/matrix.pyx":137
 *         if sm is not None:
 *             ss=[]
 *             for col in range(sm.shape[1]):             # <<<<<<<<<<<<<<
 *                 ssi=numpy.array(['0']*sm.shape[0])
 *                 ssi[numpy.where(sm[:,col]==1)[0]]='1'
 */
    __pyx_t_1 = __Pyx_PyObject_GetAttrStr(__pyx_v_sm, __pyx_n_s_shape); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 137, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __pyx_t_9 = __Pyx_GetItemInt(__pyx_t_1, 1, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 137, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_9);
    __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
    __pyx_t_1 = PyTuple_New(1); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 137, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __Pyx_GIVEREF(__pyx_t_9);
    PyTuple_SET_ITEM(__pyx_t_1, 0, __pyx_t_9);
    __pyx_t_9 = 0;
    __pyx_t_9 = __Pyx_PyObject_Call(__pyx_builtin_range, __pyx_t_1, NULL); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 137, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_9);
    __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
    if (likely(PyList_CheckExact(__pyx_t_9)) || PyTuple_CheckExact(__pyx_t_9)) {
      __pyx_t_1 = __pyx_t_9; __Pyx_INCREF(__pyx_t_1); __pyx_t_6 = 0;
      __pyx_t_7 = NULL;
    } else {
      __pyx_t_6 = -1; __pyx_t_1 = PyObject_GetIter(__pyx_t_9); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 137, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_1);
      __pyx_t_7 = Py_TYPE(__pyx_t_1)->tp_iternext; if (unlikely(!__pyx_t_7)) __PYX_ERR(0, 137, __pyx_L1_error)
    }
    __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
    for (;;) {
      if (likely(!__pyx_t_7)) {
        if (likely(PyList_CheckExact(__pyx_t_1))) {
          if (__pyx_t_6 >= PyList_GET_SIZE(__pyx_t_1)) break;
          #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
          __pyx_t_9 = PyList_GET_ITEM(__pyx_t_1, __pyx_t_6); __Pyx_INCREF(__pyx_t_9); __pyx_t_6++; if (unlikely(0 < 0)) __PYX_ERR(0, 137, __pyx_L1_error)
          #else
          __pyx_t_9 = PySequence_ITEM(__pyx_t_1, __pyx_t_6); __pyx_t_6++; if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 137, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_9);
          #endif
        } else {
          if (__pyx_t_6 >= PyTuple_GET_SIZE(__pyx_t_1)) break;
          #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
          __pyx_t_9 = PyTuple_GET_ITEM(__pyx_t_1, __pyx_t_6); __Pyx_INCREF(__pyx_t_9); __pyx_t_6++; if (unlikely(0 < 0)) __PYX_ERR(0, 137, __pyx_L1_error)
          #else
          __pyx_t_9 = PySequence_ITEM(__pyx_t_1, __pyx_t_6); __pyx_t_6++; if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 137, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_9);
          #endif
        }
      } else {
        __pyx_t_9 = __pyx_t_7(__pyx_t_1);
        if (unlikely(!__pyx_t_9)) {
          PyObject* exc_type = PyErr_Occurred();
          if (exc_type) {
            if (likely(exc_type == PyExc_StopIteration || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration))) PyErr_Clear();
            else __PYX_ERR(0, 137, __pyx_L1_error)
          }
          break;
        }
        __Pyx_GOTREF(__pyx_t_9);
      }
      __Pyx_XDECREF_SET(__pyx_v_col, __pyx_t_9);
      __pyx_t_9 = 0;

      /* "fwdpy/matrix.pyx":138
 *             ss=[]
 *             for col in range(sm.shape[1]):
 *                 ssi=numpy.array(['0']*sm.shape[0])             # <<<<<<<<<<<<<<
 *                 ssi[numpy.where(sm[:,col]==1)[0]]='1'
 *                 ssi[numpy.where(sm[:,col]==2)[0]]='2'
 */
      __pyx_t_2 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 138, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_2);
      __pyx_t_10 = __Pyx_PyObject_GetAttrStr(__pyx_t_2, __pyx_n_s_array); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 138, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_10);
      __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
      __pyx_t_2 = __Pyx_PyObject_GetAttrStr(__pyx_v_sm, __pyx_n_s_shape); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 138, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_2);
      __pyx_t_3 = __Pyx_GetItemInt(__pyx_t_2, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 138, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_3);
      __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
      __pyx_t_2 = PyList_New(1); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 138, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_2);
      __Pyx_INCREF(__pyx_kp_s_0);
      __Pyx_GIVEREF(__pyx_kp_s_0);
      PyList_SET_ITEM(__pyx_t_2, 0, __pyx_kp_s_0);
      { PyObject* __pyx_temp = PyNumber_InPlaceMultiply(__pyx_t_2, __pyx_t_3); if (unlikely(!__pyx_temp)) __PYX_ERR(0, 138, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_temp);
        __Pyx_DECREF(__pyx_t_2);
        __pyx_t_2 = __pyx_temp;
      }
      __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
      __pyx_t_3 = NULL;
      if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_10))) {
        __pyx_t_3 = PyMethod_GET_SELF(__pyx_t_10);
        if (likely(__pyx_t_3)) {
          PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_10);
          __Pyx_INCREF(__pyx_t_3);
          __Pyx_INCREF(function);
          __Pyx_DECREF_SET(__pyx_t_10, function);
        }
      }
      if (!__pyx_t_3) {
        __pyx_t_9 = __Pyx_PyObject_CallOneArg(__pyx_t_10, __pyx_t_2); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 138, __pyx_L1_error)
        __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
        __Pyx_GOTREF(__pyx_t_9);
      } else {
        #if CYTHON_FAST_PYCALL
        if (PyFunction_Check(__pyx_t_10)) {
          PyObject *__pyx_temp[2] = {__pyx_t_3, __pyx_t_2};
          __pyx_t_9 = __Pyx_PyFunction_FastCall(__pyx_t_10, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 138, __pyx_L1_error)
          __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
          __Pyx_GOTREF(__pyx_t_9);
          __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
        } else
        #endif
        #if CYTHON_FAST_PYCCALL
        if (__Pyx_PyFastCFunction_Check(__pyx_t_10)) {
          PyObject *__pyx_temp[2] = {__pyx_t_3, __pyx_t_2};
          __pyx_t_9 = __Pyx_PyCFunction_FastCall(__pyx_t_10, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 138, __pyx_L1_error)
          __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
          __Pyx_GOTREF(__pyx_t_9);
          __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
        } else
        #endif
        {
          __pyx_t_8 = PyTuple_New(1+1); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 138, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_8);
          __Pyx_GIVEREF(__pyx_t_3); PyTuple_SET_ITEM(__pyx_t_8, 0, __pyx_t_3); __pyx_t_3 = NULL;
          __Pyx_GIVEREF(__pyx_t_2);
          PyTuple_SET_ITEM(__pyx_t_8, 0+1, __pyx_t_2);
          __pyx_t_2 = 0;
          __pyx_t_9 = __Pyx_PyObject_Call(__pyx_t_10, __pyx_t_8, NULL); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 138, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_9);
          __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
        }
      }
      __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
      __Pyx_XDECREF_SET(__pyx_v_ssi, __pyx_t_9);
      __pyx_t_9 = 0;

      /* "fwdpy/matrix.pyx":139
 *             for col in range(sm.shape[1]):
 *                 ssi=numpy.array(['0']*sm.shape[0])
 *                 ssi[numpy.where(sm[:,col]==1)[0]]='1'             # <<<<<<<<<<<<<<
 *                 ssi[numpy.where(sm[:,col]==2)[0]]='2'
 *                 ss.append(ssi)
 */
      __pyx_t_10 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 139, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_10);
      __pyx_t_8 = __Pyx_PyObject_GetAttrStr(__pyx_t_10, __pyx_n_s_where); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 139, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
      __pyx_t_10 = PyTuple_New(2); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 139, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_10);
      __Pyx_INCREF(__pyx_slice__7);
      __Pyx_GIVEREF(__pyx_slice__7);
      PyTuple_SET_ITEM(__pyx_t_10, 0, __pyx_slice__7);
      __Pyx_INCREF(__pyx_v_col);
      __Pyx_GIVEREF(__pyx_v_col);
      PyTuple_SET_ITEM(__pyx_t_10, 1, __pyx_v_col);
      __pyx_t_2 = PyObject_GetItem(__pyx_v_sm, __pyx_t_10); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 139, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_2);
      __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
      __pyx_t_10 = __Pyx_PyInt_EqObjC(__pyx_t_2, __pyx_int_1, 1, 0); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 139, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_10);
      __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
      __pyx_t_2 = NULL;
      if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_8))) {
        __pyx_t_2 = PyMethod_GET_SELF(__pyx_t_8);
        if (likely(__pyx_t_2)) {
          PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_8);
          __Pyx_INCREF(__pyx_t_2);
          __Pyx_INCREF(function);
          __Pyx_DECREF_SET(__pyx_t_8, function);
        }
      }
      if (!__pyx_t_2) {
        __pyx_t_9 = __Pyx_PyObject_CallOneArg(__pyx_t_8, __pyx_t_10); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 139, __pyx_L1_error)
        __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
        __Pyx_GOTREF(__pyx_t_9);
      } else {
        #if CYTHON_FAST_PYCALL
        if (PyFunction_Check(__pyx_t_8)) {
          PyObject *__pyx_temp[2] = {__pyx_t_2, __pyx_t_10};
          __pyx_t_9 = __Pyx_PyFunction_FastCall(__pyx_t_8, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 139, __pyx_L1_error)
          __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;
          __Pyx_GOTREF(__pyx_t_9);
          __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
        } else
        #endif
        #if CYTHON_FAST_PYCCALL
        if (__Pyx_PyFastCFunction_Check(__pyx_t_8)) {
          PyObject *__pyx_temp[2] = {__pyx_t_2, __pyx_t_10};
          __pyx_t_9 = __Pyx_PyCFunction_FastCall(__pyx_t_8, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 139, __pyx_L1_error)
          __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;
          __Pyx_GOTREF(__pyx_t_9);
          __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
        } else
        #endif
        {
          __pyx_t_3 = PyTuple_New(1+1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 139, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_3);
          __Pyx_GIVEREF(__pyx_t_2); PyTuple_SET_ITEM(__pyx_t_3, 0, __pyx_t_2); __pyx_t_2 = NULL;
          __Pyx_GIVEREF(__pyx_t_10);
          PyTuple_SET_ITEM(__pyx_t_3, 0+1, __pyx_t_10);
          __pyx_t_10 = 0;
          __pyx_t_9 = __Pyx_PyObject_Call(__pyx_t_8, __pyx_t_3, NULL); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 139, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_9);
          __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
        }
      }
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_8 = __Pyx_GetItemInt(__pyx_t_9, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 139, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      if (unlikely(PyObject_SetItem(__pyx_v_ssi, __pyx_t_8, __pyx_kp_s_1) < 0)) __PYX_ERR(0, 139, __pyx_L1_error)
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;

      /* "fwdpy/matrix.pyx":140
 *                 ssi=numpy.array(['0']*sm.shape[0])
 *                 ssi[numpy.where(sm[:,col]==1)[0]]='1'
 *                 ssi[numpy.where(sm[:,col]==2)[0]]='2'             # <<<<<<<<<<<<<<
 *                 ss.append(ssi)
 *             rv['selected']=[(i,"".join(j)) for i,j in zip(self.selected_positions,ss)]
 */
      __pyx_t_9 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 140, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __pyx_t_3 = __Pyx_PyObject_GetAttrStr(__pyx_t_9, __pyx_n_s_where); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 140, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_3);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __pyx_t_9 = PyTuple_New(2); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 140, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_INCREF(__pyx_slice__8);
      __Pyx_GIVEREF(__pyx_slice__8);
      PyTuple_SET_ITEM(__pyx_t_9, 0, __pyx_slice__8);
      __Pyx_INCREF(__pyx_v_col);
      __Pyx_GIVEREF(__pyx_v_col);
      PyTuple_SET_ITEM(__pyx_t_9, 1, __pyx_v_col);
      __pyx_t_10 = PyObject_GetItem(__pyx_v_sm, __pyx_t_9); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 140, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_10);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __pyx_t_9 = __Pyx_PyInt_EqObjC(__pyx_t_10, __pyx_int_2, 2, 0); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 140, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
      __pyx_t_10 = NULL;
      if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_3))) {
        __pyx_t_10 = PyMethod_GET_SELF(__pyx_t_3);
        if (likely(__pyx_t_10)) {
          PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_3);
          __Pyx_INCREF(__pyx_t_10);
          __Pyx_INCREF(function);
          __Pyx_DECREF_SET(__pyx_t_3, function);
        }
      }
      if (!__pyx_t_10) {
        __pyx_t_8 = __Pyx_PyObject_CallOneArg(__pyx_t_3, __pyx_t_9); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 140, __pyx_L1_error)
        __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
        __Pyx_GOTREF(__pyx_t_8);
      } else {
        #if CYTHON_FAST_PYCALL
        if (PyFunction_Check(__pyx_t_3)) {
          PyObject *__pyx_temp[2] = {__pyx_t_10, __pyx_t_9};
          __pyx_t_8 = __Pyx_PyFunction_FastCall(__pyx_t_3, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 140, __pyx_L1_error)
          __Pyx_XDECREF(__pyx_t_10); __pyx_t_10 = 0;
          __Pyx_GOTREF(__pyx_t_8);
          __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
        } else
        #endif
        #if CYTHON_FAST_PYCCALL
        if (__Pyx_PyFastCFunction_Check(__pyx_t_3)) {
          PyObject *__pyx_temp[2] = {__pyx_t_10, __pyx_t_9};
          __pyx_t_8 = __Pyx_PyCFunction_FastCall(__pyx_t_3, __pyx_temp+1-1, 1+1); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 140, __pyx_L1_error)
          __Pyx_XDECREF(__pyx_t_10); __pyx_t_10 = 0;
          __Pyx_GOTREF(__pyx_t_8);
          __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
        } else
        #endif
        {
          __pyx_t_2 = PyTuple_New(1+1); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 140, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_2);
          __Pyx_GIVEREF(__pyx_t_10); PyTuple_SET_ITEM(__pyx_t_2, 0, __pyx_t_10); __pyx_t_10 = NULL;
          __Pyx_GIVEREF(__pyx_t_9);
          PyTuple_SET_ITEM(__pyx_t_2, 0+1, __pyx_t_9);
          __pyx_t_9 = 0;
          __pyx_t_8 = __Pyx_PyObject_Call(__pyx_t_3, __pyx_t_2, NULL); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 140, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_8);
          __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
        }
      }
      __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
      __pyx_t_3 = __Pyx_GetItemInt(__pyx_t_8, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 140, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_3);
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      if (unlikely(PyObject_SetItem(__pyx_v_ssi, __pyx_t_3, __pyx_kp_s_2) < 0)) __PYX_ERR(0, 140, __pyx_L1_error)
      __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;

      /* "fwdpy/matrix.pyx":141
 *                 ssi[numpy.where(sm[:,col]==1)[0]]='1'
 *                 ssi[numpy.where(sm[:,col]==2)[0]]='2'
 *                 ss.append(ssi)             # <<<<<<<<<<<<<<
 *             rv['selected']=[(i,"".join(j)) for i,j in zip(self.selected_positions,ss)]
 *         return rv
 */
      __pyx_t_11 = __Pyx_PyList_Append(__pyx_v_ss, __pyx_v_ssi); if (unlikely(__pyx_t_11 == -1)) __PYX_ERR(0, 141, __pyx_L1_error)

      /* "fwdpy/matrix.pyx":137
 *         if sm is not None:
 *             ss=[]
 *             for col in range(sm.shape[1]):             # <<<<<<<<<<<<<<
 *                 ssi=numpy.array(['0']*sm.shape[0])
 *                 ssi[numpy.where(sm[:,col]==1)[0]]='1'
 */
    }
    __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

    /* "fwdpy/matrix.pyx":142
 *                 ssi[numpy.where(sm[:,col]==2)[0]]='2'
 *                 ss.append(ssi)
 *             rv['selected']=[(i,"".join(j)) for i,j in zip(self.selected_positions,ss)]             # <<<<<<<<<<<<<<
 *         return rv
 * 
 */
    __pyx_t_1 = PyList_New(0); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 142, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __pyx_t_3 = PyTuple_New(2); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 142, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __Pyx_INCREF(__pyx_v_self->__pyx_base.selected_positions);
    __Pyx_GIVEREF(__pyx_v_self->__pyx_base.selected_positions);
    PyTuple_SET_ITEM(__pyx_t_3, 0, __pyx_v_self->__pyx_base.selected_positions);
    __Pyx_INCREF(__pyx_v_ss);
    __Pyx_GIVEREF(__pyx_v_ss);
    PyTuple_SET_ITEM(__pyx_t_3, 1, __pyx_v_ss);
    __pyx_t_8 = __Pyx_PyObject_Call(__pyx_builtin_zip, __pyx_t_3, NULL); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 142, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_8);
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    if (likely(PyList_CheckExact(__pyx_t_8)) || PyTuple_CheckExact(__pyx_t_8)) {
      __pyx_t_3 = __pyx_t_8; __Pyx_INCREF(__pyx_t_3); __pyx_t_6 = 0;
      __pyx_t_7 = NULL;
    } else {
      __pyx_t_6 = -1; __pyx_t_3 = PyObject_GetIter(__pyx_t_8); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 142, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_3);
      __pyx_t_7 = Py_TYPE(__pyx_t_3)->tp_iternext; if (unlikely(!__pyx_t_7)) __PYX_ERR(0, 142, __pyx_L1_error)
    }
    __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
    for (;;) {
      if (likely(!__pyx_t_7)) {
        if (likely(PyList_CheckExact(__pyx_t_3))) {
          if (__pyx_t_6 >= PyList_GET_SIZE(__pyx_t_3)) break;
          #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
          __pyx_t_8 = PyList_GET_ITEM(__pyx_t_3, __pyx_t_6); __Pyx_INCREF(__pyx_t_8); __pyx_t_6++; if (unlikely(0 < 0)) __PYX_ERR(0, 142, __pyx_L1_error)
          #else
          __pyx_t_8 = PySequence_ITEM(__pyx_t_3, __pyx_t_6); __pyx_t_6++; if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 142, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_8);
          #endif
        } else {
          if (__pyx_t_6 >= PyTuple_GET_SIZE(__pyx_t_3)) break;
          #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
          __pyx_t_8 = PyTuple_GET_ITEM(__pyx_t_3, __pyx_t_6); __Pyx_INCREF(__pyx_t_8); __pyx_t_6++; if (unlikely(0 < 0)) __PYX_ERR(0, 142, __pyx_L1_error)
          #else
          __pyx_t_8 = PySequence_ITEM(__pyx_t_3, __pyx_t_6); __pyx_t_6++; if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 142, __pyx_L1_error)
          __Pyx_GOTREF(__pyx_t_8);
          #endif
        }
      } else {
        __pyx_t_8 = __pyx_t_7(__pyx_t_3);
        if (unlikely(!__pyx_t_8)) {
          PyObject* exc_type = PyErr_Occurred();
          if (exc_type) {
            if (likely(exc_type == PyExc_StopIteration || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration))) PyErr_Clear();
            else __PYX_ERR(0, 142, __pyx_L1_error)
          }
          break;
        }
        __Pyx_GOTREF(__pyx_t_8);
      }
      if ((likely(PyTuple_CheckExact(__pyx_t_8))) || (PyList_CheckExact(__pyx_t_8))) {
        PyObject* sequence = __pyx_t_8;
        #if !CYTHON_COMPILING_IN_PYPY
        Py_ssize_t size = Py_SIZE(sequence);
        #else
        Py_ssize_t size = PySequence_Size(sequence);
        #endif
        if (unlikely(size != 2)) {
          if (size > 2) __Pyx_RaiseTooManyValuesError(2);
          else if (size >= 0) __Pyx_RaiseNeedMoreValuesError(size);
          __PYX_ERR(0, 142, __pyx_L1_error)
        }
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        if (likely(PyTuple_CheckExact(sequence))) {
          __pyx_t_2 = PyTuple_GET_ITEM(sequence, 0); 
          __pyx_t_9 = PyTuple_GET_ITEM(sequence, 1); 
        } else {
          __pyx_t_2 = PyList_GET_ITEM(sequence, 0); 
          __pyx_t_9 = PyList_GET_ITEM(sequence, 1); 
        }
        __Pyx_INCREF(__pyx_t_2);
        __Pyx_INCREF(__pyx_t_9);
        #else
        __pyx_t_2 = PySequence_ITEM(sequence, 0); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 142, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_2);
        __pyx_t_9 = PySequence_ITEM(sequence, 1); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 142, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_9);
        #endif
        __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      } else {
        Py_ssize_t index = -1;
        __pyx_t_10 = PyObject_GetIter(__pyx_t_8); if (unlikely(!__pyx_t_10)) __PYX_ERR(0, 142, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_10);
        __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
        __pyx_t_12 = Py_TYPE(__pyx_t_10)->tp_iternext;
        index = 0; __pyx_t_2 = __pyx_t_12(__pyx_t_10); if (unlikely(!__pyx_t_2)) goto __pyx_L15_unpacking_failed;
        __Pyx_GOTREF(__pyx_t_2);
        index = 1; __pyx_t_9 = __pyx_t_12(__pyx_t_10); if (unlikely(!__pyx_t_9)) goto __pyx_L15_unpacking_failed;
        __Pyx_GOTREF(__pyx_t_9);
        if (__Pyx_IternextUnpackEndCheck(__pyx_t_12(__pyx_t_10), 2) < 0) __PYX_ERR(0, 142, __pyx_L1_error)
        __pyx_t_12 = NULL;
        __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
        goto __pyx_L16_unpacking_done;
        __pyx_L15_unpacking_failed:;
        __Pyx_DECREF(__pyx_t_10); __pyx_t_10 = 0;
        __pyx_t_12 = NULL;
        if (__Pyx_IterFinish() == 0) __Pyx_RaiseNeedMoreValuesError(index);
        __PYX_ERR(0, 142, __pyx_L1_error)
        __pyx_L16_unpacking_done:;
      }
      __Pyx_XDECREF_SET(__pyx_v_i, __pyx_t_2);
      __pyx_t_2 = 0;
      __Pyx_XDECREF_SET(__pyx_v_j, __pyx_t_9);
      __pyx_t_9 = 0;
      __pyx_t_8 = __Pyx_PyString_Join(__pyx_kp_s__6, __pyx_v_j); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 142, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __pyx_t_9 = PyTuple_New(2); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 142, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_INCREF(__pyx_v_i);
      __Pyx_GIVEREF(__pyx_v_i);
      PyTuple_SET_ITEM(__pyx_t_9, 0, __pyx_v_i);
      __Pyx_GIVEREF(__pyx_t_8);
      PyTuple_SET_ITEM(__pyx_t_9, 1, __pyx_t_8);
      __pyx_t_8 = 0;
      if (unlikely(__Pyx_ListComp_Append(__pyx_t_1, (PyObject*)__pyx_t_9))) __PYX_ERR(0, 142, __pyx_L1_error)
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
    }
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    if (unlikely(PyDict_SetItem(__pyx_v_rv, __pyx_n_s_selected, __pyx_t_1) < 0)) __PYX_ERR(0, 142, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

    /* "fwdpy/matrix.pyx":135
 *                 ns.append(nsi)
 *             rv['neutral']=[(i,"".join(j)) for i,j in zip(self.neutral_positions,ns)]
 *         if sm is not None:             # <<<<<<<<<<<<<<
 *             ss=[]
 *             for col in range(sm.shape[1]):
 */
  }

  /* "fwdpy/matrix.pyx":143
 *                 ss.append(ssi)
 *             rv['selected']=[(i,"".join(j)) for i,j in zip(self.selected_positions,ss)]
 *         return rv             # <<<<<<<<<<<<<<
 * 
 * def get_mutation_keys(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None):
 */
  __Pyx_XDECREF(__pyx_r);
  __Pyx_INCREF(__pyx_v_rv);
  __pyx_r = __pyx_v_rv;
  goto __pyx_L0;

  /* "fwdpy/matrix.pyx":110
 *     wiht pylibseq/libsequence.
 *     """
 *     def as_sample(self):             # <<<<<<<<<<<<<<
 *         """
 *         Return a representation of the data in a form
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_2);
  __Pyx_XDECREF(__pyx_t_3);
  __Pyx_XDECREF(__pyx_t_8);
  __Pyx_XDECREF(__pyx_t_9);
  __Pyx_XDECREF(__pyx_t_10);
  __Pyx_AddTraceback("fwdpy.matrix.HaplotypeMatrix.as_sample", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_XDECREF(__pyx_v_nm);
  __Pyx_XDECREF(__pyx_v_sm);
  __Pyx_XDECREF(__pyx_v_ss);
  __Pyx_XDECREF(__pyx_v_rv);
  __Pyx_XDECREF(__pyx_v_ns);
  __Pyx_XDECREF(__pyx_v_col);
  __Pyx_XDECREF(__pyx_v_nsi);
  __Pyx_XDECREF(__pyx_v_ssi);
  __Pyx_XDECREF(__pyx_v_i);
  __Pyx_XDECREF(__pyx_v_j);
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pyx":145
 *         return rv
 * 
 * def get_mutation_keys(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None):             # <<<<<<<<<<<<<<
 *     """
 *     Generate keys to the set of mutations present in the sample defined by a set of individuals.
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_1get_mutation_keys(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/
static char __pyx_doc_5fwdpy_6matrix_get_mutation_keys[] = "\n    Generate keys to the set of mutations present in the sample defined by a set of individuals.\n    The keys may be used to generate a :class:`fwdpy.matrix.DataMatrix` via a call to \n    :func:`fwdpy.matrix.haplotype_matrix` and/or :func:`fwdpy.matrix.genotype_matrix`.\n\n    :param pop: A :class:`fwdpy.fwdpy.PopType`\n    :param individuals: A list of indexes of individuals in the sample\n    :param include_neutral: (True) If True, generate keys for neutral mutations\n    :param include_selected: (True) If True, generate keys for selected mutations\n    :param remove_fixed: (False) If True, prune the return value of keys to mutations that are fixed in the sample\n    :param sort: (True) If True, keys are sorted according to mutation positions\n    :param min_sample_daf: (None) If not None, then it must be a float (0 <= min_sample_daf < 1) and only mutations with derived allele frequency **in the sample** :math:`q \\geq  \\mathrm{min_sample_daf}` will be kept.\n    :param min_pop_daf: (None) If not None, then it must be a float (0 <= min_pop_daf < 1) and only mutations with derived allele frequency **in the (meta-)population** :math:`q \\geq  \\mathrm{min_pop_daf}` will be kept.\n    :param deme: If pop is a metapopulation, this is the index of the deme.\n\n    :return: Keys to neutral and selected mutations stored in separate lists.\n    \n    :rtype: tuple of two lists\n\n    .. versionadded:: 0.0.4\n\n    .. note::\n        \n        For meta-populations, min_pop_daf applies to the entire meta-population, and not the specific deme.\n        Other types of key sorting must be done by the user.  This is currently difficult without writing\n        a custom Cython plugin based on fwdpy.  This will be improved in the future with a new \"views\" functionality.\n    ";
static PyMethodDef __pyx_mdef_5fwdpy_6matrix_1get_mutation_keys = {"get_mutation_keys", (PyCFunction)__pyx_pw_5fwdpy_6matrix_1get_mutation_keys, METH_VARARGS|METH_KEYWORDS, __pyx_doc_5fwdpy_6matrix_get_mutation_keys};
static PyObject *__pyx_pw_5fwdpy_6matrix_1get_mutation_keys(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) {
  PyObject *__pyx_v_pop = 0;
  PyObject *__pyx_v_individuals = 0;
  PyObject *__pyx_v_include_neutral = 0;
  PyObject *__pyx_v_include_selected = 0;
  PyObject *__pyx_v_remove_fixed = 0;
  PyObject *__pyx_v_sort = 0;
  PyObject *__pyx_v_min_sample_daf = 0;
  PyObject *__pyx_v_min_pop_daf = 0;
  PyObject *__pyx_v_deme = 0;
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("get_mutation_keys (wrapper)", 0);
  {
    static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_pop,&__pyx_n_s_individuals,&__pyx_n_s_include_neutral,&__pyx_n_s_include_selected,&__pyx_n_s_remove_fixed,&__pyx_n_s_sort,&__pyx_n_s_min_sample_daf,&__pyx_n_s_min_pop_daf,&__pyx_n_s_deme,0};
    PyObject* values[9] = {0,0,0,0,0,0,0,0,0};
    values[2] = ((PyObject *)Py_True);
    values[3] = ((PyObject *)Py_True);
    values[4] = ((PyObject *)Py_False);
    values[5] = ((PyObject *)Py_True);
    values[6] = ((PyObject *)Py_None);
    values[7] = ((PyObject *)Py_None);
    values[8] = ((PyObject *)Py_None);
    if (unlikely(__pyx_kwds)) {
      Py_ssize_t kw_args;
      const Py_ssize_t pos_args = PyTuple_GET_SIZE(__pyx_args);
      switch (pos_args) {
        case  9: values[8] = PyTuple_GET_ITEM(__pyx_args, 8);
        case  8: values[7] = PyTuple_GET_ITEM(__pyx_args, 7);
        case  7: values[6] = PyTuple_GET_ITEM(__pyx_args, 6);
        case  6: values[5] = PyTuple_GET_ITEM(__pyx_args, 5);
        case  5: values[4] = PyTuple_GET_ITEM(__pyx_args, 4);
        case  4: values[3] = PyTuple_GET_ITEM(__pyx_args, 3);
        case  3: values[2] = PyTuple_GET_ITEM(__pyx_args, 2);
        case  2: values[1] = PyTuple_GET_ITEM(__pyx_args, 1);
        case  1: values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
        case  0: break;
        default: goto __pyx_L5_argtuple_error;
      }
      kw_args = PyDict_Size(__pyx_kwds);
      switch (pos_args) {
        case  0:
        if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_pop)) != 0)) kw_args--;
        else goto __pyx_L5_argtuple_error;
        case  1:
        if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_individuals)) != 0)) kw_args--;
        else {
          __Pyx_RaiseArgtupleInvalid("get_mutation_keys", 0, 2, 9, 1); __PYX_ERR(0, 145, __pyx_L3_error)
        }
        case  2:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_include_neutral);
          if (value) { values[2] = value; kw_args--; }
        }
        case  3:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_include_selected);
          if (value) { values[3] = value; kw_args--; }
        }
        case  4:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_remove_fixed);
          if (value) { values[4] = value; kw_args--; }
        }
        case  5:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_sort);
          if (value) { values[5] = value; kw_args--; }
        }
        case  6:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_min_sample_daf);
          if (value) { values[6] = value; kw_args--; }
        }
        case  7:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_min_pop_daf);
          if (value) { values[7] = value; kw_args--; }
        }
        case  8:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_deme);
          if (value) { values[8] = value; kw_args--; }
        }
      }
      if (unlikely(kw_args > 0)) {
        if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "get_mutation_keys") < 0)) __PYX_ERR(0, 145, __pyx_L3_error)
      }
    } else {
      switch (PyTuple_GET_SIZE(__pyx_args)) {
        case  9: values[8] = PyTuple_GET_ITEM(__pyx_args, 8);
        case  8: values[7] = PyTuple_GET_ITEM(__pyx_args, 7);
        case  7: values[6] = PyTuple_GET_ITEM(__pyx_args, 6);
        case  6: values[5] = PyTuple_GET_ITEM(__pyx_args, 5);
        case  5: values[4] = PyTuple_GET_ITEM(__pyx_args, 4);
        case  4: values[3] = PyTuple_GET_ITEM(__pyx_args, 3);
        case  3: values[2] = PyTuple_GET_ITEM(__pyx_args, 2);
        case  2: values[1] = PyTuple_GET_ITEM(__pyx_args, 1);
        values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
        break;
        default: goto __pyx_L5_argtuple_error;
      }
    }
    __pyx_v_pop = values[0];
    __pyx_v_individuals = ((PyObject*)values[1]);
    __pyx_v_include_neutral = values[2];
    __pyx_v_include_selected = values[3];
    __pyx_v_remove_fixed = values[4];
    __pyx_v_sort = values[5];
    __pyx_v_min_sample_daf = values[6];
    __pyx_v_min_pop_daf = values[7];
    __pyx_v_deme = values[8];
  }
  goto __pyx_L4_argument_unpacking_done;
  __pyx_L5_argtuple_error:;
  __Pyx_RaiseArgtupleInvalid("get_mutation_keys", 0, 2, 9, PyTuple_GET_SIZE(__pyx_args)); __PYX_ERR(0, 145, __pyx_L3_error)
  __pyx_L3_error:;
  __Pyx_AddTraceback("fwdpy.matrix.get_mutation_keys", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __Pyx_RefNannyFinishContext();
  return NULL;
  __pyx_L4_argument_unpacking_done:;
  if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_individuals), (&PyList_Type), 1, "individuals", 1))) __PYX_ERR(0, 145, __pyx_L1_error)
  __pyx_r = __pyx_pf_5fwdpy_6matrix_get_mutation_keys(__pyx_self, __pyx_v_pop, __pyx_v_individuals, __pyx_v_include_neutral, __pyx_v_include_selected, __pyx_v_remove_fixed, __pyx_v_sort, __pyx_v_min_sample_daf, __pyx_v_min_pop_daf, __pyx_v_deme);

  /* function exit code */
  goto __pyx_L0;
  __pyx_L1_error:;
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_get_mutation_keys(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_pop, PyObject *__pyx_v_individuals, PyObject *__pyx_v_include_neutral, PyObject *__pyx_v_include_selected, PyObject *__pyx_v_remove_fixed, PyObject *__pyx_v_sort, PyObject *__pyx_v_min_sample_daf, PyObject *__pyx_v_min_pop_daf, PyObject *__pyx_v_deme) {
  PyObject *__pyx_v_deme_ = NULL;
  __pyx_t_5fwdpy_6matrix_key_pair __pyx_v_keys;
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  int __pyx_t_1;
  int __pyx_t_2;
  double __pyx_t_3;
  PyObject *__pyx_t_4 = NULL;
  std::vector<size_t>  __pyx_t_5;
  size_t __pyx_t_6;
  std::pair<std::vector<std::pair<size_t,unsigned int> > ,std::vector<std::pair<size_t,unsigned int> > >  __pyx_t_7;
  PyObject *__pyx_t_8 = NULL;
  PyObject *__pyx_t_9 = NULL;
  unsigned int __pyx_t_10;
  __pyx_t_5fwdpy_5fwdpy_ucont_t __pyx_t_11;
  std::vector<size_t>  __pyx_t_12;
  std::pair<std::vector<std::pair<size_t,unsigned int> > ,std::vector<std::pair<size_t,unsigned int> > >  __pyx_t_13;
  std::vector<size_t>  __pyx_t_14;
  std::pair<std::vector<std::pair<size_t,unsigned int> > ,std::vector<std::pair<size_t,unsigned int> > >  __pyx_t_15;
  Py_ssize_t __pyx_t_16;
  __Pyx_RefNannySetupContext("get_mutation_keys", 0);

  /* "fwdpy/matrix.pyx":173
 *         a custom Cython plugin based on fwdpy.  This will be improved in the future with a new "views" functionality.
 *     """
 *     deme_=deme             # <<<<<<<<<<<<<<
 *     if deme is None:
 *         deme_=0
 */
  __Pyx_INCREF(__pyx_v_deme);
  __pyx_v_deme_ = __pyx_v_deme;

  /* "fwdpy/matrix.pyx":174
 *     """
 *     deme_=deme
 *     if deme is None:             # <<<<<<<<<<<<<<
 *         deme_=0
 *     if min_sample_daf is not None:
 */
  __pyx_t_1 = (__pyx_v_deme == Py_None);
  __pyx_t_2 = (__pyx_t_1 != 0);
  if (__pyx_t_2) {

    /* "fwdpy/matrix.pyx":175
 *     deme_=deme
 *     if deme is None:
 *         deme_=0             # <<<<<<<<<<<<<<
 *     if min_sample_daf is not None:
 *         if float(min_sample_daf) < 0. or float(min_sample_daf) >= 1.:
 */
    __Pyx_INCREF(__pyx_int_0);
    __Pyx_DECREF_SET(__pyx_v_deme_, __pyx_int_0);

    /* "fwdpy/matrix.pyx":174
 *     """
 *     deme_=deme
 *     if deme is None:             # <<<<<<<<<<<<<<
 *         deme_=0
 *     if min_sample_daf is not None:
 */
  }

  /* "fwdpy/matrix.pyx":176
 *     if deme is None:
 *         deme_=0
 *     if min_sample_daf is not None:             # <<<<<<<<<<<<<<
 *         if float(min_sample_daf) < 0. or float(min_sample_daf) >= 1.:
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")
 */
  __pyx_t_2 = (__pyx_v_min_sample_daf != Py_None);
  __pyx_t_1 = (__pyx_t_2 != 0);
  if (__pyx_t_1) {

    /* "fwdpy/matrix.pyx":177
 *         deme_=0
 *     if min_sample_daf is not None:
 *         if float(min_sample_daf) < 0. or float(min_sample_daf) >= 1.:             # <<<<<<<<<<<<<<
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")
 *     if min_pop_daf is not None:
 */
    __pyx_t_3 = __Pyx_PyObject_AsDouble(__pyx_v_min_sample_daf); if (unlikely(__pyx_t_3 == ((double)-1) && PyErr_Occurred())) __PYX_ERR(0, 177, __pyx_L1_error)
    __pyx_t_2 = ((__pyx_t_3 < 0.) != 0);
    if (!__pyx_t_2) {
    } else {
      __pyx_t_1 = __pyx_t_2;
      goto __pyx_L6_bool_binop_done;
    }
    __pyx_t_3 = __Pyx_PyObject_AsDouble(__pyx_v_min_sample_daf); if (unlikely(__pyx_t_3 == ((double)-1) && PyErr_Occurred())) __PYX_ERR(0, 177, __pyx_L1_error)
    __pyx_t_2 = ((__pyx_t_3 >= 1.) != 0);
    __pyx_t_1 = __pyx_t_2;
    __pyx_L6_bool_binop_done:;
    if (__pyx_t_1) {

      /* "fwdpy/matrix.pyx":178
 *     if min_sample_daf is not None:
 *         if float(min_sample_daf) < 0. or float(min_sample_daf) >= 1.:
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")             # <<<<<<<<<<<<<<
 *     if min_pop_daf is not None:
 *         if float(min_pop_daf) < 0. or float(min_pop_daf) >= 1.:
 */
      __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_RuntimeError, __pyx_tuple__9, NULL); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 178, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_4);
      __Pyx_Raise(__pyx_t_4, 0, 0, 0);
      __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
      __PYX_ERR(0, 178, __pyx_L1_error)

      /* "fwdpy/matrix.pyx":177
 *         deme_=0
 *     if min_sample_daf is not None:
 *         if float(min_sample_daf) < 0. or float(min_sample_daf) >= 1.:             # <<<<<<<<<<<<<<
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")
 *     if min_pop_daf is not None:
 */
    }

    /* "fwdpy/matrix.pyx":176
 *     if deme is None:
 *         deme_=0
 *     if min_sample_daf is not None:             # <<<<<<<<<<<<<<
 *         if float(min_sample_daf) < 0. or float(min_sample_daf) >= 1.:
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")
 */
  }

  /* "fwdpy/matrix.pyx":179
 *         if float(min_sample_daf) < 0. or float(min_sample_daf) >= 1.:
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")
 *     if min_pop_daf is not None:             # <<<<<<<<<<<<<<
 *         if float(min_pop_daf) < 0. or float(min_pop_daf) >= 1.:
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")
 */
  __pyx_t_1 = (__pyx_v_min_pop_daf != Py_None);
  __pyx_t_2 = (__pyx_t_1 != 0);
  if (__pyx_t_2) {

    /* "fwdpy/matrix.pyx":180
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")
 *     if min_pop_daf is not None:
 *         if float(min_pop_daf) < 0. or float(min_pop_daf) >= 1.:             # <<<<<<<<<<<<<<
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")
 * 
 */
    __pyx_t_3 = __Pyx_PyObject_AsDouble(__pyx_v_min_pop_daf); if (unlikely(__pyx_t_3 == ((double)-1) && PyErr_Occurred())) __PYX_ERR(0, 180, __pyx_L1_error)
    __pyx_t_1 = ((__pyx_t_3 < 0.) != 0);
    if (!__pyx_t_1) {
    } else {
      __pyx_t_2 = __pyx_t_1;
      goto __pyx_L10_bool_binop_done;
    }
    __pyx_t_3 = __Pyx_PyObject_AsDouble(__pyx_v_min_pop_daf); if (unlikely(__pyx_t_3 == ((double)-1) && PyErr_Occurred())) __PYX_ERR(0, 180, __pyx_L1_error)
    __pyx_t_1 = ((__pyx_t_3 >= 1.) != 0);
    __pyx_t_2 = __pyx_t_1;
    __pyx_L10_bool_binop_done:;
    if (__pyx_t_2) {

      /* "fwdpy/matrix.pyx":181
 *     if min_pop_daf is not None:
 *         if float(min_pop_daf) < 0. or float(min_pop_daf) >= 1.:
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")             # <<<<<<<<<<<<<<
 * 
 *     #Get the mutation keys first
 */
      __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_RuntimeError, __pyx_tuple__10, NULL); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 181, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_4);
      __Pyx_Raise(__pyx_t_4, 0, 0, 0);
      __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
      __PYX_ERR(0, 181, __pyx_L1_error)

      /* "fwdpy/matrix.pyx":180
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")
 *     if min_pop_daf is not None:
 *         if float(min_pop_daf) < 0. or float(min_pop_daf) >= 1.:             # <<<<<<<<<<<<<<
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")
 * 
 */
    }

    /* "fwdpy/matrix.pyx":179
 *         if float(min_sample_daf) < 0. or float(min_sample_daf) >= 1.:
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")
 *     if min_pop_daf is not None:             # <<<<<<<<<<<<<<
 *         if float(min_pop_daf) < 0. or float(min_pop_daf) >= 1.:
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")
 */
  }

  /* "fwdpy/matrix.pyx":185
 *     #Get the mutation keys first
 *     cdef key_pair keys
 *     if isinstance(pop,Spop):             # <<<<<<<<<<<<<<
 *         keys = mutation_keys[singlepop_t](deref((<Spop>pop).pop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:
 */
  __pyx_t_2 = __Pyx_TypeCheck(__pyx_v_pop, __pyx_ptype_5fwdpy_5fwdpy_Spop); 
  __pyx_t_1 = (__pyx_t_2 != 0);
  if (__pyx_t_1) {

    /* "fwdpy/matrix.pyx":186
 *     cdef key_pair keys
 *     if isinstance(pop,Spop):
 *         keys = mutation_keys[singlepop_t](deref((<Spop>pop).pop.get()),individuals,include_neutral,include_selected,<size_t>deme_)             # <<<<<<<<<<<<<<
 *         if sort is True:
 *             sort_keys_by_position(keys,(<Spop>pop).pop.get().mutations)
 */
    __pyx_t_5 = __pyx_convert_vector_from_py_size_t(__pyx_v_individuals); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 186, __pyx_L1_error)
    __pyx_t_1 = __Pyx_PyObject_IsTrue(__pyx_v_include_neutral); if (unlikely((__pyx_t_1 == (int)-1) && PyErr_Occurred())) __PYX_ERR(0, 186, __pyx_L1_error)
    __pyx_t_2 = __Pyx_PyObject_IsTrue(__pyx_v_include_selected); if (unlikely((__pyx_t_2 == (int)-1) && PyErr_Occurred())) __PYX_ERR(0, 186, __pyx_L1_error)
    __pyx_t_6 = __Pyx_PyInt_As_size_t(__pyx_v_deme_); if (unlikely((__pyx_t_6 == (size_t)-1) && PyErr_Occurred())) __PYX_ERR(0, 186, __pyx_L1_error)
    try {
      __pyx_t_7 = KTfwd::mutation_keys<fwdpy::singlepop_t>((*((struct __pyx_obj_5fwdpy_5fwdpy_Spop *)__pyx_v_pop)->pop.get()), __pyx_t_5, __pyx_t_1, __pyx_t_2, ((size_t)__pyx_t_6));
    } catch(...) {
      __Pyx_CppExn2PyErr();
      __PYX_ERR(0, 186, __pyx_L1_error)
    }
    __pyx_v_keys = __pyx_t_7;

    /* "fwdpy/matrix.pyx":187
 *     if isinstance(pop,Spop):
 *         keys = mutation_keys[singlepop_t](deref((<Spop>pop).pop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:             # <<<<<<<<<<<<<<
 *             sort_keys_by_position(keys,(<Spop>pop).pop.get().mutations)
 *         if min_pop_daf is not None:
 */
    __pyx_t_2 = (__pyx_v_sort == Py_True);
    __pyx_t_1 = (__pyx_t_2 != 0);
    if (__pyx_t_1) {

      /* "fwdpy/matrix.pyx":188
 *         keys = mutation_keys[singlepop_t](deref((<Spop>pop).pop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:
 *             sort_keys_by_position(keys,(<Spop>pop).pop.get().mutations)             # <<<<<<<<<<<<<<
 *         if min_pop_daf is not None:
 *             keys = apply_min_pop_daf(keys,2*<Spop>pop.popsize(),min_pop_daf,<Spop>pop.pop.get().mcounts)
 */
      __pyx_t_4 = __pyx_f_5fwdpy_6matrix_sort_keys_by_position(__pyx_v_keys, ((struct __pyx_obj_5fwdpy_5fwdpy_Spop *)__pyx_v_pop)->pop.get()->mutations); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 188, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_4);
      __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;

      /* "fwdpy/matrix.pyx":187
 *     if isinstance(pop,Spop):
 *         keys = mutation_keys[singlepop_t](deref((<Spop>pop).pop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:             # <<<<<<<<<<<<<<
 *             sort_keys_by_position(keys,(<Spop>pop).pop.get().mutations)
 *         if min_pop_daf is not None:
 */
    }

    /* "fwdpy/matrix.pyx":189
 *         if sort is True:
 *             sort_keys_by_position(keys,(<Spop>pop).pop.get().mutations)
 *         if min_pop_daf is not None:             # <<<<<<<<<<<<<<
 *             keys = apply_min_pop_daf(keys,2*<Spop>pop.popsize(),min_pop_daf,<Spop>pop.pop.get().mcounts)
 *     elif isinstance(pop,MlocusPop):
 */
    __pyx_t_1 = (__pyx_v_min_pop_daf != Py_None);
    __pyx_t_2 = (__pyx_t_1 != 0);
    if (__pyx_t_2) {

      /* "fwdpy/matrix.pyx":190
 *             sort_keys_by_position(keys,(<Spop>pop).pop.get().mutations)
 *         if min_pop_daf is not None:
 *             keys = apply_min_pop_daf(keys,2*<Spop>pop.popsize(),min_pop_daf,<Spop>pop.pop.get().mcounts)             # <<<<<<<<<<<<<<
 *     elif isinstance(pop,MlocusPop):
 *         keys = mutation_keys[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 */
      __pyx_t_8 = __Pyx_PyObject_GetAttrStr(__pyx_v_pop, __pyx_n_s_popsize); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 190, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __pyx_t_9 = NULL;
      if (CYTHON_UNPACK_METHODS && likely(PyMethod_Check(__pyx_t_8))) {
        __pyx_t_9 = PyMethod_GET_SELF(__pyx_t_8);
        if (likely(__pyx_t_9)) {
          PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_8);
          __Pyx_INCREF(__pyx_t_9);
          __Pyx_INCREF(function);
          __Pyx_DECREF_SET(__pyx_t_8, function);
        }
      }
      if (__pyx_t_9) {
        __pyx_t_4 = __Pyx_PyObject_CallOneArg(__pyx_t_8, __pyx_t_9); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 190, __pyx_L1_error)
        __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      } else {
        __pyx_t_4 = __Pyx_PyObject_CallNoArg(__pyx_t_8); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 190, __pyx_L1_error)
      }
      __Pyx_GOTREF(__pyx_t_4);
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_8 = PyNumber_Multiply(__pyx_int_2, __pyx_t_4); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 190, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
      __pyx_t_10 = __Pyx_PyInt_As_unsigned_int(__pyx_t_8); if (unlikely((__pyx_t_10 == (unsigned int)-1) && PyErr_Occurred())) __PYX_ERR(0, 190, __pyx_L1_error)
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_3 = __pyx_PyFloat_AsDouble(__pyx_v_min_pop_daf); if (unlikely((__pyx_t_3 == (double)-1) && PyErr_Occurred())) __PYX_ERR(0, 190, __pyx_L1_error)
      __pyx_t_4 = __Pyx_PyObject_GetAttrStr(__pyx_v_pop, __pyx_n_s_pop); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 190, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_4);
      __pyx_t_9 = __Pyx_PyObject_GetAttrStr(__pyx_t_4, __pyx_n_s_get); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 190, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
      __pyx_t_4 = NULL;
      if (CYTHON_UNPACK_METHODS && likely(PyMethod_Check(__pyx_t_9))) {
        __pyx_t_4 = PyMethod_GET_SELF(__pyx_t_9);
        if (likely(__pyx_t_4)) {
          PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_9);
          __Pyx_INCREF(__pyx_t_4);
          __Pyx_INCREF(function);
          __Pyx_DECREF_SET(__pyx_t_9, function);
        }
      }
      if (__pyx_t_4) {
        __pyx_t_8 = __Pyx_PyObject_CallOneArg(__pyx_t_9, __pyx_t_4); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 190, __pyx_L1_error)
        __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
      } else {
        __pyx_t_8 = __Pyx_PyObject_CallNoArg(__pyx_t_9); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 190, __pyx_L1_error)
      }
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __pyx_t_9 = __Pyx_PyObject_GetAttrStr(__pyx_t_8, __pyx_n_s_mcounts); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 190, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_11 = __pyx_convert_vector_from_py_unsigned_int(__pyx_t_9); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 190, __pyx_L1_error)
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __pyx_v_keys = __pyx_f_5fwdpy_6matrix_apply_min_pop_daf(__pyx_v_keys, __pyx_t_10, __pyx_t_3, __pyx_t_11);

      /* "fwdpy/matrix.pyx":189
 *         if sort is True:
 *             sort_keys_by_position(keys,(<Spop>pop).pop.get().mutations)
 *         if min_pop_daf is not None:             # <<<<<<<<<<<<<<
 *             keys = apply_min_pop_daf(keys,2*<Spop>pop.popsize(),min_pop_daf,<Spop>pop.pop.get().mcounts)
 *     elif isinstance(pop,MlocusPop):
 */
    }

    /* "fwdpy/matrix.pyx":185
 *     #Get the mutation keys first
 *     cdef key_pair keys
 *     if isinstance(pop,Spop):             # <<<<<<<<<<<<<<
 *         keys = mutation_keys[singlepop_t](deref((<Spop>pop).pop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:
 */
    goto __pyx_L12;
  }

  /* "fwdpy/matrix.pyx":191
 *         if min_pop_daf is not None:
 *             keys = apply_min_pop_daf(keys,2*<Spop>pop.popsize(),min_pop_daf,<Spop>pop.pop.get().mcounts)
 *     elif isinstance(pop,MlocusPop):             # <<<<<<<<<<<<<<
 *         keys = mutation_keys[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:
 */
  __pyx_t_2 = __Pyx_TypeCheck(__pyx_v_pop, __pyx_ptype_5fwdpy_5fwdpy_MlocusPop); 
  __pyx_t_1 = (__pyx_t_2 != 0);
  if (__pyx_t_1) {

    /* "fwdpy/matrix.pyx":192
 *             keys = apply_min_pop_daf(keys,2*<Spop>pop.popsize(),min_pop_daf,<Spop>pop.pop.get().mcounts)
 *     elif isinstance(pop,MlocusPop):
 *         keys = mutation_keys[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,include_neutral,include_selected,<size_t>deme_)             # <<<<<<<<<<<<<<
 *         if sort is True:
 *             sort_keys_by_position(keys,(<MlocusPop>pop).pop.get().mutations)
 */
    __pyx_t_12 = __pyx_convert_vector_from_py_size_t(__pyx_v_individuals); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 192, __pyx_L1_error)
    __pyx_t_1 = __Pyx_PyObject_IsTrue(__pyx_v_include_neutral); if (unlikely((__pyx_t_1 == (int)-1) && PyErr_Occurred())) __PYX_ERR(0, 192, __pyx_L1_error)
    __pyx_t_2 = __Pyx_PyObject_IsTrue(__pyx_v_include_selected); if (unlikely((__pyx_t_2 == (int)-1) && PyErr_Occurred())) __PYX_ERR(0, 192, __pyx_L1_error)
    __pyx_t_6 = __Pyx_PyInt_As_size_t(__pyx_v_deme_); if (unlikely((__pyx_t_6 == (size_t)-1) && PyErr_Occurred())) __PYX_ERR(0, 192, __pyx_L1_error)
    try {
      __pyx_t_13 = KTfwd::mutation_keys<fwdpy::multilocus_t>((*((struct __pyx_obj_5fwdpy_5fwdpy_MlocusPop *)__pyx_v_pop)->pop.get()), __pyx_t_12, __pyx_t_1, __pyx_t_2, ((size_t)__pyx_t_6));
    } catch(...) {
      __Pyx_CppExn2PyErr();
      __PYX_ERR(0, 192, __pyx_L1_error)
    }
    __pyx_v_keys = __pyx_t_13;

    /* "fwdpy/matrix.pyx":193
 *     elif isinstance(pop,MlocusPop):
 *         keys = mutation_keys[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:             # <<<<<<<<<<<<<<
 *             sort_keys_by_position(keys,(<MlocusPop>pop).pop.get().mutations)
 *         if min_pop_daf is not None:
 */
    __pyx_t_2 = (__pyx_v_sort == Py_True);
    __pyx_t_1 = (__pyx_t_2 != 0);
    if (__pyx_t_1) {

      /* "fwdpy/matrix.pyx":194
 *         keys = mutation_keys[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:
 *             sort_keys_by_position(keys,(<MlocusPop>pop).pop.get().mutations)             # <<<<<<<<<<<<<<
 *         if min_pop_daf is not None:
 *             keys = apply_min_pop_daf(keys,2*<MlocusPop>pop.popsize(),min_pop_daf,<MlocusPop>pop.pop.get().mcounts)
 */
      __pyx_t_9 = __pyx_f_5fwdpy_6matrix_sort_keys_by_position(__pyx_v_keys, ((struct __pyx_obj_5fwdpy_5fwdpy_MlocusPop *)__pyx_v_pop)->pop.get()->mutations); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 194, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;

      /* "fwdpy/matrix.pyx":193
 *     elif isinstance(pop,MlocusPop):
 *         keys = mutation_keys[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:             # <<<<<<<<<<<<<<
 *             sort_keys_by_position(keys,(<MlocusPop>pop).pop.get().mutations)
 *         if min_pop_daf is not None:
 */
    }

    /* "fwdpy/matrix.pyx":195
 *         if sort is True:
 *             sort_keys_by_position(keys,(<MlocusPop>pop).pop.get().mutations)
 *         if min_pop_daf is not None:             # <<<<<<<<<<<<<<
 *             keys = apply_min_pop_daf(keys,2*<MlocusPop>pop.popsize(),min_pop_daf,<MlocusPop>pop.pop.get().mcounts)
 *     elif isinstance(pop,MetaPop):
 */
    __pyx_t_1 = (__pyx_v_min_pop_daf != Py_None);
    __pyx_t_2 = (__pyx_t_1 != 0);
    if (__pyx_t_2) {

      /* "fwdpy/matrix.pyx":196
 *             sort_keys_by_position(keys,(<MlocusPop>pop).pop.get().mutations)
 *         if min_pop_daf is not None:
 *             keys = apply_min_pop_daf(keys,2*<MlocusPop>pop.popsize(),min_pop_daf,<MlocusPop>pop.pop.get().mcounts)             # <<<<<<<<<<<<<<
 *     elif isinstance(pop,MetaPop):
 *         if deme is None:
 */
      __pyx_t_8 = __Pyx_PyObject_GetAttrStr(__pyx_v_pop, __pyx_n_s_popsize); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 196, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __pyx_t_4 = NULL;
      if (CYTHON_UNPACK_METHODS && likely(PyMethod_Check(__pyx_t_8))) {
        __pyx_t_4 = PyMethod_GET_SELF(__pyx_t_8);
        if (likely(__pyx_t_4)) {
          PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_8);
          __Pyx_INCREF(__pyx_t_4);
          __Pyx_INCREF(function);
          __Pyx_DECREF_SET(__pyx_t_8, function);
        }
      }
      if (__pyx_t_4) {
        __pyx_t_9 = __Pyx_PyObject_CallOneArg(__pyx_t_8, __pyx_t_4); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 196, __pyx_L1_error)
        __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
      } else {
        __pyx_t_9 = __Pyx_PyObject_CallNoArg(__pyx_t_8); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 196, __pyx_L1_error)
      }
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_8 = PyNumber_Multiply(__pyx_int_2, __pyx_t_9); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 196, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __pyx_t_10 = __Pyx_PyInt_As_unsigned_int(__pyx_t_8); if (unlikely((__pyx_t_10 == (unsigned int)-1) && PyErr_Occurred())) __PYX_ERR(0, 196, __pyx_L1_error)
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_3 = __pyx_PyFloat_AsDouble(__pyx_v_min_pop_daf); if (unlikely((__pyx_t_3 == (double)-1) && PyErr_Occurred())) __PYX_ERR(0, 196, __pyx_L1_error)
      __pyx_t_9 = __Pyx_PyObject_GetAttrStr(__pyx_v_pop, __pyx_n_s_pop); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 196, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __pyx_t_4 = __Pyx_PyObject_GetAttrStr(__pyx_t_9, __pyx_n_s_get); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 196, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_4);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __pyx_t_9 = NULL;
      if (CYTHON_UNPACK_METHODS && likely(PyMethod_Check(__pyx_t_4))) {
        __pyx_t_9 = PyMethod_GET_SELF(__pyx_t_4);
        if (likely(__pyx_t_9)) {
          PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_4);
          __Pyx_INCREF(__pyx_t_9);
          __Pyx_INCREF(function);
          __Pyx_DECREF_SET(__pyx_t_4, function);
        }
      }
      if (__pyx_t_9) {
        __pyx_t_8 = __Pyx_PyObject_CallOneArg(__pyx_t_4, __pyx_t_9); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 196, __pyx_L1_error)
        __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      } else {
        __pyx_t_8 = __Pyx_PyObject_CallNoArg(__pyx_t_4); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 196, __pyx_L1_error)
      }
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
      __pyx_t_4 = __Pyx_PyObject_GetAttrStr(__pyx_t_8, __pyx_n_s_mcounts); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 196, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_4);
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_11 = __pyx_convert_vector_from_py_unsigned_int(__pyx_t_4); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 196, __pyx_L1_error)
      __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
      __pyx_v_keys = __pyx_f_5fwdpy_6matrix_apply_min_pop_daf(__pyx_v_keys, __pyx_t_10, __pyx_t_3, __pyx_t_11);

      /* "fwdpy/matrix.pyx":195
 *         if sort is True:
 *             sort_keys_by_position(keys,(<MlocusPop>pop).pop.get().mutations)
 *         if min_pop_daf is not None:             # <<<<<<<<<<<<<<
 *             keys = apply_min_pop_daf(keys,2*<MlocusPop>pop.popsize(),min_pop_daf,<MlocusPop>pop.pop.get().mcounts)
 *     elif isinstance(pop,MetaPop):
 */
    }

    /* "fwdpy/matrix.pyx":191
 *         if min_pop_daf is not None:
 *             keys = apply_min_pop_daf(keys,2*<Spop>pop.popsize(),min_pop_daf,<Spop>pop.pop.get().mcounts)
 *     elif isinstance(pop,MlocusPop):             # <<<<<<<<<<<<<<
 *         keys = mutation_keys[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:
 */
    goto __pyx_L12;
  }

  /* "fwdpy/matrix.pyx":197
 *         if min_pop_daf is not None:
 *             keys = apply_min_pop_daf(keys,2*<MlocusPop>pop.popsize(),min_pop_daf,<MlocusPop>pop.pop.get().mcounts)
 *     elif isinstance(pop,MetaPop):             # <<<<<<<<<<<<<<
 *         if deme is None:
 *             raise RuntimeError("deme cannot be none")
 */
  __pyx_t_2 = __Pyx_TypeCheck(__pyx_v_pop, __pyx_ptype_5fwdpy_5fwdpy_MetaPop); 
  __pyx_t_1 = (__pyx_t_2 != 0);
  if (__pyx_t_1) {

    /* "fwdpy/matrix.pyx":198
 *             keys = apply_min_pop_daf(keys,2*<MlocusPop>pop.popsize(),min_pop_daf,<MlocusPop>pop.pop.get().mcounts)
 *     elif isinstance(pop,MetaPop):
 *         if deme is None:             # <<<<<<<<<<<<<<
 *             raise RuntimeError("deme cannot be none")
 *         keys = mutation_keys[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 */
    __pyx_t_1 = (__pyx_v_deme == Py_None);
    __pyx_t_2 = (__pyx_t_1 != 0);
    if (__pyx_t_2) {

      /* "fwdpy/matrix.pyx":199
 *     elif isinstance(pop,MetaPop):
 *         if deme is None:
 *             raise RuntimeError("deme cannot be none")             # <<<<<<<<<<<<<<
 *         keys = mutation_keys[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:
 */
      __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_RuntimeError, __pyx_tuple__11, NULL); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 199, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_4);
      __Pyx_Raise(__pyx_t_4, 0, 0, 0);
      __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
      __PYX_ERR(0, 199, __pyx_L1_error)

      /* "fwdpy/matrix.pyx":198
 *             keys = apply_min_pop_daf(keys,2*<MlocusPop>pop.popsize(),min_pop_daf,<MlocusPop>pop.pop.get().mcounts)
 *     elif isinstance(pop,MetaPop):
 *         if deme is None:             # <<<<<<<<<<<<<<
 *             raise RuntimeError("deme cannot be none")
 *         keys = mutation_keys[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 */
    }

    /* "fwdpy/matrix.pyx":200
 *         if deme is None:
 *             raise RuntimeError("deme cannot be none")
 *         keys = mutation_keys[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,include_neutral,include_selected,<size_t>deme_)             # <<<<<<<<<<<<<<
 *         if sort is True:
 *             sort_keys_by_position(keys,(<MetaPop>pop).mpop.get().mutations)
 */
    __pyx_t_14 = __pyx_convert_vector_from_py_size_t(__pyx_v_individuals); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 200, __pyx_L1_error)
    __pyx_t_2 = __Pyx_PyObject_IsTrue(__pyx_v_include_neutral); if (unlikely((__pyx_t_2 == (int)-1) && PyErr_Occurred())) __PYX_ERR(0, 200, __pyx_L1_error)
    __pyx_t_1 = __Pyx_PyObject_IsTrue(__pyx_v_include_selected); if (unlikely((__pyx_t_1 == (int)-1) && PyErr_Occurred())) __PYX_ERR(0, 200, __pyx_L1_error)
    __pyx_t_6 = __Pyx_PyInt_As_size_t(__pyx_v_deme_); if (unlikely((__pyx_t_6 == (size_t)-1) && PyErr_Occurred())) __PYX_ERR(0, 200, __pyx_L1_error)
    try {
      __pyx_t_15 = KTfwd::mutation_keys<fwdpy::metapop_t>((*((struct __pyx_obj_5fwdpy_5fwdpy_MetaPop *)__pyx_v_pop)->mpop.get()), __pyx_t_14, __pyx_t_2, __pyx_t_1, ((size_t)__pyx_t_6));
    } catch(...) {
      __Pyx_CppExn2PyErr();
      __PYX_ERR(0, 200, __pyx_L1_error)
    }
    __pyx_v_keys = __pyx_t_15;

    /* "fwdpy/matrix.pyx":201
 *             raise RuntimeError("deme cannot be none")
 *         keys = mutation_keys[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:             # <<<<<<<<<<<<<<
 *             sort_keys_by_position(keys,(<MetaPop>pop).mpop.get().mutations)
 *         if min_pop_daf is not None:
 */
    __pyx_t_1 = (__pyx_v_sort == Py_True);
    __pyx_t_2 = (__pyx_t_1 != 0);
    if (__pyx_t_2) {

      /* "fwdpy/matrix.pyx":202
 *         keys = mutation_keys[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:
 *             sort_keys_by_position(keys,(<MetaPop>pop).mpop.get().mutations)             # <<<<<<<<<<<<<<
 *         if min_pop_daf is not None:
 *             keys = apply_min_pop_daf(keys,2*sum(<MetaPop>pop.popsizes()),min_pop_daf,<MetaPop>pop.mpop.get().mcounts)
 */
      __pyx_t_4 = __pyx_f_5fwdpy_6matrix_sort_keys_by_position(__pyx_v_keys, ((struct __pyx_obj_5fwdpy_5fwdpy_MetaPop *)__pyx_v_pop)->mpop.get()->mutations); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 202, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_4);
      __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;

      /* "fwdpy/matrix.pyx":201
 *             raise RuntimeError("deme cannot be none")
 *         keys = mutation_keys[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:             # <<<<<<<<<<<<<<
 *             sort_keys_by_position(keys,(<MetaPop>pop).mpop.get().mutations)
 *         if min_pop_daf is not None:
 */
    }

    /* "fwdpy/matrix.pyx":203
 *         if sort is True:
 *             sort_keys_by_position(keys,(<MetaPop>pop).mpop.get().mutations)
 *         if min_pop_daf is not None:             # <<<<<<<<<<<<<<
 *             keys = apply_min_pop_daf(keys,2*sum(<MetaPop>pop.popsizes()),min_pop_daf,<MetaPop>pop.mpop.get().mcounts)
 *     #Apply filters to keys
 */
    __pyx_t_2 = (__pyx_v_min_pop_daf != Py_None);
    __pyx_t_1 = (__pyx_t_2 != 0);
    if (__pyx_t_1) {

      /* "fwdpy/matrix.pyx":204
 *             sort_keys_by_position(keys,(<MetaPop>pop).mpop.get().mutations)
 *         if min_pop_daf is not None:
 *             keys = apply_min_pop_daf(keys,2*sum(<MetaPop>pop.popsizes()),min_pop_daf,<MetaPop>pop.mpop.get().mcounts)             # <<<<<<<<<<<<<<
 *     #Apply filters to keys
 *     if remove_fixed is True:
 */
      __pyx_t_8 = __Pyx_PyObject_GetAttrStr(__pyx_v_pop, __pyx_n_s_popsizes); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 204, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __pyx_t_9 = NULL;
      if (CYTHON_UNPACK_METHODS && likely(PyMethod_Check(__pyx_t_8))) {
        __pyx_t_9 = PyMethod_GET_SELF(__pyx_t_8);
        if (likely(__pyx_t_9)) {
          PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_8);
          __Pyx_INCREF(__pyx_t_9);
          __Pyx_INCREF(function);
          __Pyx_DECREF_SET(__pyx_t_8, function);
        }
      }
      if (__pyx_t_9) {
        __pyx_t_4 = __Pyx_PyObject_CallOneArg(__pyx_t_8, __pyx_t_9); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 204, __pyx_L1_error)
        __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      } else {
        __pyx_t_4 = __Pyx_PyObject_CallNoArg(__pyx_t_8); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 204, __pyx_L1_error)
      }
      __Pyx_GOTREF(__pyx_t_4);
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_8 = PyTuple_New(1); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 204, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_INCREF(((PyObject *)((struct __pyx_obj_5fwdpy_5fwdpy_MetaPop *)__pyx_t_4)));
      __Pyx_GIVEREF(__pyx_t_4);
      PyTuple_SET_ITEM(__pyx_t_8, 0, __pyx_t_4);
      __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
      __pyx_t_4 = __Pyx_PyObject_Call(__pyx_builtin_sum, __pyx_t_8, NULL); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 204, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_4);
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_8 = PyNumber_Multiply(__pyx_int_2, __pyx_t_4); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 204, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
      __pyx_t_10 = __Pyx_PyInt_As_unsigned_int(__pyx_t_8); if (unlikely((__pyx_t_10 == (unsigned int)-1) && PyErr_Occurred())) __PYX_ERR(0, 204, __pyx_L1_error)
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_3 = __pyx_PyFloat_AsDouble(__pyx_v_min_pop_daf); if (unlikely((__pyx_t_3 == (double)-1) && PyErr_Occurred())) __PYX_ERR(0, 204, __pyx_L1_error)
      __pyx_t_4 = __Pyx_PyObject_GetAttrStr(__pyx_v_pop, __pyx_n_s_mpop); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 204, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_4);
      __pyx_t_9 = __Pyx_PyObject_GetAttrStr(__pyx_t_4, __pyx_n_s_get); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 204, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
      __pyx_t_4 = NULL;
      if (CYTHON_UNPACK_METHODS && likely(PyMethod_Check(__pyx_t_9))) {
        __pyx_t_4 = PyMethod_GET_SELF(__pyx_t_9);
        if (likely(__pyx_t_4)) {
          PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_9);
          __Pyx_INCREF(__pyx_t_4);
          __Pyx_INCREF(function);
          __Pyx_DECREF_SET(__pyx_t_9, function);
        }
      }
      if (__pyx_t_4) {
        __pyx_t_8 = __Pyx_PyObject_CallOneArg(__pyx_t_9, __pyx_t_4); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 204, __pyx_L1_error)
        __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
      } else {
        __pyx_t_8 = __Pyx_PyObject_CallNoArg(__pyx_t_9); if (unlikely(!__pyx_t_8)) __PYX_ERR(0, 204, __pyx_L1_error)
      }
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __pyx_t_9 = __Pyx_PyObject_GetAttrStr(__pyx_t_8, __pyx_n_s_mcounts); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 204, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_DECREF(__pyx_t_8); __pyx_t_8 = 0;
      __pyx_t_11 = __pyx_convert_vector_from_py_unsigned_int(__pyx_t_9); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 204, __pyx_L1_error)
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __pyx_v_keys = __pyx_f_5fwdpy_6matrix_apply_min_pop_daf(__pyx_v_keys, __pyx_t_10, __pyx_t_3, __pyx_t_11);

      /* "fwdpy/matrix.pyx":203
 *         if sort is True:
 *             sort_keys_by_position(keys,(<MetaPop>pop).mpop.get().mutations)
 *         if min_pop_daf is not None:             # <<<<<<<<<<<<<<
 *             keys = apply_min_pop_daf(keys,2*sum(<MetaPop>pop.popsizes()),min_pop_daf,<MetaPop>pop.mpop.get().mcounts)
 *     #Apply filters to keys
 */
    }

    /* "fwdpy/matrix.pyx":197
 *         if min_pop_daf is not None:
 *             keys = apply_min_pop_daf(keys,2*<MlocusPop>pop.popsize(),min_pop_daf,<MlocusPop>pop.pop.get().mcounts)
 *     elif isinstance(pop,MetaPop):             # <<<<<<<<<<<<<<
 *         if deme is None:
 *             raise RuntimeError("deme cannot be none")
 */
  }
  __pyx_L12:;

  /* "fwdpy/matrix.pyx":206
 *             keys = apply_min_pop_daf(keys,2*sum(<MetaPop>pop.popsizes()),min_pop_daf,<MetaPop>pop.mpop.get().mcounts)
 *     #Apply filters to keys
 *     if remove_fixed is True:             # <<<<<<<<<<<<<<
 *         keys = remove_fixed_keys(keys,2*len(individuals))
 *     if min_sample_daf is not None:
 */
  __pyx_t_1 = (__pyx_v_remove_fixed == Py_True);
  __pyx_t_2 = (__pyx_t_1 != 0);
  if (__pyx_t_2) {

    /* "fwdpy/matrix.pyx":207
 *     #Apply filters to keys
 *     if remove_fixed is True:
 *         keys = remove_fixed_keys(keys,2*len(individuals))             # <<<<<<<<<<<<<<
 *     if min_sample_daf is not None:
 *         keys = apply_min_sample_daf(keys,2*len(individuals),min_sample_daf)
 */
    if (unlikely(__pyx_v_individuals == Py_None)) {
      PyErr_SetString(PyExc_TypeError, "object of type 'NoneType' has no len()");
      __PYX_ERR(0, 207, __pyx_L1_error)
    }
    __pyx_t_16 = PyList_GET_SIZE(__pyx_v_individuals); if (unlikely(__pyx_t_16 == -1)) __PYX_ERR(0, 207, __pyx_L1_error)
    __pyx_v_keys = __pyx_f_5fwdpy_6matrix_remove_fixed_keys(__pyx_v_keys, (2 * __pyx_t_16));

    /* "fwdpy/matrix.pyx":206
 *             keys = apply_min_pop_daf(keys,2*sum(<MetaPop>pop.popsizes()),min_pop_daf,<MetaPop>pop.mpop.get().mcounts)
 *     #Apply filters to keys
 *     if remove_fixed is True:             # <<<<<<<<<<<<<<
 *         keys = remove_fixed_keys(keys,2*len(individuals))
 *     if min_sample_daf is not None:
 */
  }

  /* "fwdpy/matrix.pyx":208
 *     if remove_fixed is True:
 *         keys = remove_fixed_keys(keys,2*len(individuals))
 *     if min_sample_daf is not None:             # <<<<<<<<<<<<<<
 *         keys = apply_min_sample_daf(keys,2*len(individuals),min_sample_daf)
 *     return keys
 */
  __pyx_t_2 = (__pyx_v_min_sample_daf != Py_None);
  __pyx_t_1 = (__pyx_t_2 != 0);
  if (__pyx_t_1) {

    /* "fwdpy/matrix.pyx":209
 *         keys = remove_fixed_keys(keys,2*len(individuals))
 *     if min_sample_daf is not None:
 *         keys = apply_min_sample_daf(keys,2*len(individuals),min_sample_daf)             # <<<<<<<<<<<<<<
 *     return keys
 * 
 */
    if (unlikely(__pyx_v_individuals == Py_None)) {
      PyErr_SetString(PyExc_TypeError, "object of type 'NoneType' has no len()");
      __PYX_ERR(0, 209, __pyx_L1_error)
    }
    __pyx_t_16 = PyList_GET_SIZE(__pyx_v_individuals); if (unlikely(__pyx_t_16 == -1)) __PYX_ERR(0, 209, __pyx_L1_error)
    __pyx_t_3 = __pyx_PyFloat_AsDouble(__pyx_v_min_sample_daf); if (unlikely((__pyx_t_3 == (double)-1) && PyErr_Occurred())) __PYX_ERR(0, 209, __pyx_L1_error)
    __pyx_v_keys = __pyx_f_5fwdpy_6matrix_apply_min_sample_daf(__pyx_v_keys, (2 * __pyx_t_16), __pyx_t_3);

    /* "fwdpy/matrix.pyx":208
 *     if remove_fixed is True:
 *         keys = remove_fixed_keys(keys,2*len(individuals))
 *     if min_sample_daf is not None:             # <<<<<<<<<<<<<<
 *         keys = apply_min_sample_daf(keys,2*len(individuals),min_sample_daf)
 *     return keys
 */
  }

  /* "fwdpy/matrix.pyx":210
 *     if min_sample_daf is not None:
 *         keys = apply_min_sample_daf(keys,2*len(individuals),min_sample_daf)
 *     return keys             # <<<<<<<<<<<<<<
 * 
 * def haplotype_matrix(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None,keys=None):
 */
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_9 = __pyx_convert_pair_to_py_std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e_______std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e___(__pyx_v_keys); if (unlikely(!__pyx_t_9)) __PYX_ERR(0, 210, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_9);
  __pyx_r = __pyx_t_9;
  __pyx_t_9 = 0;
  goto __pyx_L0;

  /* "fwdpy/matrix.pyx":145
 *         return rv
 * 
 * def get_mutation_keys(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None):             # <<<<<<<<<<<<<<
 *     """
 *     Generate keys to the set of mutations present in the sample defined by a set of individuals.
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_XDECREF(__pyx_t_8);
  __Pyx_XDECREF(__pyx_t_9);
  __Pyx_AddTraceback("fwdpy.matrix.get_mutation_keys", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_XDECREF(__pyx_v_deme_);
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pyx":212
 *     return keys
 * 
 * def haplotype_matrix(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None,keys=None):             # <<<<<<<<<<<<<<
 *     """
 *     Generate a haplotype matrix stored in a :class:`fwdpy.matrix.HaplotypeMatrix`
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_3haplotype_matrix(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/
static char __pyx_doc_5fwdpy_6matrix_2haplotype_matrix[] = "\n    Generate a haplotype matrix stored in a :class:`fwdpy.matrix.HaplotypeMatrix`\n    \n    All arguments are identical to :func:`fwdpy.matrix.get_mutation_keys` with the exception of:\n\n    :param keys: (None) Pre-calculated mutation keys.  Must be a tuple of lists of positive integers. Exceptions will be raised if keys are invalid or out of range.\n\n    :rtype: :class:`fwdpy.matrix.HaplotypeMatrix`\n    ";
static PyMethodDef __pyx_mdef_5fwdpy_6matrix_3haplotype_matrix = {"haplotype_matrix", (PyCFunction)__pyx_pw_5fwdpy_6matrix_3haplotype_matrix, METH_VARARGS|METH_KEYWORDS, __pyx_doc_5fwdpy_6matrix_2haplotype_matrix};
static PyObject *__pyx_pw_5fwdpy_6matrix_3haplotype_matrix(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) {
  PyObject *__pyx_v_pop = 0;
  PyObject *__pyx_v_individuals = 0;
  PyObject *__pyx_v_include_neutral = 0;
  PyObject *__pyx_v_include_selected = 0;
  PyObject *__pyx_v_remove_fixed = 0;
  PyObject *__pyx_v_sort = 0;
  PyObject *__pyx_v_min_sample_daf = 0;
  PyObject *__pyx_v_min_pop_daf = 0;
  PyObject *__pyx_v_deme = 0;
  PyObject *__pyx_v_keys = 0;
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("haplotype_matrix (wrapper)", 0);
  {
    static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_pop,&__pyx_n_s_individuals,&__pyx_n_s_include_neutral,&__pyx_n_s_include_selected,&__pyx_n_s_remove_fixed,&__pyx_n_s_sort,&__pyx_n_s_min_sample_daf,&__pyx_n_s_min_pop_daf,&__pyx_n_s_deme,&__pyx_n_s_keys,0};
    PyObject* values[10] = {0,0,0,0,0,0,0,0,0,0};
    values[2] = ((PyObject *)Py_True);
    values[3] = ((PyObject *)Py_True);
    values[4] = ((PyObject *)Py_False);
    values[5] = ((PyObject *)Py_True);
    values[6] = ((PyObject *)Py_None);
    values[7] = ((PyObject *)Py_None);
    values[8] = ((PyObject *)Py_None);
    values[9] = ((PyObject *)Py_None);
    if (unlikely(__pyx_kwds)) {
      Py_ssize_t kw_args;
      const Py_ssize_t pos_args = PyTuple_GET_SIZE(__pyx_args);
      switch (pos_args) {
        case 10: values[9] = PyTuple_GET_ITEM(__pyx_args, 9);
        case  9: values[8] = PyTuple_GET_ITEM(__pyx_args, 8);
        case  8: values[7] = PyTuple_GET_ITEM(__pyx_args, 7);
        case  7: values[6] = PyTuple_GET_ITEM(__pyx_args, 6);
        case  6: values[5] = PyTuple_GET_ITEM(__pyx_args, 5);
        case  5: values[4] = PyTuple_GET_ITEM(__pyx_args, 4);
        case  4: values[3] = PyTuple_GET_ITEM(__pyx_args, 3);
        case  3: values[2] = PyTuple_GET_ITEM(__pyx_args, 2);
        case  2: values[1] = PyTuple_GET_ITEM(__pyx_args, 1);
        case  1: values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
        case  0: break;
        default: goto __pyx_L5_argtuple_error;
      }
      kw_args = PyDict_Size(__pyx_kwds);
      switch (pos_args) {
        case  0:
        if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_pop)) != 0)) kw_args--;
        else goto __pyx_L5_argtuple_error;
        case  1:
        if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_individuals)) != 0)) kw_args--;
        else {
          __Pyx_RaiseArgtupleInvalid("haplotype_matrix", 0, 2, 10, 1); __PYX_ERR(0, 212, __pyx_L3_error)
        }
        case  2:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_include_neutral);
          if (value) { values[2] = value; kw_args--; }
        }
        case  3:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_include_selected);
          if (value) { values[3] = value; kw_args--; }
        }
        case  4:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_remove_fixed);
          if (value) { values[4] = value; kw_args--; }
        }
        case  5:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_sort);
          if (value) { values[5] = value; kw_args--; }
        }
        case  6:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_min_sample_daf);
          if (value) { values[6] = value; kw_args--; }
        }
        case  7:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_min_pop_daf);
          if (value) { values[7] = value; kw_args--; }
        }
        case  8:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_deme);
          if (value) { values[8] = value; kw_args--; }
        }
        case  9:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_keys);
          if (value) { values[9] = value; kw_args--; }
        }
      }
      if (unlikely(kw_args > 0)) {
        if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "haplotype_matrix") < 0)) __PYX_ERR(0, 212, __pyx_L3_error)
      }
    } else {
      switch (PyTuple_GET_SIZE(__pyx_args)) {
        case 10: values[9] = PyTuple_GET_ITEM(__pyx_args, 9);
        case  9: values[8] = PyTuple_GET_ITEM(__pyx_args, 8);
        case  8: values[7] = PyTuple_GET_ITEM(__pyx_args, 7);
        case  7: values[6] = PyTuple_GET_ITEM(__pyx_args, 6);
        case  6: values[5] = PyTuple_GET_ITEM(__pyx_args, 5);
        case  5: values[4] = PyTuple_GET_ITEM(__pyx_args, 4);
        case  4: values[3] = PyTuple_GET_ITEM(__pyx_args, 3);
        case  3: values[2] = PyTuple_GET_ITEM(__pyx_args, 2);
        case  2: values[1] = PyTuple_GET_ITEM(__pyx_args, 1);
        values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
        break;
        default: goto __pyx_L5_argtuple_error;
      }
    }
    __pyx_v_pop = values[0];
    __pyx_v_individuals = ((PyObject*)values[1]);
    __pyx_v_include_neutral = values[2];
    __pyx_v_include_selected = values[3];
    __pyx_v_remove_fixed = values[4];
    __pyx_v_sort = values[5];
    __pyx_v_min_sample_daf = values[6];
    __pyx_v_min_pop_daf = values[7];
    __pyx_v_deme = values[8];
    __pyx_v_keys = values[9];
  }
  goto __pyx_L4_argument_unpacking_done;
  __pyx_L5_argtuple_error:;
  __Pyx_RaiseArgtupleInvalid("haplotype_matrix", 0, 2, 10, PyTuple_GET_SIZE(__pyx_args)); __PYX_ERR(0, 212, __pyx_L3_error)
  __pyx_L3_error:;
  __Pyx_AddTraceback("fwdpy.matrix.haplotype_matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __Pyx_RefNannyFinishContext();
  return NULL;
  __pyx_L4_argument_unpacking_done:;
  if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_individuals), (&PyList_Type), 1, "individuals", 1))) __PYX_ERR(0, 212, __pyx_L1_error)
  __pyx_r = __pyx_pf_5fwdpy_6matrix_2haplotype_matrix(__pyx_self, __pyx_v_pop, __pyx_v_individuals, __pyx_v_include_neutral, __pyx_v_include_selected, __pyx_v_remove_fixed, __pyx_v_sort, __pyx_v_min_sample_daf, __pyx_v_min_pop_daf, __pyx_v_deme, __pyx_v_keys);

  /* function exit code */
  goto __pyx_L0;
  __pyx_L1_error:;
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_2haplotype_matrix(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_pop, PyObject *__pyx_v_individuals, PyObject *__pyx_v_include_neutral, PyObject *__pyx_v_include_selected, PyObject *__pyx_v_remove_fixed, PyObject *__pyx_v_sort, PyObject *__pyx_v_min_sample_daf, PyObject *__pyx_v_min_pop_daf, PyObject *__pyx_v_deme, PyObject *__pyx_v_keys) {
  PyObject *__pyx_v_deme_ = NULL;
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  int __pyx_t_1;
  int __pyx_t_2;
  PyObject *__pyx_t_3 = NULL;
  PyObject *__pyx_t_4 = NULL;
  PyObject *__pyx_t_5 = NULL;
  int __pyx_t_6;
  PyObject *__pyx_t_7 = NULL;
  std::vector<size_t>  __pyx_t_8;
  std::vector<std::pair<size_t,unsigned int> >  __pyx_t_9;
  std::vector<std::pair<size_t,unsigned int> >  __pyx_t_10;
  size_t __pyx_t_11;
  struct KTfwd::data_matrix __pyx_t_12;
  std::vector<size_t>  __pyx_t_13;
  std::vector<std::pair<size_t,unsigned int> >  __pyx_t_14;
  std::vector<std::pair<size_t,unsigned int> >  __pyx_t_15;
  std::vector<size_t>  __pyx_t_16;
  std::vector<std::pair<size_t,unsigned int> >  __pyx_t_17;
  std::vector<std::pair<size_t,unsigned int> >  __pyx_t_18;
  __Pyx_RefNannySetupContext("haplotype_matrix", 0);
  __Pyx_INCREF(__pyx_v_keys);

  /* "fwdpy/matrix.pyx":222
 *     :rtype: :class:`fwdpy.matrix.HaplotypeMatrix`
 *     """
 *     deme_=deme             # <<<<<<<<<<<<<<
 *     if deme is None: deme_ = 0
 *     if keys is None:
 */
  __Pyx_INCREF(__pyx_v_deme);
  __pyx_v_deme_ = __pyx_v_deme;

  /* "fwdpy/matrix.pyx":223
 *     """
 *     deme_=deme
 *     if deme is None: deme_ = 0             # <<<<<<<<<<<<<<
 *     if keys is None:
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)
 */
  __pyx_t_1 = (__pyx_v_deme == Py_None);
  __pyx_t_2 = (__pyx_t_1 != 0);
  if (__pyx_t_2) {
    __Pyx_INCREF(__pyx_int_0);
    __Pyx_DECREF_SET(__pyx_v_deme_, __pyx_int_0);
  }

  /* "fwdpy/matrix.pyx":224
 *     deme_=deme
 *     if deme is None: deme_ = 0
 *     if keys is None:             # <<<<<<<<<<<<<<
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)
 *     if isinstance(pop,Spop):
 */
  __pyx_t_2 = (__pyx_v_keys == Py_None);
  __pyx_t_1 = (__pyx_t_2 != 0);
  if (__pyx_t_1) {

    /* "fwdpy/matrix.pyx":225
 *     if deme is None: deme_ = 0
 *     if keys is None:
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)             # <<<<<<<<<<<<<<
 *     if isinstance(pop,Spop):
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 */
    __pyx_t_4 = __Pyx_GetModuleGlobalName(__pyx_n_s_get_mutation_keys); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 225, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    __pyx_t_5 = NULL;
    __pyx_t_6 = 0;
    if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_4))) {
      __pyx_t_5 = PyMethod_GET_SELF(__pyx_t_4);
      if (likely(__pyx_t_5)) {
        PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_4);
        __Pyx_INCREF(__pyx_t_5);
        __Pyx_INCREF(function);
        __Pyx_DECREF_SET(__pyx_t_4, function);
        __pyx_t_6 = 1;
      }
    }
    #if CYTHON_FAST_PYCALL
    if (PyFunction_Check(__pyx_t_4)) {
      PyObject *__pyx_temp[10] = {__pyx_t_5, __pyx_v_pop, __pyx_v_individuals, __pyx_v_include_neutral, __pyx_v_include_selected, __pyx_v_remove_fixed, __pyx_v_sort, __pyx_v_min_sample_daf, __pyx_v_min_pop_daf, __pyx_v_deme};
      __pyx_t_3 = __Pyx_PyFunction_FastCall(__pyx_t_4, __pyx_temp+1-__pyx_t_6, 9+__pyx_t_6); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 225, __pyx_L1_error)
      __Pyx_XDECREF(__pyx_t_5); __pyx_t_5 = 0;
      __Pyx_GOTREF(__pyx_t_3);
    } else
    #endif
    #if CYTHON_FAST_PYCCALL
    if (__Pyx_PyFastCFunction_Check(__pyx_t_4)) {
      PyObject *__pyx_temp[10] = {__pyx_t_5, __pyx_v_pop, __pyx_v_individuals, __pyx_v_include_neutral, __pyx_v_include_selected, __pyx_v_remove_fixed, __pyx_v_sort, __pyx_v_min_sample_daf, __pyx_v_min_pop_daf, __pyx_v_deme};
      __pyx_t_3 = __Pyx_PyCFunction_FastCall(__pyx_t_4, __pyx_temp+1-__pyx_t_6, 9+__pyx_t_6); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 225, __pyx_L1_error)
      __Pyx_XDECREF(__pyx_t_5); __pyx_t_5 = 0;
      __Pyx_GOTREF(__pyx_t_3);
    } else
    #endif
    {
      __pyx_t_7 = PyTuple_New(9+__pyx_t_6); if (unlikely(!__pyx_t_7)) __PYX_ERR(0, 225, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_7);
      if (__pyx_t_5) {
        __Pyx_GIVEREF(__pyx_t_5); PyTuple_SET_ITEM(__pyx_t_7, 0, __pyx_t_5); __pyx_t_5 = NULL;
      }
      __Pyx_INCREF(__pyx_v_pop);
      __Pyx_GIVEREF(__pyx_v_pop);
      PyTuple_SET_ITEM(__pyx_t_7, 0+__pyx_t_6, __pyx_v_pop);
      __Pyx_INCREF(__pyx_v_individuals);
      __Pyx_GIVEREF(__pyx_v_individuals);
      PyTuple_SET_ITEM(__pyx_t_7, 1+__pyx_t_6, __pyx_v_individuals);
      __Pyx_INCREF(__pyx_v_include_neutral);
      __Pyx_GIVEREF(__pyx_v_include_neutral);
      PyTuple_SET_ITEM(__pyx_t_7, 2+__pyx_t_6, __pyx_v_include_neutral);
      __Pyx_INCREF(__pyx_v_include_selected);
      __Pyx_GIVEREF(__pyx_v_include_selected);
      PyTuple_SET_ITEM(__pyx_t_7, 3+__pyx_t_6, __pyx_v_include_selected);
      __Pyx_INCREF(__pyx_v_remove_fixed);
      __Pyx_GIVEREF(__pyx_v_remove_fixed);
      PyTuple_SET_ITEM(__pyx_t_7, 4+__pyx_t_6, __pyx_v_remove_fixed);
      __Pyx_INCREF(__pyx_v_sort);
      __Pyx_GIVEREF(__pyx_v_sort);
      PyTuple_SET_ITEM(__pyx_t_7, 5+__pyx_t_6, __pyx_v_sort);
      __Pyx_INCREF(__pyx_v_min_sample_daf);
      __Pyx_GIVEREF(__pyx_v_min_sample_daf);
      PyTuple_SET_ITEM(__pyx_t_7, 6+__pyx_t_6, __pyx_v_min_sample_daf);
      __Pyx_INCREF(__pyx_v_min_pop_daf);
      __Pyx_GIVEREF(__pyx_v_min_pop_daf);
      PyTuple_SET_ITEM(__pyx_t_7, 7+__pyx_t_6, __pyx_v_min_pop_daf);
      __Pyx_INCREF(__pyx_v_deme);
      __Pyx_GIVEREF(__pyx_v_deme);
      PyTuple_SET_ITEM(__pyx_t_7, 8+__pyx_t_6, __pyx_v_deme);
      __pyx_t_3 = __Pyx_PyObject_Call(__pyx_t_4, __pyx_t_7, NULL); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 225, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_3);
      __Pyx_DECREF(__pyx_t_7); __pyx_t_7 = 0;
    }
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
    __Pyx_DECREF_SET(__pyx_v_keys, __pyx_t_3);
    __pyx_t_3 = 0;

    /* "fwdpy/matrix.pyx":224
 *     deme_=deme
 *     if deme is None: deme_ = 0
 *     if keys is None:             # <<<<<<<<<<<<<<
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)
 *     if isinstance(pop,Spop):
 */
  }

  /* "fwdpy/matrix.pyx":226
 *     if keys is None:
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)
 *     if isinstance(pop,Spop):             # <<<<<<<<<<<<<<
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MlocusPop):
 */
  __pyx_t_1 = __Pyx_TypeCheck(__pyx_v_pop, __pyx_ptype_5fwdpy_5fwdpy_Spop); 
  __pyx_t_2 = (__pyx_t_1 != 0);
  if (__pyx_t_2) {

    /* "fwdpy/matrix.pyx":227
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)
 *     if isinstance(pop,Spop):
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))             # <<<<<<<<<<<<<<
 *     if isinstance(pop,MlocusPop):
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 */
    __Pyx_XDECREF(__pyx_r);
    __pyx_t_8 = __pyx_convert_vector_from_py_size_t(__pyx_v_individuals); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 227, __pyx_L1_error)
    __pyx_t_3 = __Pyx_GetItemInt(__pyx_v_keys, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 227, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_9 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_3); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 227, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __pyx_t_3 = __Pyx_GetItemInt(__pyx_v_keys, 1, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 227, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_10 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_3); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 227, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __pyx_t_11 = __Pyx_PyInt_As_size_t(__pyx_v_deme_); if (unlikely((__pyx_t_11 == (size_t)-1) && PyErr_Occurred())) __PYX_ERR(0, 227, __pyx_L1_error)
    try {
      __pyx_t_12 = KTfwd::haplotype_matrix<fwdpy::singlepop_t>((*((struct __pyx_obj_5fwdpy_5fwdpy_Spop *)__pyx_v_pop)->pop.get()), __pyx_t_8, __pyx_t_9, __pyx_t_10, ((size_t)__pyx_t_11));
    } catch(...) {
      __Pyx_CppExn2PyErr();
      __PYX_ERR(0, 227, __pyx_L1_error)
    }
    __pyx_t_3 = __pyx_convert__to_py_struct__KTfwd_3a__3a_data_matrix(__pyx_t_12); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 227, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_4 = PyTuple_New(1); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 227, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    __Pyx_GIVEREF(__pyx_t_3);
    PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_t_3);
    __pyx_t_3 = 0;
    __pyx_t_3 = __Pyx_PyObject_Call(((PyObject *)__pyx_ptype_5fwdpy_6matrix_HaplotypeMatrix), __pyx_t_4, NULL); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 227, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
    __pyx_r = __pyx_t_3;
    __pyx_t_3 = 0;
    goto __pyx_L0;

    /* "fwdpy/matrix.pyx":226
 *     if keys is None:
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)
 *     if isinstance(pop,Spop):             # <<<<<<<<<<<<<<
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MlocusPop):
 */
  }

  /* "fwdpy/matrix.pyx":228
 *     if isinstance(pop,Spop):
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MlocusPop):             # <<<<<<<<<<<<<<
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MetaPop):
 */
  __pyx_t_2 = __Pyx_TypeCheck(__pyx_v_pop, __pyx_ptype_5fwdpy_5fwdpy_MlocusPop); 
  __pyx_t_1 = (__pyx_t_2 != 0);
  if (__pyx_t_1) {

    /* "fwdpy/matrix.pyx":229
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MlocusPop):
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))             # <<<<<<<<<<<<<<
 *     if isinstance(pop,MetaPop):
 *         if deme is None:
 */
    __Pyx_XDECREF(__pyx_r);
    __pyx_t_13 = __pyx_convert_vector_from_py_size_t(__pyx_v_individuals); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 229, __pyx_L1_error)
    __pyx_t_3 = __Pyx_GetItemInt(__pyx_v_keys, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 229, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_14 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_3); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 229, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __pyx_t_3 = __Pyx_GetItemInt(__pyx_v_keys, 1, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 229, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_15 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_3); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 229, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __pyx_t_11 = __Pyx_PyInt_As_size_t(__pyx_v_deme_); if (unlikely((__pyx_t_11 == (size_t)-1) && PyErr_Occurred())) __PYX_ERR(0, 229, __pyx_L1_error)
    try {
      __pyx_t_12 = KTfwd::haplotype_matrix<fwdpy::multilocus_t>((*((struct __pyx_obj_5fwdpy_5fwdpy_MlocusPop *)__pyx_v_pop)->pop.get()), __pyx_t_13, __pyx_t_14, __pyx_t_15, ((size_t)__pyx_t_11));
    } catch(...) {
      __Pyx_CppExn2PyErr();
      __PYX_ERR(0, 229, __pyx_L1_error)
    }
    __pyx_t_3 = __pyx_convert__to_py_struct__KTfwd_3a__3a_data_matrix(__pyx_t_12); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 229, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_4 = PyTuple_New(1); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 229, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    __Pyx_GIVEREF(__pyx_t_3);
    PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_t_3);
    __pyx_t_3 = 0;
    __pyx_t_3 = __Pyx_PyObject_Call(((PyObject *)__pyx_ptype_5fwdpy_6matrix_HaplotypeMatrix), __pyx_t_4, NULL); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 229, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
    __pyx_r = __pyx_t_3;
    __pyx_t_3 = 0;
    goto __pyx_L0;

    /* "fwdpy/matrix.pyx":228
 *     if isinstance(pop,Spop):
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MlocusPop):             # <<<<<<<<<<<<<<
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MetaPop):
 */
  }

  /* "fwdpy/matrix.pyx":230
 *     if isinstance(pop,MlocusPop):
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MetaPop):             # <<<<<<<<<<<<<<
 *         if deme is None:
 *             raise RuntimeError("deme cannot be None")
 */
  __pyx_t_1 = __Pyx_TypeCheck(__pyx_v_pop, __pyx_ptype_5fwdpy_5fwdpy_MetaPop); 
  __pyx_t_2 = (__pyx_t_1 != 0);
  if (__pyx_t_2) {

    /* "fwdpy/matrix.pyx":231
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MetaPop):
 *         if deme is None:             # <<<<<<<<<<<<<<
 *             raise RuntimeError("deme cannot be None")
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 */
    __pyx_t_2 = (__pyx_v_deme == Py_None);
    __pyx_t_1 = (__pyx_t_2 != 0);
    if (__pyx_t_1) {

      /* "fwdpy/matrix.pyx":232
 *     if isinstance(pop,MetaPop):
 *         if deme is None:
 *             raise RuntimeError("deme cannot be None")             # <<<<<<<<<<<<<<
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     else:
 */
      __pyx_t_3 = __Pyx_PyObject_Call(__pyx_builtin_RuntimeError, __pyx_tuple__12, NULL); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 232, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_3);
      __Pyx_Raise(__pyx_t_3, 0, 0, 0);
      __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
      __PYX_ERR(0, 232, __pyx_L1_error)

      /* "fwdpy/matrix.pyx":231
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MetaPop):
 *         if deme is None:             # <<<<<<<<<<<<<<
 *             raise RuntimeError("deme cannot be None")
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 */
    }

    /* "fwdpy/matrix.pyx":233
 *         if deme is None:
 *             raise RuntimeError("deme cannot be None")
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))             # <<<<<<<<<<<<<<
 *     else:
 *         raise NotImplementedError("population type not supported")
 */
    __Pyx_XDECREF(__pyx_r);
    __pyx_t_16 = __pyx_convert_vector_from_py_size_t(__pyx_v_individuals); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 233, __pyx_L1_error)
    __pyx_t_3 = __Pyx_GetItemInt(__pyx_v_keys, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 233, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_17 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_3); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 233, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __pyx_t_3 = __Pyx_GetItemInt(__pyx_v_keys, 1, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 233, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_18 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_3); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 233, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __pyx_t_11 = __Pyx_PyInt_As_size_t(__pyx_v_deme_); if (unlikely((__pyx_t_11 == (size_t)-1) && PyErr_Occurred())) __PYX_ERR(0, 233, __pyx_L1_error)
    try {
      __pyx_t_12 = KTfwd::haplotype_matrix<fwdpy::metapop_t>((*((struct __pyx_obj_5fwdpy_5fwdpy_MetaPop *)__pyx_v_pop)->mpop.get()), __pyx_t_16, __pyx_t_17, __pyx_t_18, ((size_t)__pyx_t_11));
    } catch(...) {
      __Pyx_CppExn2PyErr();
      __PYX_ERR(0, 233, __pyx_L1_error)
    }
    __pyx_t_3 = __pyx_convert__to_py_struct__KTfwd_3a__3a_data_matrix(__pyx_t_12); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 233, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_4 = PyTuple_New(1); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 233, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    __Pyx_GIVEREF(__pyx_t_3);
    PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_t_3);
    __pyx_t_3 = 0;
    __pyx_t_3 = __Pyx_PyObject_Call(((PyObject *)__pyx_ptype_5fwdpy_6matrix_HaplotypeMatrix), __pyx_t_4, NULL); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 233, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
    __pyx_r = __pyx_t_3;
    __pyx_t_3 = 0;
    goto __pyx_L0;

    /* "fwdpy/matrix.pyx":230
 *     if isinstance(pop,MlocusPop):
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MetaPop):             # <<<<<<<<<<<<<<
 *         if deme is None:
 *             raise RuntimeError("deme cannot be None")
 */
  }

  /* "fwdpy/matrix.pyx":235
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     else:
 *         raise NotImplementedError("population type not supported")             # <<<<<<<<<<<<<<
 * 
 * def genotype_matrix(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None,keys=None):
 */
  /*else*/ {
    __pyx_t_3 = __Pyx_PyObject_Call(__pyx_builtin_NotImplementedError, __pyx_tuple__13, NULL); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 235, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __Pyx_Raise(__pyx_t_3, 0, 0, 0);
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __PYX_ERR(0, 235, __pyx_L1_error)
  }

  /* "fwdpy/matrix.pyx":212
 *     return keys
 * 
 * def haplotype_matrix(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None,keys=None):             # <<<<<<<<<<<<<<
 *     """
 *     Generate a haplotype matrix stored in a :class:`fwdpy.matrix.HaplotypeMatrix`
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_3);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_XDECREF(__pyx_t_5);
  __Pyx_XDECREF(__pyx_t_7);
  __Pyx_AddTraceback("fwdpy.matrix.haplotype_matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_XDECREF(__pyx_v_deme_);
  __Pyx_XDECREF(__pyx_v_keys);
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/matrix.pyx":237
 *         raise NotImplementedError("population type not supported")
 * 
 * def genotype_matrix(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None,keys=None):             # <<<<<<<<<<<<<<
 *     """
 *     Generate a genotype matrix stored in a :class:`fwdpy.matrix.GenotypeMatrix`
 */

/* Python wrapper */
static PyObject *__pyx_pw_5fwdpy_6matrix_5genotype_matrix(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/
static char __pyx_doc_5fwdpy_6matrix_4genotype_matrix[] = "\n    Generate a genotype matrix stored in a :class:`fwdpy.matrix.GenotypeMatrix`\n    \n    All arguments are identical to :func:`fwdpy.matrix.get_mutation_keys` with the exception of:\n\n    :param keys: (None) Pre-calculated mutation keys.  Must be a tuple of lists of positive integers. Exceptions will be raised if keys are invalid or out of range.\n\n    :rtype: :class:`fwdpy.matrix.GenotypeMatrix`\n    ";
static PyMethodDef __pyx_mdef_5fwdpy_6matrix_5genotype_matrix = {"genotype_matrix", (PyCFunction)__pyx_pw_5fwdpy_6matrix_5genotype_matrix, METH_VARARGS|METH_KEYWORDS, __pyx_doc_5fwdpy_6matrix_4genotype_matrix};
static PyObject *__pyx_pw_5fwdpy_6matrix_5genotype_matrix(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) {
  PyObject *__pyx_v_pop = 0;
  PyObject *__pyx_v_individuals = 0;
  PyObject *__pyx_v_include_neutral = 0;
  PyObject *__pyx_v_include_selected = 0;
  PyObject *__pyx_v_remove_fixed = 0;
  PyObject *__pyx_v_sort = 0;
  PyObject *__pyx_v_min_sample_daf = 0;
  PyObject *__pyx_v_min_pop_daf = 0;
  PyObject *__pyx_v_deme = 0;
  PyObject *__pyx_v_keys = 0;
  PyObject *__pyx_r = 0;
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("genotype_matrix (wrapper)", 0);
  {
    static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_pop,&__pyx_n_s_individuals,&__pyx_n_s_include_neutral,&__pyx_n_s_include_selected,&__pyx_n_s_remove_fixed,&__pyx_n_s_sort,&__pyx_n_s_min_sample_daf,&__pyx_n_s_min_pop_daf,&__pyx_n_s_deme,&__pyx_n_s_keys,0};
    PyObject* values[10] = {0,0,0,0,0,0,0,0,0,0};
    values[2] = ((PyObject *)Py_True);
    values[3] = ((PyObject *)Py_True);
    values[4] = ((PyObject *)Py_False);
    values[5] = ((PyObject *)Py_True);
    values[6] = ((PyObject *)Py_None);
    values[7] = ((PyObject *)Py_None);
    values[8] = ((PyObject *)Py_None);
    values[9] = ((PyObject *)Py_None);
    if (unlikely(__pyx_kwds)) {
      Py_ssize_t kw_args;
      const Py_ssize_t pos_args = PyTuple_GET_SIZE(__pyx_args);
      switch (pos_args) {
        case 10: values[9] = PyTuple_GET_ITEM(__pyx_args, 9);
        case  9: values[8] = PyTuple_GET_ITEM(__pyx_args, 8);
        case  8: values[7] = PyTuple_GET_ITEM(__pyx_args, 7);
        case  7: values[6] = PyTuple_GET_ITEM(__pyx_args, 6);
        case  6: values[5] = PyTuple_GET_ITEM(__pyx_args, 5);
        case  5: values[4] = PyTuple_GET_ITEM(__pyx_args, 4);
        case  4: values[3] = PyTuple_GET_ITEM(__pyx_args, 3);
        case  3: values[2] = PyTuple_GET_ITEM(__pyx_args, 2);
        case  2: values[1] = PyTuple_GET_ITEM(__pyx_args, 1);
        case  1: values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
        case  0: break;
        default: goto __pyx_L5_argtuple_error;
      }
      kw_args = PyDict_Size(__pyx_kwds);
      switch (pos_args) {
        case  0:
        if (likely((values[0] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_pop)) != 0)) kw_args--;
        else goto __pyx_L5_argtuple_error;
        case  1:
        if (likely((values[1] = PyDict_GetItem(__pyx_kwds, __pyx_n_s_individuals)) != 0)) kw_args--;
        else {
          __Pyx_RaiseArgtupleInvalid("genotype_matrix", 0, 2, 10, 1); __PYX_ERR(0, 237, __pyx_L3_error)
        }
        case  2:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_include_neutral);
          if (value) { values[2] = value; kw_args--; }
        }
        case  3:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_include_selected);
          if (value) { values[3] = value; kw_args--; }
        }
        case  4:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_remove_fixed);
          if (value) { values[4] = value; kw_args--; }
        }
        case  5:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_sort);
          if (value) { values[5] = value; kw_args--; }
        }
        case  6:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_min_sample_daf);
          if (value) { values[6] = value; kw_args--; }
        }
        case  7:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_min_pop_daf);
          if (value) { values[7] = value; kw_args--; }
        }
        case  8:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_deme);
          if (value) { values[8] = value; kw_args--; }
        }
        case  9:
        if (kw_args > 0) {
          PyObject* value = PyDict_GetItem(__pyx_kwds, __pyx_n_s_keys);
          if (value) { values[9] = value; kw_args--; }
        }
      }
      if (unlikely(kw_args > 0)) {
        if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "genotype_matrix") < 0)) __PYX_ERR(0, 237, __pyx_L3_error)
      }
    } else {
      switch (PyTuple_GET_SIZE(__pyx_args)) {
        case 10: values[9] = PyTuple_GET_ITEM(__pyx_args, 9);
        case  9: values[8] = PyTuple_GET_ITEM(__pyx_args, 8);
        case  8: values[7] = PyTuple_GET_ITEM(__pyx_args, 7);
        case  7: values[6] = PyTuple_GET_ITEM(__pyx_args, 6);
        case  6: values[5] = PyTuple_GET_ITEM(__pyx_args, 5);
        case  5: values[4] = PyTuple_GET_ITEM(__pyx_args, 4);
        case  4: values[3] = PyTuple_GET_ITEM(__pyx_args, 3);
        case  3: values[2] = PyTuple_GET_ITEM(__pyx_args, 2);
        case  2: values[1] = PyTuple_GET_ITEM(__pyx_args, 1);
        values[0] = PyTuple_GET_ITEM(__pyx_args, 0);
        break;
        default: goto __pyx_L5_argtuple_error;
      }
    }
    __pyx_v_pop = values[0];
    __pyx_v_individuals = ((PyObject*)values[1]);
    __pyx_v_include_neutral = values[2];
    __pyx_v_include_selected = values[3];
    __pyx_v_remove_fixed = values[4];
    __pyx_v_sort = values[5];
    __pyx_v_min_sample_daf = values[6];
    __pyx_v_min_pop_daf = values[7];
    __pyx_v_deme = values[8];
    __pyx_v_keys = values[9];
  }
  goto __pyx_L4_argument_unpacking_done;
  __pyx_L5_argtuple_error:;
  __Pyx_RaiseArgtupleInvalid("genotype_matrix", 0, 2, 10, PyTuple_GET_SIZE(__pyx_args)); __PYX_ERR(0, 237, __pyx_L3_error)
  __pyx_L3_error:;
  __Pyx_AddTraceback("fwdpy.matrix.genotype_matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __Pyx_RefNannyFinishContext();
  return NULL;
  __pyx_L4_argument_unpacking_done:;
  if (unlikely(!__Pyx_ArgTypeTest(((PyObject *)__pyx_v_individuals), (&PyList_Type), 1, "individuals", 1))) __PYX_ERR(0, 237, __pyx_L1_error)
  __pyx_r = __pyx_pf_5fwdpy_6matrix_4genotype_matrix(__pyx_self, __pyx_v_pop, __pyx_v_individuals, __pyx_v_include_neutral, __pyx_v_include_selected, __pyx_v_remove_fixed, __pyx_v_sort, __pyx_v_min_sample_daf, __pyx_v_min_pop_daf, __pyx_v_deme, __pyx_v_keys);

  /* function exit code */
  goto __pyx_L0;
  __pyx_L1_error:;
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_pf_5fwdpy_6matrix_4genotype_matrix(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_pop, PyObject *__pyx_v_individuals, PyObject *__pyx_v_include_neutral, PyObject *__pyx_v_include_selected, PyObject *__pyx_v_remove_fixed, PyObject *__pyx_v_sort, PyObject *__pyx_v_min_sample_daf, PyObject *__pyx_v_min_pop_daf, PyObject *__pyx_v_deme, PyObject *__pyx_v_keys) {
  PyObject *__pyx_v_deme_ = NULL;
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  int __pyx_t_1;
  int __pyx_t_2;
  PyObject *__pyx_t_3 = NULL;
  PyObject *__pyx_t_4 = NULL;
  PyObject *__pyx_t_5 = NULL;
  int __pyx_t_6;
  PyObject *__pyx_t_7 = NULL;
  std::vector<size_t>  __pyx_t_8;
  std::vector<std::pair<size_t,unsigned int> >  __pyx_t_9;
  std::vector<std::pair<size_t,unsigned int> >  __pyx_t_10;
  size_t __pyx_t_11;
  struct KTfwd::data_matrix __pyx_t_12;
  std::vector<size_t>  __pyx_t_13;
  std::vector<std::pair<size_t,unsigned int> >  __pyx_t_14;
  std::vector<std::pair<size_t,unsigned int> >  __pyx_t_15;
  std::vector<size_t>  __pyx_t_16;
  std::vector<std::pair<size_t,unsigned int> >  __pyx_t_17;
  std::vector<std::pair<size_t,unsigned int> >  __pyx_t_18;
  __Pyx_RefNannySetupContext("genotype_matrix", 0);
  __Pyx_INCREF(__pyx_v_keys);

  /* "fwdpy/matrix.pyx":247
 *     :rtype: :class:`fwdpy.matrix.GenotypeMatrix`
 *     """
 *     deme_=deme             # <<<<<<<<<<<<<<
 *     if deme is None:
 *         deme_=0
 */
  __Pyx_INCREF(__pyx_v_deme);
  __pyx_v_deme_ = __pyx_v_deme;

  /* "fwdpy/matrix.pyx":248
 *     """
 *     deme_=deme
 *     if deme is None:             # <<<<<<<<<<<<<<
 *         deme_=0
 *     if keys is None:
 */
  __pyx_t_1 = (__pyx_v_deme == Py_None);
  __pyx_t_2 = (__pyx_t_1 != 0);
  if (__pyx_t_2) {

    /* "fwdpy/matrix.pyx":249
 *     deme_=deme
 *     if deme is None:
 *         deme_=0             # <<<<<<<<<<<<<<
 *     if keys is None:
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)
 */
    __Pyx_INCREF(__pyx_int_0);
    __Pyx_DECREF_SET(__pyx_v_deme_, __pyx_int_0);

    /* "fwdpy/matrix.pyx":248
 *     """
 *     deme_=deme
 *     if deme is None:             # <<<<<<<<<<<<<<
 *         deme_=0
 *     if keys is None:
 */
  }

  /* "fwdpy/matrix.pyx":250
 *     if deme is None:
 *         deme_=0
 *     if keys is None:             # <<<<<<<<<<<<<<
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)
 *     if isinstance(pop,Spop):
 */
  __pyx_t_2 = (__pyx_v_keys == Py_None);
  __pyx_t_1 = (__pyx_t_2 != 0);
  if (__pyx_t_1) {

    /* "fwdpy/matrix.pyx":251
 *         deme_=0
 *     if keys is None:
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)             # <<<<<<<<<<<<<<
 *     if isinstance(pop,Spop):
 *         return GenotypeMatrix(fwdpp_genotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 */
    __pyx_t_4 = __Pyx_GetModuleGlobalName(__pyx_n_s_get_mutation_keys); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 251, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    __pyx_t_5 = NULL;
    __pyx_t_6 = 0;
    if (CYTHON_UNPACK_METHODS && unlikely(PyMethod_Check(__pyx_t_4))) {
      __pyx_t_5 = PyMethod_GET_SELF(__pyx_t_4);
      if (likely(__pyx_t_5)) {
        PyObject* function = PyMethod_GET_FUNCTION(__pyx_t_4);
        __Pyx_INCREF(__pyx_t_5);
        __Pyx_INCREF(function);
        __Pyx_DECREF_SET(__pyx_t_4, function);
        __pyx_t_6 = 1;
      }
    }
    #if CYTHON_FAST_PYCALL
    if (PyFunction_Check(__pyx_t_4)) {
      PyObject *__pyx_temp[10] = {__pyx_t_5, __pyx_v_pop, __pyx_v_individuals, __pyx_v_include_neutral, __pyx_v_include_selected, __pyx_v_remove_fixed, __pyx_v_sort, __pyx_v_min_sample_daf, __pyx_v_min_pop_daf, __pyx_v_deme};
      __pyx_t_3 = __Pyx_PyFunction_FastCall(__pyx_t_4, __pyx_temp+1-__pyx_t_6, 9+__pyx_t_6); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 251, __pyx_L1_error)
      __Pyx_XDECREF(__pyx_t_5); __pyx_t_5 = 0;
      __Pyx_GOTREF(__pyx_t_3);
    } else
    #endif
    #if CYTHON_FAST_PYCCALL
    if (__Pyx_PyFastCFunction_Check(__pyx_t_4)) {
      PyObject *__pyx_temp[10] = {__pyx_t_5, __pyx_v_pop, __pyx_v_individuals, __pyx_v_include_neutral, __pyx_v_include_selected, __pyx_v_remove_fixed, __pyx_v_sort, __pyx_v_min_sample_daf, __pyx_v_min_pop_daf, __pyx_v_deme};
      __pyx_t_3 = __Pyx_PyCFunction_FastCall(__pyx_t_4, __pyx_temp+1-__pyx_t_6, 9+__pyx_t_6); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 251, __pyx_L1_error)
      __Pyx_XDECREF(__pyx_t_5); __pyx_t_5 = 0;
      __Pyx_GOTREF(__pyx_t_3);
    } else
    #endif
    {
      __pyx_t_7 = PyTuple_New(9+__pyx_t_6); if (unlikely(!__pyx_t_7)) __PYX_ERR(0, 251, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_7);
      if (__pyx_t_5) {
        __Pyx_GIVEREF(__pyx_t_5); PyTuple_SET_ITEM(__pyx_t_7, 0, __pyx_t_5); __pyx_t_5 = NULL;
      }
      __Pyx_INCREF(__pyx_v_pop);
      __Pyx_GIVEREF(__pyx_v_pop);
      PyTuple_SET_ITEM(__pyx_t_7, 0+__pyx_t_6, __pyx_v_pop);
      __Pyx_INCREF(__pyx_v_individuals);
      __Pyx_GIVEREF(__pyx_v_individuals);
      PyTuple_SET_ITEM(__pyx_t_7, 1+__pyx_t_6, __pyx_v_individuals);
      __Pyx_INCREF(__pyx_v_include_neutral);
      __Pyx_GIVEREF(__pyx_v_include_neutral);
      PyTuple_SET_ITEM(__pyx_t_7, 2+__pyx_t_6, __pyx_v_include_neutral);
      __Pyx_INCREF(__pyx_v_include_selected);
      __Pyx_GIVEREF(__pyx_v_include_selected);
      PyTuple_SET_ITEM(__pyx_t_7, 3+__pyx_t_6, __pyx_v_include_selected);
      __Pyx_INCREF(__pyx_v_remove_fixed);
      __Pyx_GIVEREF(__pyx_v_remove_fixed);
      PyTuple_SET_ITEM(__pyx_t_7, 4+__pyx_t_6, __pyx_v_remove_fixed);
      __Pyx_INCREF(__pyx_v_sort);
      __Pyx_GIVEREF(__pyx_v_sort);
      PyTuple_SET_ITEM(__pyx_t_7, 5+__pyx_t_6, __pyx_v_sort);
      __Pyx_INCREF(__pyx_v_min_sample_daf);
      __Pyx_GIVEREF(__pyx_v_min_sample_daf);
      PyTuple_SET_ITEM(__pyx_t_7, 6+__pyx_t_6, __pyx_v_min_sample_daf);
      __Pyx_INCREF(__pyx_v_min_pop_daf);
      __Pyx_GIVEREF(__pyx_v_min_pop_daf);
      PyTuple_SET_ITEM(__pyx_t_7, 7+__pyx_t_6, __pyx_v_min_pop_daf);
      __Pyx_INCREF(__pyx_v_deme);
      __Pyx_GIVEREF(__pyx_v_deme);
      PyTuple_SET_ITEM(__pyx_t_7, 8+__pyx_t_6, __pyx_v_deme);
      __pyx_t_3 = __Pyx_PyObject_Call(__pyx_t_4, __pyx_t_7, NULL); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 251, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_3);
      __Pyx_DECREF(__pyx_t_7); __pyx_t_7 = 0;
    }
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
    __Pyx_DECREF_SET(__pyx_v_keys, __pyx_t_3);
    __pyx_t_3 = 0;

    /* "fwdpy/matrix.pyx":250
 *     if deme is None:
 *         deme_=0
 *     if keys is None:             # <<<<<<<<<<<<<<
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)
 *     if isinstance(pop,Spop):
 */
  }

  /* "fwdpy/matrix.pyx":252
 *     if keys is None:
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)
 *     if isinstance(pop,Spop):             # <<<<<<<<<<<<<<
 *         return GenotypeMatrix(fwdpp_genotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MlocusPop):
 */
  __pyx_t_1 = __Pyx_TypeCheck(__pyx_v_pop, __pyx_ptype_5fwdpy_5fwdpy_Spop); 
  __pyx_t_2 = (__pyx_t_1 != 0);
  if (__pyx_t_2) {

    /* "fwdpy/matrix.pyx":253
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)
 *     if isinstance(pop,Spop):
 *         return GenotypeMatrix(fwdpp_genotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))             # <<<<<<<<<<<<<<
 *     if isinstance(pop,MlocusPop):
 *         return GenotypeMatrix(fwdpp_genotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 */
    __Pyx_XDECREF(__pyx_r);
    __pyx_t_8 = __pyx_convert_vector_from_py_size_t(__pyx_v_individuals); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 253, __pyx_L1_error)
    __pyx_t_3 = __Pyx_GetItemInt(__pyx_v_keys, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 253, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_9 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_3); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 253, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __pyx_t_3 = __Pyx_GetItemInt(__pyx_v_keys, 1, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 253, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_10 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_3); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 253, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __pyx_t_11 = __Pyx_PyInt_As_size_t(__pyx_v_deme_); if (unlikely((__pyx_t_11 == (size_t)-1) && PyErr_Occurred())) __PYX_ERR(0, 253, __pyx_L1_error)
    try {
      __pyx_t_12 = KTfwd::genotype_matrix<fwdpy::singlepop_t>((*((struct __pyx_obj_5fwdpy_5fwdpy_Spop *)__pyx_v_pop)->pop.get()), __pyx_t_8, __pyx_t_9, __pyx_t_10, ((size_t)__pyx_t_11));
    } catch(...) {
      __Pyx_CppExn2PyErr();
      __PYX_ERR(0, 253, __pyx_L1_error)
    }
    __pyx_t_3 = __pyx_convert__to_py_struct__KTfwd_3a__3a_data_matrix(__pyx_t_12); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 253, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_4 = PyTuple_New(1); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 253, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    __Pyx_GIVEREF(__pyx_t_3);
    PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_t_3);
    __pyx_t_3 = 0;
    __pyx_t_3 = __Pyx_PyObject_Call(((PyObject *)__pyx_ptype_5fwdpy_6matrix_GenotypeMatrix), __pyx_t_4, NULL); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 253, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
    __pyx_r = __pyx_t_3;
    __pyx_t_3 = 0;
    goto __pyx_L0;

    /* "fwdpy/matrix.pyx":252
 *     if keys is None:
 *         keys = get_mutation_keys(pop,individuals,include_neutral,include_selected,remove_fixed,sort,min_sample_daf,min_pop_daf,deme)
 *     if isinstance(pop,Spop):             # <<<<<<<<<<<<<<
 *         return GenotypeMatrix(fwdpp_genotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MlocusPop):
 */
  }

  /* "fwdpy/matrix.pyx":254
 *     if isinstance(pop,Spop):
 *         return GenotypeMatrix(fwdpp_genotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MlocusPop):             # <<<<<<<<<<<<<<
 *         return GenotypeMatrix(fwdpp_genotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MetaPop):
 */
  __pyx_t_2 = __Pyx_TypeCheck(__pyx_v_pop, __pyx_ptype_5fwdpy_5fwdpy_MlocusPop); 
  __pyx_t_1 = (__pyx_t_2 != 0);
  if (__pyx_t_1) {

    /* "fwdpy/matrix.pyx":255
 *         return GenotypeMatrix(fwdpp_genotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MlocusPop):
 *         return GenotypeMatrix(fwdpp_genotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))             # <<<<<<<<<<<<<<
 *     if isinstance(pop,MetaPop):
 *         if deme is None:
 */
    __Pyx_XDECREF(__pyx_r);
    __pyx_t_13 = __pyx_convert_vector_from_py_size_t(__pyx_v_individuals); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 255, __pyx_L1_error)
    __pyx_t_3 = __Pyx_GetItemInt(__pyx_v_keys, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 255, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_14 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_3); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 255, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __pyx_t_3 = __Pyx_GetItemInt(__pyx_v_keys, 1, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 255, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_15 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_3); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 255, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __pyx_t_11 = __Pyx_PyInt_As_size_t(__pyx_v_deme_); if (unlikely((__pyx_t_11 == (size_t)-1) && PyErr_Occurred())) __PYX_ERR(0, 255, __pyx_L1_error)
    try {
      __pyx_t_12 = KTfwd::genotype_matrix<fwdpy::multilocus_t>((*((struct __pyx_obj_5fwdpy_5fwdpy_MlocusPop *)__pyx_v_pop)->pop.get()), __pyx_t_13, __pyx_t_14, __pyx_t_15, ((size_t)__pyx_t_11));
    } catch(...) {
      __Pyx_CppExn2PyErr();
      __PYX_ERR(0, 255, __pyx_L1_error)
    }
    __pyx_t_3 = __pyx_convert__to_py_struct__KTfwd_3a__3a_data_matrix(__pyx_t_12); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 255, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_4 = PyTuple_New(1); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 255, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    __Pyx_GIVEREF(__pyx_t_3);
    PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_t_3);
    __pyx_t_3 = 0;
    __pyx_t_3 = __Pyx_PyObject_Call(((PyObject *)__pyx_ptype_5fwdpy_6matrix_GenotypeMatrix), __pyx_t_4, NULL); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 255, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
    __pyx_r = __pyx_t_3;
    __pyx_t_3 = 0;
    goto __pyx_L0;

    /* "fwdpy/matrix.pyx":254
 *     if isinstance(pop,Spop):
 *         return GenotypeMatrix(fwdpp_genotype_matrix[singlepop_t](deref((<Spop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MlocusPop):             # <<<<<<<<<<<<<<
 *         return GenotypeMatrix(fwdpp_genotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MetaPop):
 */
  }

  /* "fwdpy/matrix.pyx":256
 *     if isinstance(pop,MlocusPop):
 *         return GenotypeMatrix(fwdpp_genotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MetaPop):             # <<<<<<<<<<<<<<
 *         if deme is None:
 *             raise RuntimeError("deme cannot be None")
 */
  __pyx_t_1 = __Pyx_TypeCheck(__pyx_v_pop, __pyx_ptype_5fwdpy_5fwdpy_MetaPop); 
  __pyx_t_2 = (__pyx_t_1 != 0);
  if (__pyx_t_2) {

    /* "fwdpy/matrix.pyx":257
 *         return GenotypeMatrix(fwdpp_genotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MetaPop):
 *         if deme is None:             # <<<<<<<<<<<<<<
 *             raise RuntimeError("deme cannot be None")
 *         return GenotypeMatrix(fwdpp_genotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 */
    __pyx_t_2 = (__pyx_v_deme == Py_None);
    __pyx_t_1 = (__pyx_t_2 != 0);
    if (__pyx_t_1) {

      /* "fwdpy/matrix.pyx":258
 *     if isinstance(pop,MetaPop):
 *         if deme is None:
 *             raise RuntimeError("deme cannot be None")             # <<<<<<<<<<<<<<
 *         return GenotypeMatrix(fwdpp_genotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     else:
 */
      __pyx_t_3 = __Pyx_PyObject_Call(__pyx_builtin_RuntimeError, __pyx_tuple__14, NULL); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 258, __pyx_L1_error)
      __Pyx_GOTREF(__pyx_t_3);
      __Pyx_Raise(__pyx_t_3, 0, 0, 0);
      __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
      __PYX_ERR(0, 258, __pyx_L1_error)

      /* "fwdpy/matrix.pyx":257
 *         return GenotypeMatrix(fwdpp_genotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MetaPop):
 *         if deme is None:             # <<<<<<<<<<<<<<
 *             raise RuntimeError("deme cannot be None")
 *         return GenotypeMatrix(fwdpp_genotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 */
    }

    /* "fwdpy/matrix.pyx":259
 *         if deme is None:
 *             raise RuntimeError("deme cannot be None")
 *         return GenotypeMatrix(fwdpp_genotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))             # <<<<<<<<<<<<<<
 *     else:
 *         raise NotImplementedError("population type not supported")
 */
    __Pyx_XDECREF(__pyx_r);
    __pyx_t_16 = __pyx_convert_vector_from_py_size_t(__pyx_v_individuals); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 259, __pyx_L1_error)
    __pyx_t_3 = __Pyx_GetItemInt(__pyx_v_keys, 0, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 259, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_17 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_3); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 259, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __pyx_t_3 = __Pyx_GetItemInt(__pyx_v_keys, 1, long, 1, __Pyx_PyInt_From_long, 0, 0, 1); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 259, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_18 = __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_t_3); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 259, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __pyx_t_11 = __Pyx_PyInt_As_size_t(__pyx_v_deme_); if (unlikely((__pyx_t_11 == (size_t)-1) && PyErr_Occurred())) __PYX_ERR(0, 259, __pyx_L1_error)
    try {
      __pyx_t_12 = KTfwd::genotype_matrix<fwdpy::metapop_t>((*((struct __pyx_obj_5fwdpy_5fwdpy_MetaPop *)__pyx_v_pop)->mpop.get()), __pyx_t_16, __pyx_t_17, __pyx_t_18, ((size_t)__pyx_t_11));
    } catch(...) {
      __Pyx_CppExn2PyErr();
      __PYX_ERR(0, 259, __pyx_L1_error)
    }
    __pyx_t_3 = __pyx_convert__to_py_struct__KTfwd_3a__3a_data_matrix(__pyx_t_12); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 259, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_4 = PyTuple_New(1); if (unlikely(!__pyx_t_4)) __PYX_ERR(0, 259, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    __Pyx_GIVEREF(__pyx_t_3);
    PyTuple_SET_ITEM(__pyx_t_4, 0, __pyx_t_3);
    __pyx_t_3 = 0;
    __pyx_t_3 = __Pyx_PyObject_Call(((PyObject *)__pyx_ptype_5fwdpy_6matrix_GenotypeMatrix), __pyx_t_4, NULL); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 259, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
    __pyx_r = __pyx_t_3;
    __pyx_t_3 = 0;
    goto __pyx_L0;

    /* "fwdpy/matrix.pyx":256
 *     if isinstance(pop,MlocusPop):
 *         return GenotypeMatrix(fwdpp_genotype_matrix[multilocus_t](deref((<MlocusPop>pop).pop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     if isinstance(pop,MetaPop):             # <<<<<<<<<<<<<<
 *         if deme is None:
 *             raise RuntimeError("deme cannot be None")
 */
  }

  /* "fwdpy/matrix.pyx":261
 *         return GenotypeMatrix(fwdpp_genotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     else:
 *         raise NotImplementedError("population type not supported")             # <<<<<<<<<<<<<<
 */
  /*else*/ {
    __pyx_t_3 = __Pyx_PyObject_Call(__pyx_builtin_NotImplementedError, __pyx_tuple__15, NULL); if (unlikely(!__pyx_t_3)) __PYX_ERR(0, 261, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __Pyx_Raise(__pyx_t_3, 0, 0, 0);
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __PYX_ERR(0, 261, __pyx_L1_error)
  }

  /* "fwdpy/matrix.pyx":237
 *         raise NotImplementedError("population type not supported")
 * 
 * def genotype_matrix(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None,keys=None):             # <<<<<<<<<<<<<<
 *     """
 *     Generate a genotype matrix stored in a :class:`fwdpy.matrix.GenotypeMatrix`
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_3);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_XDECREF(__pyx_t_5);
  __Pyx_XDECREF(__pyx_t_7);
  __Pyx_AddTraceback("fwdpy.matrix.genotype_matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = NULL;
  __pyx_L0:;
  __Pyx_XDECREF(__pyx_v_deme_);
  __Pyx_XDECREF(__pyx_v_keys);
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "fwdpy/fitness.pxd":58
 * 
 * #Helper functions for making custom fitness functions
 * cdef inline double return_w(double w) nogil:             # <<<<<<<<<<<<<<
 *     return max[double](0.0,w)
 * 
 */

static CYTHON_INLINE double __pyx_f_5fwdpy_7fitness_return_w(double __pyx_v_w) {
  double __pyx_r;

  /* "fwdpy/fitness.pxd":59
 * #Helper functions for making custom fitness functions
 * cdef inline double return_w(double w) nogil:
 *     return max[double](0.0,w)             # <<<<<<<<<<<<<<
 * 
 * cdef inline double return_w_plus1(double w) nogil:
 */
  __pyx_r = std::max<double>(0.0, __pyx_v_w);
  goto __pyx_L0;

  /* "fwdpy/fitness.pxd":58
 * 
 * #Helper functions for making custom fitness functions
 * cdef inline double return_w(double w) nogil:             # <<<<<<<<<<<<<<
 *     return max[double](0.0,w)
 * 
 */

  /* function exit code */
  __pyx_L0:;
  return __pyx_r;
}

/* "fwdpy/fitness.pxd":61
 *     return max[double](0.0,w)
 * 
 * cdef inline double return_w_plus1(double w) nogil:             # <<<<<<<<<<<<<<
 *     return max[double](0.0,1.0+w)
 * 
 */

static CYTHON_INLINE double __pyx_f_5fwdpy_7fitness_return_w_plus1(double __pyx_v_w) {
  double __pyx_r;

  /* "fwdpy/fitness.pxd":62
 * 
 * cdef inline double return_w_plus1(double w) nogil:
 *     return max[double](0.0,1.0+w)             # <<<<<<<<<<<<<<
 * 
 * cdef inline double return_trait_value(double w) nogil:
 */
  __pyx_r = std::max<double>(0.0, (1.0 + __pyx_v_w));
  goto __pyx_L0;

  /* "fwdpy/fitness.pxd":61
 *     return max[double](0.0,w)
 * 
 * cdef inline double return_w_plus1(double w) nogil:             # <<<<<<<<<<<<<<
 *     return max[double](0.0,1.0+w)
 * 
 */

  /* function exit code */
  __pyx_L0:;
  return __pyx_r;
}

/* "fwdpy/fitness.pxd":64
 *     return max[double](0.0,1.0+w)
 * 
 * cdef inline double return_trait_value(double w) nogil:             # <<<<<<<<<<<<<<
 *     return w
 * 
 */

static CYTHON_INLINE double __pyx_f_5fwdpy_7fitness_return_trait_value(double __pyx_v_w) {
  double __pyx_r;

  /* "fwdpy/fitness.pxd":65
 * 
 * cdef inline double return_trait_value(double w) nogil:
 *     return w             # <<<<<<<<<<<<<<
 * 
 * cdef inline double return_trait_value_minus1(double w) nogil:
 */
  __pyx_r = __pyx_v_w;
  goto __pyx_L0;

  /* "fwdpy/fitness.pxd":64
 *     return max[double](0.0,1.0+w)
 * 
 * cdef inline double return_trait_value(double w) nogil:             # <<<<<<<<<<<<<<
 *     return w
 * 
 */

  /* function exit code */
  __pyx_L0:;
  return __pyx_r;
}

/* "fwdpy/fitness.pxd":67
 *     return w
 * 
 * cdef inline double return_trait_value_minus1(double w) nogil:             # <<<<<<<<<<<<<<
 *     return w-1.0
 * 
 */

static CYTHON_INLINE double __pyx_f_5fwdpy_7fitness_return_trait_value_minus1(double __pyx_v_w) {
  double __pyx_r;

  /* "fwdpy/fitness.pxd":68
 * 
 * cdef inline double return_trait_value_minus1(double w) nogil:
 *     return w-1.0             # <<<<<<<<<<<<<<
 * 
 * cdef inline void het_additive_update(double & w, const popgenmut & m) nogil:
 */
  __pyx_r = (__pyx_v_w - 1.0);
  goto __pyx_L0;

  /* "fwdpy/fitness.pxd":67
 *     return w
 * 
 * cdef inline double return_trait_value_minus1(double w) nogil:             # <<<<<<<<<<<<<<
 *     return w-1.0
 * 
 */

  /* function exit code */
  __pyx_L0:;
  return __pyx_r;
}

/* "fwdpy/fitness.pxd":70
 *     return w-1.0
 * 
 * cdef inline void het_additive_update(double & w, const popgenmut & m) nogil:             # <<<<<<<<<<<<<<
 *     (&w)[0] += m.s*m.h
 * 
 */

static CYTHON_INLINE void __pyx_f_5fwdpy_7fitness_het_additive_update(double &__pyx_v_w, KTfwd::popgenmut const &__pyx_v_m) {
  double *__pyx_t_1;
  long __pyx_t_2;

  /* "fwdpy/fitness.pxd":71
 * 
 * cdef inline void het_additive_update(double & w, const popgenmut & m) nogil:
 *     (&w)[0] += m.s*m.h             # <<<<<<<<<<<<<<
 * 
 * cdef inline void hom_additive_update_2(double & w, const popgenmut & m) nogil:
 */
  __pyx_t_1 = (&__pyx_v_w);
  __pyx_t_2 = 0;
  (__pyx_t_1[__pyx_t_2]) = ((__pyx_t_1[__pyx_t_2]) + (__pyx_v_m.s * __pyx_v_m.h));

  /* "fwdpy/fitness.pxd":70
 *     return w-1.0
 * 
 * cdef inline void het_additive_update(double & w, const popgenmut & m) nogil:             # <<<<<<<<<<<<<<
 *     (&w)[0] += m.s*m.h
 * 
 */

  /* function exit code */
}

/* "fwdpy/fitness.pxd":73
 *     (&w)[0] += m.s*m.h
 * 
 * cdef inline void hom_additive_update_2(double & w, const popgenmut & m) nogil:             # <<<<<<<<<<<<<<
 *     (&w)[0] += 2.0*m.s
 * 
 */

static CYTHON_INLINE void __pyx_f_5fwdpy_7fitness_hom_additive_update_2(double &__pyx_v_w, KTfwd::popgenmut const &__pyx_v_m) {
  double *__pyx_t_1;
  long __pyx_t_2;

  /* "fwdpy/fitness.pxd":74
 * 
 * cdef inline void hom_additive_update_2(double & w, const popgenmut & m) nogil:
 *     (&w)[0] += 2.0*m.s             # <<<<<<<<<<<<<<
 * 
 * cdef inline void hom_additive_update_1(double & w, const popgenmut & m) nogil:
 */
  __pyx_t_1 = (&__pyx_v_w);
  __pyx_t_2 = 0;
  (__pyx_t_1[__pyx_t_2]) = ((__pyx_t_1[__pyx_t_2]) + (2.0 * __pyx_v_m.s));

  /* "fwdpy/fitness.pxd":73
 *     (&w)[0] += m.s*m.h
 * 
 * cdef inline void hom_additive_update_2(double & w, const popgenmut & m) nogil:             # <<<<<<<<<<<<<<
 *     (&w)[0] += 2.0*m.s
 * 
 */

  /* function exit code */
}

/* "fwdpy/fitness.pxd":76
 *     (&w)[0] += 2.0*m.s
 * 
 * cdef inline void hom_additive_update_1(double & w, const popgenmut & m) nogil:             # <<<<<<<<<<<<<<
 *     (&w)[0] += m.s
 * 
 */

static CYTHON_INLINE void __pyx_f_5fwdpy_7fitness_hom_additive_update_1(double &__pyx_v_w, KTfwd::popgenmut const &__pyx_v_m) {
  double *__pyx_t_1;
  long __pyx_t_2;

  /* "fwdpy/fitness.pxd":77
 * 
 * cdef inline void hom_additive_update_1(double & w, const popgenmut & m) nogil:
 *     (&w)[0] += m.s             # <<<<<<<<<<<<<<
 * 
 * cdef inline genotype_fitness_updater choose_additive_hom_updater(int scaling) nogil:
 */
  __pyx_t_1 = (&__pyx_v_w);
  __pyx_t_2 = 0;
  (__pyx_t_1[__pyx_t_2]) = ((__pyx_t_1[__pyx_t_2]) + __pyx_v_m.s);

  /* "fwdpy/fitness.pxd":76
 *     (&w)[0] += 2.0*m.s
 * 
 * cdef inline void hom_additive_update_1(double & w, const popgenmut & m) nogil:             # <<<<<<<<<<<<<<
 *     (&w)[0] += m.s
 * 
 */

  /* function exit code */
}

/* "fwdpy/fitness.pxd":79
 *     (&w)[0] += m.s
 * 
 * cdef inline genotype_fitness_updater choose_additive_hom_updater(int scaling) nogil:             # <<<<<<<<<<<<<<
 *     #Defaults to using a scaling of 2
 *     if scaling==1:
 */

static CYTHON_INLINE fwdpy::genotype_fitness_updater __pyx_f_5fwdpy_7fitness_choose_additive_hom_updater(int __pyx_v_scaling) {
  fwdpy::genotype_fitness_updater __pyx_r;
  int __pyx_t_1;

  /* "fwdpy/fitness.pxd":81
 * cdef inline genotype_fitness_updater choose_additive_hom_updater(int scaling) nogil:
 *     #Defaults to using a scaling of 2
 *     if scaling==1:             # <<<<<<<<<<<<<<
 *         return <genotype_fitness_updater>hom_additive_update_1
 *     return <genotype_fitness_updater>hom_additive_update_2
 */
  __pyx_t_1 = ((__pyx_v_scaling == 1) != 0);
  if (__pyx_t_1) {

    /* "fwdpy/fitness.pxd":82
 *     #Defaults to using a scaling of 2
 *     if scaling==1:
 *         return <genotype_fitness_updater>hom_additive_update_1             # <<<<<<<<<<<<<<
 *     return <genotype_fitness_updater>hom_additive_update_2
 * 
 */
    __pyx_r = ((fwdpy::genotype_fitness_updater)__pyx_f_5fwdpy_7fitness_hom_additive_update_1);
    goto __pyx_L0;

    /* "fwdpy/fitness.pxd":81
 * cdef inline genotype_fitness_updater choose_additive_hom_updater(int scaling) nogil:
 *     #Defaults to using a scaling of 2
 *     if scaling==1:             # <<<<<<<<<<<<<<
 *         return <genotype_fitness_updater>hom_additive_update_1
 *     return <genotype_fitness_updater>hom_additive_update_2
 */
  }

  /* "fwdpy/fitness.pxd":83
 *     if scaling==1:
 *         return <genotype_fitness_updater>hom_additive_update_1
 *     return <genotype_fitness_updater>hom_additive_update_2             # <<<<<<<<<<<<<<
 * 
 * cdef inline void het_mult_update(double & w, const popgenmut & m) nogil:
 */
  __pyx_r = ((fwdpy::genotype_fitness_updater)__pyx_f_5fwdpy_7fitness_hom_additive_update_2);
  goto __pyx_L0;

  /* "fwdpy/fitness.pxd":79
 *     (&w)[0] += m.s
 * 
 * cdef inline genotype_fitness_updater choose_additive_hom_updater(int scaling) nogil:             # <<<<<<<<<<<<<<
 *     #Defaults to using a scaling of 2
 *     if scaling==1:
 */

  /* function exit code */
  __pyx_L0:;
  return __pyx_r;
}

/* "fwdpy/fitness.pxd":85
 *     return <genotype_fitness_updater>hom_additive_update_2
 * 
 * cdef inline void het_mult_update(double & w, const popgenmut & m) nogil:             # <<<<<<<<<<<<<<
 *     (&w)[0] *= (1.0+m.s*m.h)
 * 
 */

static CYTHON_INLINE void __pyx_f_5fwdpy_7fitness_het_mult_update(double &__pyx_v_w, KTfwd::popgenmut const &__pyx_v_m) {
  double *__pyx_t_1;
  long __pyx_t_2;

  /* "fwdpy/fitness.pxd":86
 * 
 * cdef inline void het_mult_update(double & w, const popgenmut & m) nogil:
 *     (&w)[0] *= (1.0+m.s*m.h)             # <<<<<<<<<<<<<<
 * 
 * cdef inline void hom_mult_update_2(double & w, const popgenmut & m) nogil:
 */
  __pyx_t_1 = (&__pyx_v_w);
  __pyx_t_2 = 0;
  (__pyx_t_1[__pyx_t_2]) = ((__pyx_t_1[__pyx_t_2]) * (1.0 + (__pyx_v_m.s * __pyx_v_m.h)));

  /* "fwdpy/fitness.pxd":85
 *     return <genotype_fitness_updater>hom_additive_update_2
 * 
 * cdef inline void het_mult_update(double & w, const popgenmut & m) nogil:             # <<<<<<<<<<<<<<
 *     (&w)[0] *= (1.0+m.s*m.h)
 * 
 */

  /* function exit code */
}

/* "fwdpy/fitness.pxd":88
 *     (&w)[0] *= (1.0+m.s*m.h)
 * 
 * cdef inline void hom_mult_update_2(double & w, const popgenmut & m) nogil:             # <<<<<<<<<<<<<<
 *     (&w)[0] *= (1.0+2.0*m.s)
 * 
 */

static CYTHON_INLINE void __pyx_f_5fwdpy_7fitness_hom_mult_update_2(double &__pyx_v_w, KTfwd::popgenmut const &__pyx_v_m) {
  double *__pyx_t_1;
  long __pyx_t_2;

  /* "fwdpy/fitness.pxd":89
 * 
 * cdef inline void hom_mult_update_2(double & w, const popgenmut & m) nogil:
 *     (&w)[0] *= (1.0+2.0*m.s)             # <<<<<<<<<<<<<<
 * 
 * cdef inline void hom_mult_update_1(double & w, const popgenmut & m) nogil:
 */
  __pyx_t_1 = (&__pyx_v_w);
  __pyx_t_2 = 0;
  (__pyx_t_1[__pyx_t_2]) = ((__pyx_t_1[__pyx_t_2]) * (1.0 + (2.0 * __pyx_v_m.s)));

  /* "fwdpy/fitness.pxd":88
 *     (&w)[0] *= (1.0+m.s*m.h)
 * 
 * cdef inline void hom_mult_update_2(double & w, const popgenmut & m) nogil:             # <<<<<<<<<<<<<<
 *     (&w)[0] *= (1.0+2.0*m.s)
 * 
 */

  /* function exit code */
}

/* "fwdpy/fitness.pxd":91
 *     (&w)[0] *= (1.0+2.0*m.s)
 * 
 * cdef inline void hom_mult_update_1(double & w, const popgenmut & m) nogil:             # <<<<<<<<<<<<<<
 *     (&w)[0] *= (1.0+m.s)
 * 
 */

static CYTHON_INLINE void __pyx_f_5fwdpy_7fitness_hom_mult_update_1(double &__pyx_v_w, KTfwd::popgenmut const &__pyx_v_m) {
  double *__pyx_t_1;
  long __pyx_t_2;

  /* "fwdpy/fitness.pxd":92
 * 
 * cdef inline void hom_mult_update_1(double & w, const popgenmut & m) nogil:
 *     (&w)[0] *= (1.0+m.s)             # <<<<<<<<<<<<<<
 * 
 * cdef inline genotype_fitness_updater choose_mult_hom_updater(int scaling) nogil:
 */
  __pyx_t_1 = (&__pyx_v_w);
  __pyx_t_2 = 0;
  (__pyx_t_1[__pyx_t_2]) = ((__pyx_t_1[__pyx_t_2]) * (1.0 + __pyx_v_m.s));

  /* "fwdpy/fitness.pxd":91
 *     (&w)[0] *= (1.0+2.0*m.s)
 * 
 * cdef inline void hom_mult_update_1(double & w, const popgenmut & m) nogil:             # <<<<<<<<<<<<<<
 *     (&w)[0] *= (1.0+m.s)
 * 
 */

  /* function exit code */
}

/* "fwdpy/fitness.pxd":94
 *     (&w)[0] *= (1.0+m.s)
 * 
 * cdef inline genotype_fitness_updater choose_mult_hom_updater(int scaling) nogil:             # <<<<<<<<<<<<<<
 *     #Defaults to using a scaling of 2
 *     if scaling==1:
 */

static CYTHON_INLINE fwdpy::genotype_fitness_updater __pyx_f_5fwdpy_7fitness_choose_mult_hom_updater(int __pyx_v_scaling) {
  fwdpy::genotype_fitness_updater __pyx_r;
  int __pyx_t_1;

  /* "fwdpy/fitness.pxd":96
 * cdef inline genotype_fitness_updater choose_mult_hom_updater(int scaling) nogil:
 *     #Defaults to using a scaling of 2
 *     if scaling==1:             # <<<<<<<<<<<<<<
 *         return <genotype_fitness_updater>hom_additive_update_1
 *     return <genotype_fitness_updater>hom_additive_update_2
 */
  __pyx_t_1 = ((__pyx_v_scaling == 1) != 0);
  if (__pyx_t_1) {

    /* "fwdpy/fitness.pxd":97
 *     #Defaults to using a scaling of 2
 *     if scaling==1:
 *         return <genotype_fitness_updater>hom_additive_update_1             # <<<<<<<<<<<<<<
 *     return <genotype_fitness_updater>hom_additive_update_2
 * 
 */
    __pyx_r = ((fwdpy::genotype_fitness_updater)__pyx_f_5fwdpy_7fitness_hom_additive_update_1);
    goto __pyx_L0;

    /* "fwdpy/fitness.pxd":96
 * cdef inline genotype_fitness_updater choose_mult_hom_updater(int scaling) nogil:
 *     #Defaults to using a scaling of 2
 *     if scaling==1:             # <<<<<<<<<<<<<<
 *         return <genotype_fitness_updater>hom_additive_update_1
 *     return <genotype_fitness_updater>hom_additive_update_2
 */
  }

  /* "fwdpy/fitness.pxd":98
 *     if scaling==1:
 *         return <genotype_fitness_updater>hom_additive_update_1
 *     return <genotype_fitness_updater>hom_additive_update_2             # <<<<<<<<<<<<<<
 * 
 * cdef inline double sum_haplotype_effects(const gamete_t & g, const mcont_t & m) nogil:
 */
  __pyx_r = ((fwdpy::genotype_fitness_updater)__pyx_f_5fwdpy_7fitness_hom_additive_update_2);
  goto __pyx_L0;

  /* "fwdpy/fitness.pxd":94
 *     (&w)[0] *= (1.0+m.s)
 * 
 * cdef inline genotype_fitness_updater choose_mult_hom_updater(int scaling) nogil:             # <<<<<<<<<<<<<<
 *     #Defaults to using a scaling of 2
 *     if scaling==1:
 */

  /* function exit code */
  __pyx_L0:;
  return __pyx_r;
}

/* "fwdpy/fitness.pxd":100
 *     return <genotype_fitness_updater>hom_additive_update_2
 * 
 * cdef inline double sum_haplotype_effects(const gamete_t & g, const mcont_t & m) nogil:             # <<<<<<<<<<<<<<
 *     cdef size_t i=0,n=g.smutations.size()
 *     cdef double rv = 0.0
 */

static CYTHON_INLINE double __pyx_f_5fwdpy_7fitness_sum_haplotype_effects(__pyx_t_5fwdpy_7fitness_gamete_t const &__pyx_v_g, __pyx_t_5fwdpy_7fitness_mcont_t const &__pyx_v_m) {
  size_t __pyx_v_i;
  size_t __pyx_v_n;
  double __pyx_v_rv;
  double __pyx_r;
  int __pyx_t_1;

  /* "fwdpy/fitness.pxd":101
 * 
 * cdef inline double sum_haplotype_effects(const gamete_t & g, const mcont_t & m) nogil:
 *     cdef size_t i=0,n=g.smutations.size()             # <<<<<<<<<<<<<<
 *     cdef double rv = 0.0
 *     while i<n:
 */
  __pyx_v_i = 0;
  __pyx_v_n = __pyx_v_g.smutations.size();

  /* "fwdpy/fitness.pxd":102
 * cdef inline double sum_haplotype_effects(const gamete_t & g, const mcont_t & m) nogil:
 *     cdef size_t i=0,n=g.smutations.size()
 *     cdef double rv = 0.0             # <<<<<<<<<<<<<<
 *     while i<n:
 *         rv+=m[g.smutations[i]].s
 */
  __pyx_v_rv = 0.0;

  /* "fwdpy/fitness.pxd":103
 *     cdef size_t i=0,n=g.smutations.size()
 *     cdef double rv = 0.0
 *     while i<n:             # <<<<<<<<<<<<<<
 *         rv+=m[g.smutations[i]].s
 *         i+=1
 */
  while (1) {
    __pyx_t_1 = ((__pyx_v_i < __pyx_v_n) != 0);
    if (!__pyx_t_1) break;

    /* "fwdpy/fitness.pxd":104
 *     cdef double rv = 0.0
 *     while i<n:
 *         rv+=m[g.smutations[i]].s             # <<<<<<<<<<<<<<
 *         i+=1
 *     return rv
 */
    __pyx_v_rv = (__pyx_v_rv + (__pyx_v_m[(__pyx_v_g.smutations[__pyx_v_i])]).s);

    /* "fwdpy/fitness.pxd":105
 *     while i<n:
 *         rv+=m[g.smutations[i]].s
 *         i+=1             # <<<<<<<<<<<<<<
 *     return rv
 * 
 */
    __pyx_v_i = (__pyx_v_i + 1);
  }

  /* "fwdpy/fitness.pxd":106
 *         rv+=m[g.smutations[i]].s
 *         i+=1
 *     return rv             # <<<<<<<<<<<<<<
 * 
 * cdef class SpopFitness(object):
 */
  __pyx_r = __pyx_v_rv;
  goto __pyx_L0;

  /* "fwdpy/fitness.pxd":100
 *     return <genotype_fitness_updater>hom_additive_update_2
 * 
 * cdef inline double sum_haplotype_effects(const gamete_t & g, const mcont_t & m) nogil:             # <<<<<<<<<<<<<<
 *     cdef size_t i=0,n=g.smutations.size()
 *     cdef double rv = 0.0
 */

  /* function exit code */
  __pyx_L0:;
  return __pyx_r;
}

/* "vector.from_py":49
 * 
 * @cname("__pyx_convert_vector_from_py_char")
 * cdef vector[X] __pyx_convert_vector_from_py_char(object o) except *:             # <<<<<<<<<<<<<<
 *     cdef vector[X] v
 *     for item in o:
 */

static std::vector<char>  __pyx_convert_vector_from_py_char(PyObject *__pyx_v_o) {
  std::vector<char>  __pyx_v_v;
  PyObject *__pyx_v_item = NULL;
  std::vector<char>  __pyx_r;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  Py_ssize_t __pyx_t_2;
  PyObject *(*__pyx_t_3)(PyObject *);
  PyObject *__pyx_t_4 = NULL;
  char __pyx_t_5;
  __Pyx_RefNannySetupContext("__pyx_convert_vector_from_py_char", 0);

  /* "vector.from_py":51
 * cdef vector[X] __pyx_convert_vector_from_py_char(object o) except *:
 *     cdef vector[X] v
 *     for item in o:             # <<<<<<<<<<<<<<
 *         v.push_back(X_from_py(item))
 *     return v
 */
  if (likely(PyList_CheckExact(__pyx_v_o)) || PyTuple_CheckExact(__pyx_v_o)) {
    __pyx_t_1 = __pyx_v_o; __Pyx_INCREF(__pyx_t_1); __pyx_t_2 = 0;
    __pyx_t_3 = NULL;
  } else {
    __pyx_t_2 = -1; __pyx_t_1 = PyObject_GetIter(__pyx_v_o); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 51, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __pyx_t_3 = Py_TYPE(__pyx_t_1)->tp_iternext; if (unlikely(!__pyx_t_3)) __PYX_ERR(2, 51, __pyx_L1_error)
  }
  for (;;) {
    if (likely(!__pyx_t_3)) {
      if (likely(PyList_CheckExact(__pyx_t_1))) {
        if (__pyx_t_2 >= PyList_GET_SIZE(__pyx_t_1)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_4 = PyList_GET_ITEM(__pyx_t_1, __pyx_t_2); __Pyx_INCREF(__pyx_t_4); __pyx_t_2++; if (unlikely(0 < 0)) __PYX_ERR(2, 51, __pyx_L1_error)
        #else
        __pyx_t_4 = PySequence_ITEM(__pyx_t_1, __pyx_t_2); __pyx_t_2++; if (unlikely(!__pyx_t_4)) __PYX_ERR(2, 51, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_4);
        #endif
      } else {
        if (__pyx_t_2 >= PyTuple_GET_SIZE(__pyx_t_1)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_4 = PyTuple_GET_ITEM(__pyx_t_1, __pyx_t_2); __Pyx_INCREF(__pyx_t_4); __pyx_t_2++; if (unlikely(0 < 0)) __PYX_ERR(2, 51, __pyx_L1_error)
        #else
        __pyx_t_4 = PySequence_ITEM(__pyx_t_1, __pyx_t_2); __pyx_t_2++; if (unlikely(!__pyx_t_4)) __PYX_ERR(2, 51, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_4);
        #endif
      }
    } else {
      __pyx_t_4 = __pyx_t_3(__pyx_t_1);
      if (unlikely(!__pyx_t_4)) {
        PyObject* exc_type = PyErr_Occurred();
        if (exc_type) {
          if (likely(exc_type == PyExc_StopIteration || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration))) PyErr_Clear();
          else __PYX_ERR(2, 51, __pyx_L1_error)
        }
        break;
      }
      __Pyx_GOTREF(__pyx_t_4);
    }
    __Pyx_XDECREF_SET(__pyx_v_item, __pyx_t_4);
    __pyx_t_4 = 0;

    /* "vector.from_py":52
 *     cdef vector[X] v
 *     for item in o:
 *         v.push_back(X_from_py(item))             # <<<<<<<<<<<<<<
 *     return v
 * 
 */
    __pyx_t_5 = __Pyx_PyInt_As_char(__pyx_v_item); if (unlikely(__pyx_t_5 == -1 && PyErr_Occurred())) __PYX_ERR(2, 52, __pyx_L1_error)
    __pyx_v_v.push_back(__pyx_t_5);

    /* "vector.from_py":51
 * cdef vector[X] __pyx_convert_vector_from_py_char(object o) except *:
 *     cdef vector[X] v
 *     for item in o:             # <<<<<<<<<<<<<<
 *         v.push_back(X_from_py(item))
 *     return v
 */
  }
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

  /* "vector.from_py":53
 *     for item in o:
 *         v.push_back(X_from_py(item))
 *     return v             # <<<<<<<<<<<<<<
 * 
 * 
 */
  __pyx_r = __pyx_v_v;
  goto __pyx_L0;

  /* "vector.from_py":49
 * 
 * @cname("__pyx_convert_vector_from_py_char")
 * cdef vector[X] __pyx_convert_vector_from_py_char(object o) except *:             # <<<<<<<<<<<<<<
 *     cdef vector[X] v
 *     for item in o:
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_AddTraceback("vector.from_py.__pyx_convert_vector_from_py_char", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_L0:;
  __Pyx_XDECREF(__pyx_v_item);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static std::vector<double>  __pyx_convert_vector_from_py_double(PyObject *__pyx_v_o) {
  std::vector<double>  __pyx_v_v;
  PyObject *__pyx_v_item = NULL;
  std::vector<double>  __pyx_r;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  Py_ssize_t __pyx_t_2;
  PyObject *(*__pyx_t_3)(PyObject *);
  PyObject *__pyx_t_4 = NULL;
  double __pyx_t_5;
  __Pyx_RefNannySetupContext("__pyx_convert_vector_from_py_double", 0);

  /* "vector.from_py":51
 * cdef vector[X] __pyx_convert_vector_from_py_double(object o) except *:
 *     cdef vector[X] v
 *     for item in o:             # <<<<<<<<<<<<<<
 *         v.push_back(X_from_py(item))
 *     return v
 */
  if (likely(PyList_CheckExact(__pyx_v_o)) || PyTuple_CheckExact(__pyx_v_o)) {
    __pyx_t_1 = __pyx_v_o; __Pyx_INCREF(__pyx_t_1); __pyx_t_2 = 0;
    __pyx_t_3 = NULL;
  } else {
    __pyx_t_2 = -1; __pyx_t_1 = PyObject_GetIter(__pyx_v_o); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 51, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __pyx_t_3 = Py_TYPE(__pyx_t_1)->tp_iternext; if (unlikely(!__pyx_t_3)) __PYX_ERR(2, 51, __pyx_L1_error)
  }
  for (;;) {
    if (likely(!__pyx_t_3)) {
      if (likely(PyList_CheckExact(__pyx_t_1))) {
        if (__pyx_t_2 >= PyList_GET_SIZE(__pyx_t_1)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_4 = PyList_GET_ITEM(__pyx_t_1, __pyx_t_2); __Pyx_INCREF(__pyx_t_4); __pyx_t_2++; if (unlikely(0 < 0)) __PYX_ERR(2, 51, __pyx_L1_error)
        #else
        __pyx_t_4 = PySequence_ITEM(__pyx_t_1, __pyx_t_2); __pyx_t_2++; if (unlikely(!__pyx_t_4)) __PYX_ERR(2, 51, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_4);
        #endif
      } else {
        if (__pyx_t_2 >= PyTuple_GET_SIZE(__pyx_t_1)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_4 = PyTuple_GET_ITEM(__pyx_t_1, __pyx_t_2); __Pyx_INCREF(__pyx_t_4); __pyx_t_2++; if (unlikely(0 < 0)) __PYX_ERR(2, 51, __pyx_L1_error)
        #else
        __pyx_t_4 = PySequence_ITEM(__pyx_t_1, __pyx_t_2); __pyx_t_2++; if (unlikely(!__pyx_t_4)) __PYX_ERR(2, 51, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_4);
        #endif
      }
    } else {
      __pyx_t_4 = __pyx_t_3(__pyx_t_1);
      if (unlikely(!__pyx_t_4)) {
        PyObject* exc_type = PyErr_Occurred();
        if (exc_type) {
          if (likely(exc_type == PyExc_StopIteration || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration))) PyErr_Clear();
          else __PYX_ERR(2, 51, __pyx_L1_error)
        }
        break;
      }
      __Pyx_GOTREF(__pyx_t_4);
    }
    __Pyx_XDECREF_SET(__pyx_v_item, __pyx_t_4);
    __pyx_t_4 = 0;

    /* "vector.from_py":52
 *     cdef vector[X] v
 *     for item in o:
 *         v.push_back(X_from_py(item))             # <<<<<<<<<<<<<<
 *     return v
 * 
 */
    __pyx_t_5 = __pyx_PyFloat_AsDouble(__pyx_v_item); if (unlikely(__pyx_t_5 == -1.0 && PyErr_Occurred())) __PYX_ERR(2, 52, __pyx_L1_error)
    __pyx_v_v.push_back(__pyx_t_5);

    /* "vector.from_py":51
 * cdef vector[X] __pyx_convert_vector_from_py_double(object o) except *:
 *     cdef vector[X] v
 *     for item in o:             # <<<<<<<<<<<<<<
 *         v.push_back(X_from_py(item))
 *     return v
 */
  }
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

  /* "vector.from_py":53
 *     for item in o:
 *         v.push_back(X_from_py(item))
 *     return v             # <<<<<<<<<<<<<<
 * 
 * 
 */
  __pyx_r = __pyx_v_v;
  goto __pyx_L0;

  /* "vector.from_py":49
 * 
 * @cname("__pyx_convert_vector_from_py_double")
 * cdef vector[X] __pyx_convert_vector_from_py_double(object o) except *:             # <<<<<<<<<<<<<<
 *     cdef vector[X] v
 *     for item in o:
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_AddTraceback("vector.from_py.__pyx_convert_vector_from_py_double", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_L0:;
  __Pyx_XDECREF(__pyx_v_item);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "FromPyStructUtility":11
 * 
 * @cname("__pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix")
 * cdef data_matrix __pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix(obj) except *:             # <<<<<<<<<<<<<<
 *     cdef data_matrix result
 *     if not PyMapping_Check(obj):
 */

static struct KTfwd::data_matrix __pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix(PyObject *__pyx_v_obj) {
  struct KTfwd::data_matrix __pyx_v_result;
  PyObject *__pyx_v_value = NULL;
  struct KTfwd::data_matrix __pyx_r;
  __Pyx_RefNannyDeclarations
  int __pyx_t_1;
  PyObject *__pyx_t_2 = NULL;
  PyObject *__pyx_t_3 = NULL;
  PyObject *__pyx_t_4 = NULL;
  PyObject *__pyx_t_5 = NULL;
  int __pyx_t_6;
  PyObject *__pyx_t_7 = NULL;
  PyObject *__pyx_t_8 = NULL;
  PyObject *__pyx_t_9 = NULL;
  std::vector<char>  __pyx_t_10;
  std::vector<double>  __pyx_t_11;
  size_t __pyx_t_12;
  __Pyx_RefNannySetupContext("__pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix", 0);

  /* "FromPyStructUtility":13
 * cdef data_matrix __pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix(obj) except *:
 *     cdef data_matrix result
 *     if not PyMapping_Check(obj):             # <<<<<<<<<<<<<<
 *         PyErr_Format(TypeError, b"Expected %.16s, got %.200s", b"a mapping", Py_TYPE(obj).tp_name)
 * 
 */
  __pyx_t_1 = ((!(PyMapping_Check(__pyx_v_obj) != 0)) != 0);
  if (__pyx_t_1) {

    /* "FromPyStructUtility":14
 *     cdef data_matrix result
 *     if not PyMapping_Check(obj):
 *         PyErr_Format(TypeError, b"Expected %.16s, got %.200s", b"a mapping", Py_TYPE(obj).tp_name)             # <<<<<<<<<<<<<<
 * 
 *     try:
 */
    __pyx_t_2 = PyErr_Format(__pyx_builtin_TypeError, ((char const *)"Expected %.16s, got %.200s"), ((char *)"a mapping"), Py_TYPE(__pyx_v_obj)->tp_name); if (unlikely(!__pyx_t_2)) __PYX_ERR(2, 14, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_2);
    __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;

    /* "FromPyStructUtility":13
 * cdef data_matrix __pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix(obj) except *:
 *     cdef data_matrix result
 *     if not PyMapping_Check(obj):             # <<<<<<<<<<<<<<
 *         PyErr_Format(TypeError, b"Expected %.16s, got %.200s", b"a mapping", Py_TYPE(obj).tp_name)
 * 
 */
  }

  /* "FromPyStructUtility":16
 *         PyErr_Format(TypeError, b"Expected %.16s, got %.200s", b"a mapping", Py_TYPE(obj).tp_name)
 * 
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['neutral']
 *     except KeyError:
 */
  {
    __Pyx_PyThreadState_declare
    __Pyx_PyThreadState_assign
    __Pyx_ExceptionSave(&__pyx_t_3, &__pyx_t_4, &__pyx_t_5);
    __Pyx_XGOTREF(__pyx_t_3);
    __Pyx_XGOTREF(__pyx_t_4);
    __Pyx_XGOTREF(__pyx_t_5);
    /*try:*/ {

      /* "FromPyStructUtility":17
 * 
 *     try:
 *         value = obj['neutral']             # <<<<<<<<<<<<<<
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'neutral'")
 */
      __pyx_t_2 = PyObject_GetItem(__pyx_v_obj, __pyx_n_s_neutral); if (unlikely(!__pyx_t_2)) __PYX_ERR(2, 17, __pyx_L4_error)
      __Pyx_GOTREF(__pyx_t_2);
      __pyx_v_value = __pyx_t_2;
      __pyx_t_2 = 0;

      /* "FromPyStructUtility":16
 *         PyErr_Format(TypeError, b"Expected %.16s, got %.200s", b"a mapping", Py_TYPE(obj).tp_name)
 * 
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['neutral']
 *     except KeyError:
 */
    }
    __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
    __Pyx_XDECREF(__pyx_t_4); __pyx_t_4 = 0;
    __Pyx_XDECREF(__pyx_t_5); __pyx_t_5 = 0;
    goto __pyx_L11_try_end;
    __pyx_L4_error:;
    __Pyx_PyThreadState_assign
    __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;

    /* "FromPyStructUtility":18
 *     try:
 *         value = obj['neutral']
 *     except KeyError:             # <<<<<<<<<<<<<<
 *         raise ValueError("No value specified for struct attribute 'neutral'")
 *     result.neutral = value
 */
    __pyx_t_6 = __Pyx_PyErr_ExceptionMatches(__pyx_builtin_KeyError);
    if (__pyx_t_6) {
      __Pyx_AddTraceback("FromPyStructUtility.__pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
      if (__Pyx_GetException(&__pyx_t_2, &__pyx_t_7, &__pyx_t_8) < 0) __PYX_ERR(2, 18, __pyx_L6_except_error)
      __Pyx_GOTREF(__pyx_t_2);
      __Pyx_GOTREF(__pyx_t_7);
      __Pyx_GOTREF(__pyx_t_8);

      /* "FromPyStructUtility":19
 *         value = obj['neutral']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'neutral'")             # <<<<<<<<<<<<<<
 *     result.neutral = value
 *     try:
 */
      __pyx_t_9 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__16, NULL); if (unlikely(!__pyx_t_9)) __PYX_ERR(2, 19, __pyx_L6_except_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_Raise(__pyx_t_9, 0, 0, 0);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __PYX_ERR(2, 19, __pyx_L6_except_error)
    }
    goto __pyx_L6_except_error;
    __pyx_L6_except_error:;

    /* "FromPyStructUtility":16
 *         PyErr_Format(TypeError, b"Expected %.16s, got %.200s", b"a mapping", Py_TYPE(obj).tp_name)
 * 
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['neutral']
 *     except KeyError:
 */
    __Pyx_PyThreadState_assign
    __Pyx_XGIVEREF(__pyx_t_3);
    __Pyx_XGIVEREF(__pyx_t_4);
    __Pyx_XGIVEREF(__pyx_t_5);
    __Pyx_ExceptionReset(__pyx_t_3, __pyx_t_4, __pyx_t_5);
    goto __pyx_L1_error;
    __pyx_L11_try_end:;
  }

  /* "FromPyStructUtility":20
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'neutral'")
 *     result.neutral = value             # <<<<<<<<<<<<<<
 *     try:
 *         value = obj['selected']
 */
  __pyx_t_10 = __pyx_convert_vector_from_py_char(__pyx_v_value); if (unlikely(PyErr_Occurred())) __PYX_ERR(2, 20, __pyx_L1_error)
  __pyx_v_result.neutral = __pyx_t_10;

  /* "FromPyStructUtility":21
 *         raise ValueError("No value specified for struct attribute 'neutral'")
 *     result.neutral = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['selected']
 *     except KeyError:
 */
  {
    __Pyx_PyThreadState_declare
    __Pyx_PyThreadState_assign
    __Pyx_ExceptionSave(&__pyx_t_5, &__pyx_t_4, &__pyx_t_3);
    __Pyx_XGOTREF(__pyx_t_5);
    __Pyx_XGOTREF(__pyx_t_4);
    __Pyx_XGOTREF(__pyx_t_3);
    /*try:*/ {

      /* "FromPyStructUtility":22
 *     result.neutral = value
 *     try:
 *         value = obj['selected']             # <<<<<<<<<<<<<<
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'selected'")
 */
      __pyx_t_8 = PyObject_GetItem(__pyx_v_obj, __pyx_n_s_selected); if (unlikely(!__pyx_t_8)) __PYX_ERR(2, 22, __pyx_L14_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF_SET(__pyx_v_value, __pyx_t_8);
      __pyx_t_8 = 0;

      /* "FromPyStructUtility":21
 *         raise ValueError("No value specified for struct attribute 'neutral'")
 *     result.neutral = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['selected']
 *     except KeyError:
 */
    }
    __Pyx_XDECREF(__pyx_t_5); __pyx_t_5 = 0;
    __Pyx_XDECREF(__pyx_t_4); __pyx_t_4 = 0;
    __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
    goto __pyx_L21_try_end;
    __pyx_L14_error:;
    __Pyx_PyThreadState_assign
    __Pyx_XDECREF(__pyx_t_9); __pyx_t_9 = 0;
    __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;
    __Pyx_XDECREF(__pyx_t_7); __pyx_t_7 = 0;
    __Pyx_XDECREF(__pyx_t_8); __pyx_t_8 = 0;

    /* "FromPyStructUtility":23
 *     try:
 *         value = obj['selected']
 *     except KeyError:             # <<<<<<<<<<<<<<
 *         raise ValueError("No value specified for struct attribute 'selected'")
 *     result.selected = value
 */
    __pyx_t_6 = __Pyx_PyErr_ExceptionMatches(__pyx_builtin_KeyError);
    if (__pyx_t_6) {
      __Pyx_AddTraceback("FromPyStructUtility.__pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
      if (__Pyx_GetException(&__pyx_t_8, &__pyx_t_7, &__pyx_t_2) < 0) __PYX_ERR(2, 23, __pyx_L16_except_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_GOTREF(__pyx_t_7);
      __Pyx_GOTREF(__pyx_t_2);

      /* "FromPyStructUtility":24
 *         value = obj['selected']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'selected'")             # <<<<<<<<<<<<<<
 *     result.selected = value
 *     try:
 */
      __pyx_t_9 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__17, NULL); if (unlikely(!__pyx_t_9)) __PYX_ERR(2, 24, __pyx_L16_except_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_Raise(__pyx_t_9, 0, 0, 0);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __PYX_ERR(2, 24, __pyx_L16_except_error)
    }
    goto __pyx_L16_except_error;
    __pyx_L16_except_error:;

    /* "FromPyStructUtility":21
 *         raise ValueError("No value specified for struct attribute 'neutral'")
 *     result.neutral = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['selected']
 *     except KeyError:
 */
    __Pyx_PyThreadState_assign
    __Pyx_XGIVEREF(__pyx_t_5);
    __Pyx_XGIVEREF(__pyx_t_4);
    __Pyx_XGIVEREF(__pyx_t_3);
    __Pyx_ExceptionReset(__pyx_t_5, __pyx_t_4, __pyx_t_3);
    goto __pyx_L1_error;
    __pyx_L21_try_end:;
  }

  /* "FromPyStructUtility":25
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'selected'")
 *     result.selected = value             # <<<<<<<<<<<<<<
 *     try:
 *         value = obj['neutral_positions']
 */
  __pyx_t_10 = __pyx_convert_vector_from_py_char(__pyx_v_value); if (unlikely(PyErr_Occurred())) __PYX_ERR(2, 25, __pyx_L1_error)
  __pyx_v_result.selected = __pyx_t_10;

  /* "FromPyStructUtility":26
 *         raise ValueError("No value specified for struct attribute 'selected'")
 *     result.selected = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['neutral_positions']
 *     except KeyError:
 */
  {
    __Pyx_PyThreadState_declare
    __Pyx_PyThreadState_assign
    __Pyx_ExceptionSave(&__pyx_t_3, &__pyx_t_4, &__pyx_t_5);
    __Pyx_XGOTREF(__pyx_t_3);
    __Pyx_XGOTREF(__pyx_t_4);
    __Pyx_XGOTREF(__pyx_t_5);
    /*try:*/ {

      /* "FromPyStructUtility":27
 *     result.selected = value
 *     try:
 *         value = obj['neutral_positions']             # <<<<<<<<<<<<<<
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'neutral_positions'")
 */
      __pyx_t_2 = PyObject_GetItem(__pyx_v_obj, __pyx_n_s_neutral_positions); if (unlikely(!__pyx_t_2)) __PYX_ERR(2, 27, __pyx_L24_error)
      __Pyx_GOTREF(__pyx_t_2);
      __Pyx_DECREF_SET(__pyx_v_value, __pyx_t_2);
      __pyx_t_2 = 0;

      /* "FromPyStructUtility":26
 *         raise ValueError("No value specified for struct attribute 'selected'")
 *     result.selected = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['neutral_positions']
 *     except KeyError:
 */
    }
    __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
    __Pyx_XDECREF(__pyx_t_4); __pyx_t_4 = 0;
    __Pyx_XDECREF(__pyx_t_5); __pyx_t_5 = 0;
    goto __pyx_L31_try_end;
    __pyx_L24_error:;
    __Pyx_PyThreadState_assign
    __Pyx_XDECREF(__pyx_t_9); __pyx_t_9 = 0;
    __Pyx_XDECREF(__pyx_t_8); __pyx_t_8 = 0;
    __Pyx_XDECREF(__pyx_t_7); __pyx_t_7 = 0;
    __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;

    /* "FromPyStructUtility":28
 *     try:
 *         value = obj['neutral_positions']
 *     except KeyError:             # <<<<<<<<<<<<<<
 *         raise ValueError("No value specified for struct attribute 'neutral_positions'")
 *     result.neutral_positions = value
 */
    __pyx_t_6 = __Pyx_PyErr_ExceptionMatches(__pyx_builtin_KeyError);
    if (__pyx_t_6) {
      __Pyx_AddTraceback("FromPyStructUtility.__pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
      if (__Pyx_GetException(&__pyx_t_2, &__pyx_t_7, &__pyx_t_8) < 0) __PYX_ERR(2, 28, __pyx_L26_except_error)
      __Pyx_GOTREF(__pyx_t_2);
      __Pyx_GOTREF(__pyx_t_7);
      __Pyx_GOTREF(__pyx_t_8);

      /* "FromPyStructUtility":29
 *         value = obj['neutral_positions']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'neutral_positions'")             # <<<<<<<<<<<<<<
 *     result.neutral_positions = value
 *     try:
 */
      __pyx_t_9 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__18, NULL); if (unlikely(!__pyx_t_9)) __PYX_ERR(2, 29, __pyx_L26_except_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_Raise(__pyx_t_9, 0, 0, 0);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __PYX_ERR(2, 29, __pyx_L26_except_error)
    }
    goto __pyx_L26_except_error;
    __pyx_L26_except_error:;

    /* "FromPyStructUtility":26
 *         raise ValueError("No value specified for struct attribute 'selected'")
 *     result.selected = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['neutral_positions']
 *     except KeyError:
 */
    __Pyx_PyThreadState_assign
    __Pyx_XGIVEREF(__pyx_t_3);
    __Pyx_XGIVEREF(__pyx_t_4);
    __Pyx_XGIVEREF(__pyx_t_5);
    __Pyx_ExceptionReset(__pyx_t_3, __pyx_t_4, __pyx_t_5);
    goto __pyx_L1_error;
    __pyx_L31_try_end:;
  }

  /* "FromPyStructUtility":30
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'neutral_positions'")
 *     result.neutral_positions = value             # <<<<<<<<<<<<<<
 *     try:
 *         value = obj['selected_positions']
 */
  __pyx_t_11 = __pyx_convert_vector_from_py_double(__pyx_v_value); if (unlikely(PyErr_Occurred())) __PYX_ERR(2, 30, __pyx_L1_error)
  __pyx_v_result.neutral_positions = __pyx_t_11;

  /* "FromPyStructUtility":31
 *         raise ValueError("No value specified for struct attribute 'neutral_positions'")
 *     result.neutral_positions = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['selected_positions']
 *     except KeyError:
 */
  {
    __Pyx_PyThreadState_declare
    __Pyx_PyThreadState_assign
    __Pyx_ExceptionSave(&__pyx_t_5, &__pyx_t_4, &__pyx_t_3);
    __Pyx_XGOTREF(__pyx_t_5);
    __Pyx_XGOTREF(__pyx_t_4);
    __Pyx_XGOTREF(__pyx_t_3);
    /*try:*/ {

      /* "FromPyStructUtility":32
 *     result.neutral_positions = value
 *     try:
 *         value = obj['selected_positions']             # <<<<<<<<<<<<<<
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'selected_positions'")
 */
      __pyx_t_8 = PyObject_GetItem(__pyx_v_obj, __pyx_n_s_selected_positions); if (unlikely(!__pyx_t_8)) __PYX_ERR(2, 32, __pyx_L34_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF_SET(__pyx_v_value, __pyx_t_8);
      __pyx_t_8 = 0;

      /* "FromPyStructUtility":31
 *         raise ValueError("No value specified for struct attribute 'neutral_positions'")
 *     result.neutral_positions = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['selected_positions']
 *     except KeyError:
 */
    }
    __Pyx_XDECREF(__pyx_t_5); __pyx_t_5 = 0;
    __Pyx_XDECREF(__pyx_t_4); __pyx_t_4 = 0;
    __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
    goto __pyx_L41_try_end;
    __pyx_L34_error:;
    __Pyx_PyThreadState_assign
    __Pyx_XDECREF(__pyx_t_9); __pyx_t_9 = 0;
    __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;
    __Pyx_XDECREF(__pyx_t_7); __pyx_t_7 = 0;
    __Pyx_XDECREF(__pyx_t_8); __pyx_t_8 = 0;

    /* "FromPyStructUtility":33
 *     try:
 *         value = obj['selected_positions']
 *     except KeyError:             # <<<<<<<<<<<<<<
 *         raise ValueError("No value specified for struct attribute 'selected_positions'")
 *     result.selected_positions = value
 */
    __pyx_t_6 = __Pyx_PyErr_ExceptionMatches(__pyx_builtin_KeyError);
    if (__pyx_t_6) {
      __Pyx_AddTraceback("FromPyStructUtility.__pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
      if (__Pyx_GetException(&__pyx_t_8, &__pyx_t_7, &__pyx_t_2) < 0) __PYX_ERR(2, 33, __pyx_L36_except_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_GOTREF(__pyx_t_7);
      __Pyx_GOTREF(__pyx_t_2);

      /* "FromPyStructUtility":34
 *         value = obj['selected_positions']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'selected_positions'")             # <<<<<<<<<<<<<<
 *     result.selected_positions = value
 *     try:
 */
      __pyx_t_9 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__19, NULL); if (unlikely(!__pyx_t_9)) __PYX_ERR(2, 34, __pyx_L36_except_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_Raise(__pyx_t_9, 0, 0, 0);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __PYX_ERR(2, 34, __pyx_L36_except_error)
    }
    goto __pyx_L36_except_error;
    __pyx_L36_except_error:;

    /* "FromPyStructUtility":31
 *         raise ValueError("No value specified for struct attribute 'neutral_positions'")
 *     result.neutral_positions = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['selected_positions']
 *     except KeyError:
 */
    __Pyx_PyThreadState_assign
    __Pyx_XGIVEREF(__pyx_t_5);
    __Pyx_XGIVEREF(__pyx_t_4);
    __Pyx_XGIVEREF(__pyx_t_3);
    __Pyx_ExceptionReset(__pyx_t_5, __pyx_t_4, __pyx_t_3);
    goto __pyx_L1_error;
    __pyx_L41_try_end:;
  }

  /* "FromPyStructUtility":35
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'selected_positions'")
 *     result.selected_positions = value             # <<<<<<<<<<<<<<
 *     try:
 *         value = obj['neutral_popfreq']
 */
  __pyx_t_11 = __pyx_convert_vector_from_py_double(__pyx_v_value); if (unlikely(PyErr_Occurred())) __PYX_ERR(2, 35, __pyx_L1_error)
  __pyx_v_result.selected_positions = __pyx_t_11;

  /* "FromPyStructUtility":36
 *         raise ValueError("No value specified for struct attribute 'selected_positions'")
 *     result.selected_positions = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['neutral_popfreq']
 *     except KeyError:
 */
  {
    __Pyx_PyThreadState_declare
    __Pyx_PyThreadState_assign
    __Pyx_ExceptionSave(&__pyx_t_3, &__pyx_t_4, &__pyx_t_5);
    __Pyx_XGOTREF(__pyx_t_3);
    __Pyx_XGOTREF(__pyx_t_4);
    __Pyx_XGOTREF(__pyx_t_5);
    /*try:*/ {

      /* "FromPyStructUtility":37
 *     result.selected_positions = value
 *     try:
 *         value = obj['neutral_popfreq']             # <<<<<<<<<<<<<<
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'neutral_popfreq'")
 */
      __pyx_t_2 = PyObject_GetItem(__pyx_v_obj, __pyx_n_s_neutral_popfreq); if (unlikely(!__pyx_t_2)) __PYX_ERR(2, 37, __pyx_L44_error)
      __Pyx_GOTREF(__pyx_t_2);
      __Pyx_DECREF_SET(__pyx_v_value, __pyx_t_2);
      __pyx_t_2 = 0;

      /* "FromPyStructUtility":36
 *         raise ValueError("No value specified for struct attribute 'selected_positions'")
 *     result.selected_positions = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['neutral_popfreq']
 *     except KeyError:
 */
    }
    __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
    __Pyx_XDECREF(__pyx_t_4); __pyx_t_4 = 0;
    __Pyx_XDECREF(__pyx_t_5); __pyx_t_5 = 0;
    goto __pyx_L51_try_end;
    __pyx_L44_error:;
    __Pyx_PyThreadState_assign
    __Pyx_XDECREF(__pyx_t_9); __pyx_t_9 = 0;
    __Pyx_XDECREF(__pyx_t_8); __pyx_t_8 = 0;
    __Pyx_XDECREF(__pyx_t_7); __pyx_t_7 = 0;
    __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;

    /* "FromPyStructUtility":38
 *     try:
 *         value = obj['neutral_popfreq']
 *     except KeyError:             # <<<<<<<<<<<<<<
 *         raise ValueError("No value specified for struct attribute 'neutral_popfreq'")
 *     result.neutral_popfreq = value
 */
    __pyx_t_6 = __Pyx_PyErr_ExceptionMatches(__pyx_builtin_KeyError);
    if (__pyx_t_6) {
      __Pyx_AddTraceback("FromPyStructUtility.__pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
      if (__Pyx_GetException(&__pyx_t_2, &__pyx_t_7, &__pyx_t_8) < 0) __PYX_ERR(2, 38, __pyx_L46_except_error)
      __Pyx_GOTREF(__pyx_t_2);
      __Pyx_GOTREF(__pyx_t_7);
      __Pyx_GOTREF(__pyx_t_8);

      /* "FromPyStructUtility":39
 *         value = obj['neutral_popfreq']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'neutral_popfreq'")             # <<<<<<<<<<<<<<
 *     result.neutral_popfreq = value
 *     try:
 */
      __pyx_t_9 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__20, NULL); if (unlikely(!__pyx_t_9)) __PYX_ERR(2, 39, __pyx_L46_except_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_Raise(__pyx_t_9, 0, 0, 0);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __PYX_ERR(2, 39, __pyx_L46_except_error)
    }
    goto __pyx_L46_except_error;
    __pyx_L46_except_error:;

    /* "FromPyStructUtility":36
 *         raise ValueError("No value specified for struct attribute 'selected_positions'")
 *     result.selected_positions = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['neutral_popfreq']
 *     except KeyError:
 */
    __Pyx_PyThreadState_assign
    __Pyx_XGIVEREF(__pyx_t_3);
    __Pyx_XGIVEREF(__pyx_t_4);
    __Pyx_XGIVEREF(__pyx_t_5);
    __Pyx_ExceptionReset(__pyx_t_3, __pyx_t_4, __pyx_t_5);
    goto __pyx_L1_error;
    __pyx_L51_try_end:;
  }

  /* "FromPyStructUtility":40
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'neutral_popfreq'")
 *     result.neutral_popfreq = value             # <<<<<<<<<<<<<<
 *     try:
 *         value = obj['selected_popfreq']
 */
  __pyx_t_11 = __pyx_convert_vector_from_py_double(__pyx_v_value); if (unlikely(PyErr_Occurred())) __PYX_ERR(2, 40, __pyx_L1_error)
  __pyx_v_result.neutral_popfreq = __pyx_t_11;

  /* "FromPyStructUtility":41
 *         raise ValueError("No value specified for struct attribute 'neutral_popfreq'")
 *     result.neutral_popfreq = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['selected_popfreq']
 *     except KeyError:
 */
  {
    __Pyx_PyThreadState_declare
    __Pyx_PyThreadState_assign
    __Pyx_ExceptionSave(&__pyx_t_5, &__pyx_t_4, &__pyx_t_3);
    __Pyx_XGOTREF(__pyx_t_5);
    __Pyx_XGOTREF(__pyx_t_4);
    __Pyx_XGOTREF(__pyx_t_3);
    /*try:*/ {

      /* "FromPyStructUtility":42
 *     result.neutral_popfreq = value
 *     try:
 *         value = obj['selected_popfreq']             # <<<<<<<<<<<<<<
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'selected_popfreq'")
 */
      __pyx_t_8 = PyObject_GetItem(__pyx_v_obj, __pyx_n_s_selected_popfreq); if (unlikely(!__pyx_t_8)) __PYX_ERR(2, 42, __pyx_L54_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_DECREF_SET(__pyx_v_value, __pyx_t_8);
      __pyx_t_8 = 0;

      /* "FromPyStructUtility":41
 *         raise ValueError("No value specified for struct attribute 'neutral_popfreq'")
 *     result.neutral_popfreq = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['selected_popfreq']
 *     except KeyError:
 */
    }
    __Pyx_XDECREF(__pyx_t_5); __pyx_t_5 = 0;
    __Pyx_XDECREF(__pyx_t_4); __pyx_t_4 = 0;
    __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
    goto __pyx_L61_try_end;
    __pyx_L54_error:;
    __Pyx_PyThreadState_assign
    __Pyx_XDECREF(__pyx_t_9); __pyx_t_9 = 0;
    __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;
    __Pyx_XDECREF(__pyx_t_7); __pyx_t_7 = 0;
    __Pyx_XDECREF(__pyx_t_8); __pyx_t_8 = 0;

    /* "FromPyStructUtility":43
 *     try:
 *         value = obj['selected_popfreq']
 *     except KeyError:             # <<<<<<<<<<<<<<
 *         raise ValueError("No value specified for struct attribute 'selected_popfreq'")
 *     result.selected_popfreq = value
 */
    __pyx_t_6 = __Pyx_PyErr_ExceptionMatches(__pyx_builtin_KeyError);
    if (__pyx_t_6) {
      __Pyx_AddTraceback("FromPyStructUtility.__pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
      if (__Pyx_GetException(&__pyx_t_8, &__pyx_t_7, &__pyx_t_2) < 0) __PYX_ERR(2, 43, __pyx_L56_except_error)
      __Pyx_GOTREF(__pyx_t_8);
      __Pyx_GOTREF(__pyx_t_7);
      __Pyx_GOTREF(__pyx_t_2);

      /* "FromPyStructUtility":44
 *         value = obj['selected_popfreq']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'selected_popfreq'")             # <<<<<<<<<<<<<<
 *     result.selected_popfreq = value
 *     try:
 */
      __pyx_t_9 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__21, NULL); if (unlikely(!__pyx_t_9)) __PYX_ERR(2, 44, __pyx_L56_except_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_Raise(__pyx_t_9, 0, 0, 0);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __PYX_ERR(2, 44, __pyx_L56_except_error)
    }
    goto __pyx_L56_except_error;
    __pyx_L56_except_error:;

    /* "FromPyStructUtility":41
 *         raise ValueError("No value specified for struct attribute 'neutral_popfreq'")
 *     result.neutral_popfreq = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['selected_popfreq']
 *     except KeyError:
 */
    __Pyx_PyThreadState_assign
    __Pyx_XGIVEREF(__pyx_t_5);
    __Pyx_XGIVEREF(__pyx_t_4);
    __Pyx_XGIVEREF(__pyx_t_3);
    __Pyx_ExceptionReset(__pyx_t_5, __pyx_t_4, __pyx_t_3);
    goto __pyx_L1_error;
    __pyx_L61_try_end:;
  }

  /* "FromPyStructUtility":45
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'selected_popfreq'")
 *     result.selected_popfreq = value             # <<<<<<<<<<<<<<
 *     try:
 *         value = obj['nrow']
 */
  __pyx_t_11 = __pyx_convert_vector_from_py_double(__pyx_v_value); if (unlikely(PyErr_Occurred())) __PYX_ERR(2, 45, __pyx_L1_error)
  __pyx_v_result.selected_popfreq = __pyx_t_11;

  /* "FromPyStructUtility":46
 *         raise ValueError("No value specified for struct attribute 'selected_popfreq'")
 *     result.selected_popfreq = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['nrow']
 *     except KeyError:
 */
  {
    __Pyx_PyThreadState_declare
    __Pyx_PyThreadState_assign
    __Pyx_ExceptionSave(&__pyx_t_3, &__pyx_t_4, &__pyx_t_5);
    __Pyx_XGOTREF(__pyx_t_3);
    __Pyx_XGOTREF(__pyx_t_4);
    __Pyx_XGOTREF(__pyx_t_5);
    /*try:*/ {

      /* "FromPyStructUtility":47
 *     result.selected_popfreq = value
 *     try:
 *         value = obj['nrow']             # <<<<<<<<<<<<<<
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'nrow'")
 */
      __pyx_t_2 = PyObject_GetItem(__pyx_v_obj, __pyx_n_s_nrow); if (unlikely(!__pyx_t_2)) __PYX_ERR(2, 47, __pyx_L64_error)
      __Pyx_GOTREF(__pyx_t_2);
      __Pyx_DECREF_SET(__pyx_v_value, __pyx_t_2);
      __pyx_t_2 = 0;

      /* "FromPyStructUtility":46
 *         raise ValueError("No value specified for struct attribute 'selected_popfreq'")
 *     result.selected_popfreq = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['nrow']
 *     except KeyError:
 */
    }
    __Pyx_XDECREF(__pyx_t_3); __pyx_t_3 = 0;
    __Pyx_XDECREF(__pyx_t_4); __pyx_t_4 = 0;
    __Pyx_XDECREF(__pyx_t_5); __pyx_t_5 = 0;
    goto __pyx_L71_try_end;
    __pyx_L64_error:;
    __Pyx_PyThreadState_assign
    __Pyx_XDECREF(__pyx_t_9); __pyx_t_9 = 0;
    __Pyx_XDECREF(__pyx_t_8); __pyx_t_8 = 0;
    __Pyx_XDECREF(__pyx_t_7); __pyx_t_7 = 0;
    __Pyx_XDECREF(__pyx_t_2); __pyx_t_2 = 0;

    /* "FromPyStructUtility":48
 *     try:
 *         value = obj['nrow']
 *     except KeyError:             # <<<<<<<<<<<<<<
 *         raise ValueError("No value specified for struct attribute 'nrow'")
 *     result.nrow = value
 */
    __pyx_t_6 = __Pyx_PyErr_ExceptionMatches(__pyx_builtin_KeyError);
    if (__pyx_t_6) {
      __Pyx_AddTraceback("FromPyStructUtility.__pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
      if (__Pyx_GetException(&__pyx_t_2, &__pyx_t_7, &__pyx_t_8) < 0) __PYX_ERR(2, 48, __pyx_L66_except_error)
      __Pyx_GOTREF(__pyx_t_2);
      __Pyx_GOTREF(__pyx_t_7);
      __Pyx_GOTREF(__pyx_t_8);

      /* "FromPyStructUtility":49
 *         value = obj['nrow']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'nrow'")             # <<<<<<<<<<<<<<
 *     result.nrow = value
 *     return result
 */
      __pyx_t_9 = __Pyx_PyObject_Call(__pyx_builtin_ValueError, __pyx_tuple__22, NULL); if (unlikely(!__pyx_t_9)) __PYX_ERR(2, 49, __pyx_L66_except_error)
      __Pyx_GOTREF(__pyx_t_9);
      __Pyx_Raise(__pyx_t_9, 0, 0, 0);
      __Pyx_DECREF(__pyx_t_9); __pyx_t_9 = 0;
      __PYX_ERR(2, 49, __pyx_L66_except_error)
    }
    goto __pyx_L66_except_error;
    __pyx_L66_except_error:;

    /* "FromPyStructUtility":46
 *         raise ValueError("No value specified for struct attribute 'selected_popfreq'")
 *     result.selected_popfreq = value
 *     try:             # <<<<<<<<<<<<<<
 *         value = obj['nrow']
 *     except KeyError:
 */
    __Pyx_PyThreadState_assign
    __Pyx_XGIVEREF(__pyx_t_3);
    __Pyx_XGIVEREF(__pyx_t_4);
    __Pyx_XGIVEREF(__pyx_t_5);
    __Pyx_ExceptionReset(__pyx_t_3, __pyx_t_4, __pyx_t_5);
    goto __pyx_L1_error;
    __pyx_L71_try_end:;
  }

  /* "FromPyStructUtility":50
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'nrow'")
 *     result.nrow = value             # <<<<<<<<<<<<<<
 *     return result
 * 
 */
  __pyx_t_12 = __Pyx_PyInt_As_size_t(__pyx_v_value); if (unlikely((__pyx_t_12 == (size_t)-1) && PyErr_Occurred())) __PYX_ERR(2, 50, __pyx_L1_error)
  __pyx_v_result.nrow = __pyx_t_12;

  /* "FromPyStructUtility":51
 *         raise ValueError("No value specified for struct attribute 'nrow'")
 *     result.nrow = value
 *     return result             # <<<<<<<<<<<<<<
 * 
 * 
 */
  __pyx_r = __pyx_v_result;
  goto __pyx_L0;

  /* "FromPyStructUtility":11
 * 
 * @cname("__pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix")
 * cdef data_matrix __pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix(obj) except *:             # <<<<<<<<<<<<<<
 *     cdef data_matrix result
 *     if not PyMapping_Check(obj):
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_2);
  __Pyx_XDECREF(__pyx_t_7);
  __Pyx_XDECREF(__pyx_t_8);
  __Pyx_XDECREF(__pyx_t_9);
  __Pyx_AddTraceback("FromPyStructUtility.__pyx_convert__from_py_struct__KTfwd_3a__3a_data_matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_L0:;
  __Pyx_XDECREF(__pyx_v_value);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "pair.to_py":180
 * 
 * @cname("__pyx_convert_pair_to_py_size_t____unsigned_int")
 * cdef object __pyx_convert_pair_to_py_size_t____unsigned_int(const pair[X,Y]& p):             # <<<<<<<<<<<<<<
 *     return X_to_py(p.first), Y_to_py(p.second)
 * 
 */

static PyObject *__pyx_convert_pair_to_py_size_t____unsigned_int(std::pair<size_t,unsigned int>  const &__pyx_v_p) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  PyObject *__pyx_t_2 = NULL;
  PyObject *__pyx_t_3 = NULL;
  __Pyx_RefNannySetupContext("__pyx_convert_pair_to_py_size_t____unsigned_int", 0);

  /* "pair.to_py":181
 * @cname("__pyx_convert_pair_to_py_size_t____unsigned_int")
 * cdef object __pyx_convert_pair_to_py_size_t____unsigned_int(const pair[X,Y]& p):
 *     return X_to_py(p.first), Y_to_py(p.second)             # <<<<<<<<<<<<<<
 * 
 * 
 */
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_1 = __Pyx_PyInt_FromSize_t(__pyx_v_p.first); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 181, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_t_2 = __Pyx_PyInt_From_unsigned_int(__pyx_v_p.second); if (unlikely(!__pyx_t_2)) __PYX_ERR(2, 181, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __pyx_t_3 = PyTuple_New(2); if (unlikely(!__pyx_t_3)) __PYX_ERR(2, 181, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __Pyx_GIVEREF(__pyx_t_1);
  PyTuple_SET_ITEM(__pyx_t_3, 0, __pyx_t_1);
  __Pyx_GIVEREF(__pyx_t_2);
  PyTuple_SET_ITEM(__pyx_t_3, 1, __pyx_t_2);
  __pyx_t_1 = 0;
  __pyx_t_2 = 0;
  __pyx_r = __pyx_t_3;
  __pyx_t_3 = 0;
  goto __pyx_L0;

  /* "pair.to_py":180
 * 
 * @cname("__pyx_convert_pair_to_py_size_t____unsigned_int")
 * cdef object __pyx_convert_pair_to_py_size_t____unsigned_int(const pair[X,Y]& p):             # <<<<<<<<<<<<<<
 *     return X_to_py(p.first), Y_to_py(p.second)
 * 
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_2);
  __Pyx_XDECREF(__pyx_t_3);
  __Pyx_AddTraceback("pair.to_py.__pyx_convert_pair_to_py_size_t____unsigned_int", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = 0;
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "vector.to_py":67
 * 
 * @cname("__pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___")
 * cdef object __pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(vector[X]& v):             # <<<<<<<<<<<<<<
 *     return [X_to_py(v[i]) for i in range(v.size())]
 * 
 */

static PyObject *__pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(const std::vector<std::pair<size_t,unsigned int> >  &__pyx_v_v) {
  size_t __pyx_v_i;
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  size_t __pyx_t_2;
  size_t __pyx_t_3;
  PyObject *__pyx_t_4 = NULL;
  __Pyx_RefNannySetupContext("__pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___", 0);

  /* "vector.to_py":68
 * @cname("__pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___")
 * cdef object __pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(vector[X]& v):
 *     return [X_to_py(v[i]) for i in range(v.size())]             # <<<<<<<<<<<<<<
 * 
 * 
 */
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_1 = PyList_New(0); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 68, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_t_2 = __pyx_v_v.size();
  for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) {
    __pyx_v_i = __pyx_t_3;
    __pyx_t_4 = __pyx_convert_pair_to_py_size_t____unsigned_int((__pyx_v_v[__pyx_v_i])); if (unlikely(!__pyx_t_4)) __PYX_ERR(2, 68, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    if (unlikely(__Pyx_ListComp_Append(__pyx_t_1, (PyObject*)__pyx_t_4))) __PYX_ERR(2, 68, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
  }
  __pyx_r = __pyx_t_1;
  __pyx_t_1 = 0;
  goto __pyx_L0;

  /* "vector.to_py":67
 * 
 * @cname("__pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___")
 * cdef object __pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(vector[X]& v):             # <<<<<<<<<<<<<<
 *     return [X_to_py(v[i]) for i in range(v.size())]
 * 
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_AddTraceback("vector.to_py.__pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = 0;
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "pair.from_py":163
 * 
 * @cname("__pyx_convert_pair_from_py_size_t__and_unsigned_int")
 * cdef pair[X,Y] __pyx_convert_pair_from_py_size_t__and_unsigned_int(object o) except *:             # <<<<<<<<<<<<<<
 *     x, y = o
 *     return pair[X,Y](X_from_py(x), Y_from_py(y))
 */

static std::pair<size_t,unsigned int>  __pyx_convert_pair_from_py_size_t__and_unsigned_int(PyObject *__pyx_v_o) {
  PyObject *__pyx_v_x = NULL;
  PyObject *__pyx_v_y = NULL;
  std::pair<size_t,unsigned int>  __pyx_r;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  PyObject *__pyx_t_2 = NULL;
  PyObject *__pyx_t_3 = NULL;
  PyObject *(*__pyx_t_4)(PyObject *);
  size_t __pyx_t_5;
  unsigned int __pyx_t_6;
  __Pyx_RefNannySetupContext("__pyx_convert_pair_from_py_size_t__and_unsigned_int", 0);

  /* "pair.from_py":164
 * @cname("__pyx_convert_pair_from_py_size_t__and_unsigned_int")
 * cdef pair[X,Y] __pyx_convert_pair_from_py_size_t__and_unsigned_int(object o) except *:
 *     x, y = o             # <<<<<<<<<<<<<<
 *     return pair[X,Y](X_from_py(x), Y_from_py(y))
 * 
 */
  if ((likely(PyTuple_CheckExact(__pyx_v_o))) || (PyList_CheckExact(__pyx_v_o))) {
    PyObject* sequence = __pyx_v_o;
    #if !CYTHON_COMPILING_IN_PYPY
    Py_ssize_t size = Py_SIZE(sequence);
    #else
    Py_ssize_t size = PySequence_Size(sequence);
    #endif
    if (unlikely(size != 2)) {
      if (size > 2) __Pyx_RaiseTooManyValuesError(2);
      else if (size >= 0) __Pyx_RaiseNeedMoreValuesError(size);
      __PYX_ERR(2, 164, __pyx_L1_error)
    }
    #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
    if (likely(PyTuple_CheckExact(sequence))) {
      __pyx_t_1 = PyTuple_GET_ITEM(sequence, 0); 
      __pyx_t_2 = PyTuple_GET_ITEM(sequence, 1); 
    } else {
      __pyx_t_1 = PyList_GET_ITEM(sequence, 0); 
      __pyx_t_2 = PyList_GET_ITEM(sequence, 1); 
    }
    __Pyx_INCREF(__pyx_t_1);
    __Pyx_INCREF(__pyx_t_2);
    #else
    __pyx_t_1 = PySequence_ITEM(sequence, 0); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 164, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __pyx_t_2 = PySequence_ITEM(sequence, 1); if (unlikely(!__pyx_t_2)) __PYX_ERR(2, 164, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_2);
    #endif
  } else {
    Py_ssize_t index = -1;
    __pyx_t_3 = PyObject_GetIter(__pyx_v_o); if (unlikely(!__pyx_t_3)) __PYX_ERR(2, 164, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_3);
    __pyx_t_4 = Py_TYPE(__pyx_t_3)->tp_iternext;
    index = 0; __pyx_t_1 = __pyx_t_4(__pyx_t_3); if (unlikely(!__pyx_t_1)) goto __pyx_L3_unpacking_failed;
    __Pyx_GOTREF(__pyx_t_1);
    index = 1; __pyx_t_2 = __pyx_t_4(__pyx_t_3); if (unlikely(!__pyx_t_2)) goto __pyx_L3_unpacking_failed;
    __Pyx_GOTREF(__pyx_t_2);
    if (__Pyx_IternextUnpackEndCheck(__pyx_t_4(__pyx_t_3), 2) < 0) __PYX_ERR(2, 164, __pyx_L1_error)
    __pyx_t_4 = NULL;
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    goto __pyx_L4_unpacking_done;
    __pyx_L3_unpacking_failed:;
    __Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
    __pyx_t_4 = NULL;
    if (__Pyx_IterFinish() == 0) __Pyx_RaiseNeedMoreValuesError(index);
    __PYX_ERR(2, 164, __pyx_L1_error)
    __pyx_L4_unpacking_done:;
  }
  __pyx_v_x = __pyx_t_1;
  __pyx_t_1 = 0;
  __pyx_v_y = __pyx_t_2;
  __pyx_t_2 = 0;

  /* "pair.from_py":165
 * cdef pair[X,Y] __pyx_convert_pair_from_py_size_t__and_unsigned_int(object o) except *:
 *     x, y = o
 *     return pair[X,Y](X_from_py(x), Y_from_py(y))             # <<<<<<<<<<<<<<
 * 
 * 
 */
  __pyx_t_5 = __Pyx_PyInt_As_size_t(__pyx_v_x); if (unlikely(__pyx_t_5 == -1L && PyErr_Occurred())) __PYX_ERR(2, 165, __pyx_L1_error)
  __pyx_t_6 = __Pyx_PyInt_As_unsigned_int(__pyx_v_y); if (unlikely(__pyx_t_6 == -1 && PyErr_Occurred())) __PYX_ERR(2, 165, __pyx_L1_error)
  __pyx_r = std::pair<size_t,unsigned int> (__pyx_t_5, __pyx_t_6);
  goto __pyx_L0;

  /* "pair.from_py":163
 * 
 * @cname("__pyx_convert_pair_from_py_size_t__and_unsigned_int")
 * cdef pair[X,Y] __pyx_convert_pair_from_py_size_t__and_unsigned_int(object o) except *:             # <<<<<<<<<<<<<<
 *     x, y = o
 *     return pair[X,Y](X_from_py(x), Y_from_py(y))
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_2);
  __Pyx_XDECREF(__pyx_t_3);
  __Pyx_AddTraceback("pair.from_py.__pyx_convert_pair_from_py_size_t__and_unsigned_int", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_L0:;
  __Pyx_XDECREF(__pyx_v_x);
  __Pyx_XDECREF(__pyx_v_y);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "vector.from_py":50
 * 
 * @cname("__pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___")
 * cdef vector[X] __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(object o) except *:             # <<<<<<<<<<<<<<
 *     cdef vector[X] v
 *     for item in o:
 */

static std::vector<std::pair<size_t,unsigned int> >  __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(PyObject *__pyx_v_o) {
  std::vector<std::pair<size_t,unsigned int> >  __pyx_v_v;
  PyObject *__pyx_v_item = NULL;
  std::vector<std::pair<size_t,unsigned int> >  __pyx_r;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  Py_ssize_t __pyx_t_2;
  PyObject *(*__pyx_t_3)(PyObject *);
  PyObject *__pyx_t_4 = NULL;
  std::pair<size_t,unsigned int>  __pyx_t_5;
  __Pyx_RefNannySetupContext("__pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___", 0);

  /* "vector.from_py":52
 * cdef vector[X] __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(object o) except *:
 *     cdef vector[X] v
 *     for item in o:             # <<<<<<<<<<<<<<
 *         v.push_back(X_from_py(item))
 *     return v
 */
  if (likely(PyList_CheckExact(__pyx_v_o)) || PyTuple_CheckExact(__pyx_v_o)) {
    __pyx_t_1 = __pyx_v_o; __Pyx_INCREF(__pyx_t_1); __pyx_t_2 = 0;
    __pyx_t_3 = NULL;
  } else {
    __pyx_t_2 = -1; __pyx_t_1 = PyObject_GetIter(__pyx_v_o); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 52, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __pyx_t_3 = Py_TYPE(__pyx_t_1)->tp_iternext; if (unlikely(!__pyx_t_3)) __PYX_ERR(2, 52, __pyx_L1_error)
  }
  for (;;) {
    if (likely(!__pyx_t_3)) {
      if (likely(PyList_CheckExact(__pyx_t_1))) {
        if (__pyx_t_2 >= PyList_GET_SIZE(__pyx_t_1)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_4 = PyList_GET_ITEM(__pyx_t_1, __pyx_t_2); __Pyx_INCREF(__pyx_t_4); __pyx_t_2++; if (unlikely(0 < 0)) __PYX_ERR(2, 52, __pyx_L1_error)
        #else
        __pyx_t_4 = PySequence_ITEM(__pyx_t_1, __pyx_t_2); __pyx_t_2++; if (unlikely(!__pyx_t_4)) __PYX_ERR(2, 52, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_4);
        #endif
      } else {
        if (__pyx_t_2 >= PyTuple_GET_SIZE(__pyx_t_1)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_4 = PyTuple_GET_ITEM(__pyx_t_1, __pyx_t_2); __Pyx_INCREF(__pyx_t_4); __pyx_t_2++; if (unlikely(0 < 0)) __PYX_ERR(2, 52, __pyx_L1_error)
        #else
        __pyx_t_4 = PySequence_ITEM(__pyx_t_1, __pyx_t_2); __pyx_t_2++; if (unlikely(!__pyx_t_4)) __PYX_ERR(2, 52, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_4);
        #endif
      }
    } else {
      __pyx_t_4 = __pyx_t_3(__pyx_t_1);
      if (unlikely(!__pyx_t_4)) {
        PyObject* exc_type = PyErr_Occurred();
        if (exc_type) {
          if (likely(exc_type == PyExc_StopIteration || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration))) PyErr_Clear();
          else __PYX_ERR(2, 52, __pyx_L1_error)
        }
        break;
      }
      __Pyx_GOTREF(__pyx_t_4);
    }
    __Pyx_XDECREF_SET(__pyx_v_item, __pyx_t_4);
    __pyx_t_4 = 0;

    /* "vector.from_py":53
 *     cdef vector[X] v
 *     for item in o:
 *         v.push_back(X_from_py(item))             # <<<<<<<<<<<<<<
 *     return v
 * 
 */
    __pyx_t_5 = __pyx_convert_pair_from_py_size_t__and_unsigned_int(__pyx_v_item); if (unlikely(PyErr_Occurred())) __PYX_ERR(2, 53, __pyx_L1_error)
    __pyx_v_v.push_back(__pyx_t_5);

    /* "vector.from_py":52
 * cdef vector[X] __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(object o) except *:
 *     cdef vector[X] v
 *     for item in o:             # <<<<<<<<<<<<<<
 *         v.push_back(X_from_py(item))
 *     return v
 */
  }
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

  /* "vector.from_py":54
 *     for item in o:
 *         v.push_back(X_from_py(item))
 *     return v             # <<<<<<<<<<<<<<
 * 
 * 
 */
  __pyx_r = __pyx_v_v;
  goto __pyx_L0;

  /* "vector.from_py":50
 * 
 * @cname("__pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___")
 * cdef vector[X] __pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(object o) except *:             # <<<<<<<<<<<<<<
 *     cdef vector[X] v
 *     for item in o:
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_AddTraceback("vector.from_py.__pyx_convert_vector_from_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_L0:;
  __Pyx_XDECREF(__pyx_v_item);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "vector.to_py":67
 * 
 * @cname("__pyx_convert_vector_to_py_char")
 * cdef object __pyx_convert_vector_to_py_char(vector[X]& v):             # <<<<<<<<<<<<<<
 *     return [X_to_py(v[i]) for i in range(v.size())]
 * 
 */

static PyObject *__pyx_convert_vector_to_py_char(const std::vector<char>  &__pyx_v_v) {
  size_t __pyx_v_i;
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  size_t __pyx_t_2;
  size_t __pyx_t_3;
  PyObject *__pyx_t_4 = NULL;
  __Pyx_RefNannySetupContext("__pyx_convert_vector_to_py_char", 0);

  /* "vector.to_py":68
 * @cname("__pyx_convert_vector_to_py_char")
 * cdef object __pyx_convert_vector_to_py_char(vector[X]& v):
 *     return [X_to_py(v[i]) for i in range(v.size())]             # <<<<<<<<<<<<<<
 * 
 * 
 */
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_1 = PyList_New(0); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 68, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_t_2 = __pyx_v_v.size();
  for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) {
    __pyx_v_i = __pyx_t_3;
    __pyx_t_4 = __Pyx_PyInt_From_char((__pyx_v_v[__pyx_v_i])); if (unlikely(!__pyx_t_4)) __PYX_ERR(2, 68, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    if (unlikely(__Pyx_ListComp_Append(__pyx_t_1, (PyObject*)__pyx_t_4))) __PYX_ERR(2, 68, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
  }
  __pyx_r = __pyx_t_1;
  __pyx_t_1 = 0;
  goto __pyx_L0;

  /* "vector.to_py":67
 * 
 * @cname("__pyx_convert_vector_to_py_char")
 * cdef object __pyx_convert_vector_to_py_char(vector[X]& v):             # <<<<<<<<<<<<<<
 *     return [X_to_py(v[i]) for i in range(v.size())]
 * 
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_AddTraceback("vector.to_py.__pyx_convert_vector_to_py_char", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = 0;
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_convert_vector_to_py_double(const std::vector<double>  &__pyx_v_v) {
  size_t __pyx_v_i;
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  size_t __pyx_t_2;
  size_t __pyx_t_3;
  PyObject *__pyx_t_4 = NULL;
  __Pyx_RefNannySetupContext("__pyx_convert_vector_to_py_double", 0);

  /* "vector.to_py":68
 * @cname("__pyx_convert_vector_to_py_double")
 * cdef object __pyx_convert_vector_to_py_double(vector[X]& v):
 *     return [X_to_py(v[i]) for i in range(v.size())]             # <<<<<<<<<<<<<<
 * 
 * 
 */
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_1 = PyList_New(0); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 68, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_t_2 = __pyx_v_v.size();
  for (__pyx_t_3 = 0; __pyx_t_3 < __pyx_t_2; __pyx_t_3+=1) {
    __pyx_v_i = __pyx_t_3;
    __pyx_t_4 = PyFloat_FromDouble((__pyx_v_v[__pyx_v_i])); if (unlikely(!__pyx_t_4)) __PYX_ERR(2, 68, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_4);
    if (unlikely(__Pyx_ListComp_Append(__pyx_t_1, (PyObject*)__pyx_t_4))) __PYX_ERR(2, 68, __pyx_L1_error)
    __Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
  }
  __pyx_r = __pyx_t_1;
  __pyx_t_1 = 0;
  goto __pyx_L0;

  /* "vector.to_py":67
 * 
 * @cname("__pyx_convert_vector_to_py_double")
 * cdef object __pyx_convert_vector_to_py_double(vector[X]& v):             # <<<<<<<<<<<<<<
 *     return [X_to_py(v[i]) for i in range(v.size())]
 * 
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_AddTraceback("vector.to_py.__pyx_convert_vector_to_py_double", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = 0;
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "vector.from_py":49
 * 
 * @cname("__pyx_convert_vector_from_py_size_t")
 * cdef vector[X] __pyx_convert_vector_from_py_size_t(object o) except *:             # <<<<<<<<<<<<<<
 *     cdef vector[X] v
 *     for item in o:
 */

static std::vector<size_t>  __pyx_convert_vector_from_py_size_t(PyObject *__pyx_v_o) {
  std::vector<size_t>  __pyx_v_v;
  PyObject *__pyx_v_item = NULL;
  std::vector<size_t>  __pyx_r;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  Py_ssize_t __pyx_t_2;
  PyObject *(*__pyx_t_3)(PyObject *);
  PyObject *__pyx_t_4 = NULL;
  size_t __pyx_t_5;
  __Pyx_RefNannySetupContext("__pyx_convert_vector_from_py_size_t", 0);

  /* "vector.from_py":51
 * cdef vector[X] __pyx_convert_vector_from_py_size_t(object o) except *:
 *     cdef vector[X] v
 *     for item in o:             # <<<<<<<<<<<<<<
 *         v.push_back(X_from_py(item))
 *     return v
 */
  if (likely(PyList_CheckExact(__pyx_v_o)) || PyTuple_CheckExact(__pyx_v_o)) {
    __pyx_t_1 = __pyx_v_o; __Pyx_INCREF(__pyx_t_1); __pyx_t_2 = 0;
    __pyx_t_3 = NULL;
  } else {
    __pyx_t_2 = -1; __pyx_t_1 = PyObject_GetIter(__pyx_v_o); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 51, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __pyx_t_3 = Py_TYPE(__pyx_t_1)->tp_iternext; if (unlikely(!__pyx_t_3)) __PYX_ERR(2, 51, __pyx_L1_error)
  }
  for (;;) {
    if (likely(!__pyx_t_3)) {
      if (likely(PyList_CheckExact(__pyx_t_1))) {
        if (__pyx_t_2 >= PyList_GET_SIZE(__pyx_t_1)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_4 = PyList_GET_ITEM(__pyx_t_1, __pyx_t_2); __Pyx_INCREF(__pyx_t_4); __pyx_t_2++; if (unlikely(0 < 0)) __PYX_ERR(2, 51, __pyx_L1_error)
        #else
        __pyx_t_4 = PySequence_ITEM(__pyx_t_1, __pyx_t_2); __pyx_t_2++; if (unlikely(!__pyx_t_4)) __PYX_ERR(2, 51, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_4);
        #endif
      } else {
        if (__pyx_t_2 >= PyTuple_GET_SIZE(__pyx_t_1)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_4 = PyTuple_GET_ITEM(__pyx_t_1, __pyx_t_2); __Pyx_INCREF(__pyx_t_4); __pyx_t_2++; if (unlikely(0 < 0)) __PYX_ERR(2, 51, __pyx_L1_error)
        #else
        __pyx_t_4 = PySequence_ITEM(__pyx_t_1, __pyx_t_2); __pyx_t_2++; if (unlikely(!__pyx_t_4)) __PYX_ERR(2, 51, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_4);
        #endif
      }
    } else {
      __pyx_t_4 = __pyx_t_3(__pyx_t_1);
      if (unlikely(!__pyx_t_4)) {
        PyObject* exc_type = PyErr_Occurred();
        if (exc_type) {
          if (likely(exc_type == PyExc_StopIteration || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration))) PyErr_Clear();
          else __PYX_ERR(2, 51, __pyx_L1_error)
        }
        break;
      }
      __Pyx_GOTREF(__pyx_t_4);
    }
    __Pyx_XDECREF_SET(__pyx_v_item, __pyx_t_4);
    __pyx_t_4 = 0;

    /* "vector.from_py":52
 *     cdef vector[X] v
 *     for item in o:
 *         v.push_back(X_from_py(item))             # <<<<<<<<<<<<<<
 *     return v
 * 
 */
    __pyx_t_5 = __Pyx_PyInt_As_size_t(__pyx_v_item); if (unlikely(__pyx_t_5 == -1L && PyErr_Occurred())) __PYX_ERR(2, 52, __pyx_L1_error)
    __pyx_v_v.push_back(__pyx_t_5);

    /* "vector.from_py":51
 * cdef vector[X] __pyx_convert_vector_from_py_size_t(object o) except *:
 *     cdef vector[X] v
 *     for item in o:             # <<<<<<<<<<<<<<
 *         v.push_back(X_from_py(item))
 *     return v
 */
  }
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

  /* "vector.from_py":53
 *     for item in o:
 *         v.push_back(X_from_py(item))
 *     return v             # <<<<<<<<<<<<<<
 * 
 * 
 */
  __pyx_r = __pyx_v_v;
  goto __pyx_L0;

  /* "vector.from_py":49
 * 
 * @cname("__pyx_convert_vector_from_py_size_t")
 * cdef vector[X] __pyx_convert_vector_from_py_size_t(object o) except *:             # <<<<<<<<<<<<<<
 *     cdef vector[X] v
 *     for item in o:
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_AddTraceback("vector.from_py.__pyx_convert_vector_from_py_size_t", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_L0:;
  __Pyx_XDECREF(__pyx_v_item);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static std::vector<unsigned int>  __pyx_convert_vector_from_py_unsigned_int(PyObject *__pyx_v_o) {
  std::vector<unsigned int>  __pyx_v_v;
  PyObject *__pyx_v_item = NULL;
  std::vector<unsigned int>  __pyx_r;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  Py_ssize_t __pyx_t_2;
  PyObject *(*__pyx_t_3)(PyObject *);
  PyObject *__pyx_t_4 = NULL;
  unsigned int __pyx_t_5;
  __Pyx_RefNannySetupContext("__pyx_convert_vector_from_py_unsigned_int", 0);

  /* "vector.from_py":51
 * cdef vector[X] __pyx_convert_vector_from_py_unsigned_int(object o) except *:
 *     cdef vector[X] v
 *     for item in o:             # <<<<<<<<<<<<<<
 *         v.push_back(X_from_py(item))
 *     return v
 */
  if (likely(PyList_CheckExact(__pyx_v_o)) || PyTuple_CheckExact(__pyx_v_o)) {
    __pyx_t_1 = __pyx_v_o; __Pyx_INCREF(__pyx_t_1); __pyx_t_2 = 0;
    __pyx_t_3 = NULL;
  } else {
    __pyx_t_2 = -1; __pyx_t_1 = PyObject_GetIter(__pyx_v_o); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 51, __pyx_L1_error)
    __Pyx_GOTREF(__pyx_t_1);
    __pyx_t_3 = Py_TYPE(__pyx_t_1)->tp_iternext; if (unlikely(!__pyx_t_3)) __PYX_ERR(2, 51, __pyx_L1_error)
  }
  for (;;) {
    if (likely(!__pyx_t_3)) {
      if (likely(PyList_CheckExact(__pyx_t_1))) {
        if (__pyx_t_2 >= PyList_GET_SIZE(__pyx_t_1)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_4 = PyList_GET_ITEM(__pyx_t_1, __pyx_t_2); __Pyx_INCREF(__pyx_t_4); __pyx_t_2++; if (unlikely(0 < 0)) __PYX_ERR(2, 51, __pyx_L1_error)
        #else
        __pyx_t_4 = PySequence_ITEM(__pyx_t_1, __pyx_t_2); __pyx_t_2++; if (unlikely(!__pyx_t_4)) __PYX_ERR(2, 51, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_4);
        #endif
      } else {
        if (__pyx_t_2 >= PyTuple_GET_SIZE(__pyx_t_1)) break;
        #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
        __pyx_t_4 = PyTuple_GET_ITEM(__pyx_t_1, __pyx_t_2); __Pyx_INCREF(__pyx_t_4); __pyx_t_2++; if (unlikely(0 < 0)) __PYX_ERR(2, 51, __pyx_L1_error)
        #else
        __pyx_t_4 = PySequence_ITEM(__pyx_t_1, __pyx_t_2); __pyx_t_2++; if (unlikely(!__pyx_t_4)) __PYX_ERR(2, 51, __pyx_L1_error)
        __Pyx_GOTREF(__pyx_t_4);
        #endif
      }
    } else {
      __pyx_t_4 = __pyx_t_3(__pyx_t_1);
      if (unlikely(!__pyx_t_4)) {
        PyObject* exc_type = PyErr_Occurred();
        if (exc_type) {
          if (likely(exc_type == PyExc_StopIteration || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration))) PyErr_Clear();
          else __PYX_ERR(2, 51, __pyx_L1_error)
        }
        break;
      }
      __Pyx_GOTREF(__pyx_t_4);
    }
    __Pyx_XDECREF_SET(__pyx_v_item, __pyx_t_4);
    __pyx_t_4 = 0;

    /* "vector.from_py":52
 *     cdef vector[X] v
 *     for item in o:
 *         v.push_back(X_from_py(item))             # <<<<<<<<<<<<<<
 *     return v
 * 
 */
    __pyx_t_5 = __Pyx_PyInt_As_unsigned_int(__pyx_v_item); if (unlikely(__pyx_t_5 == -1 && PyErr_Occurred())) __PYX_ERR(2, 52, __pyx_L1_error)
    __pyx_v_v.push_back(__pyx_t_5);

    /* "vector.from_py":51
 * cdef vector[X] __pyx_convert_vector_from_py_unsigned_int(object o) except *:
 *     cdef vector[X] v
 *     for item in o:             # <<<<<<<<<<<<<<
 *         v.push_back(X_from_py(item))
 *     return v
 */
  }
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

  /* "vector.from_py":53
 *     for item in o:
 *         v.push_back(X_from_py(item))
 *     return v             # <<<<<<<<<<<<<<
 * 
 * 
 */
  __pyx_r = __pyx_v_v;
  goto __pyx_L0;

  /* "vector.from_py":49
 * 
 * @cname("__pyx_convert_vector_from_py_unsigned_int")
 * cdef vector[X] __pyx_convert_vector_from_py_unsigned_int(object o) except *:             # <<<<<<<<<<<<<<
 *     cdef vector[X] v
 *     for item in o:
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_4);
  __Pyx_AddTraceback("vector.from_py.__pyx_convert_vector_from_py_unsigned_int", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_L0:;
  __Pyx_XDECREF(__pyx_v_item);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

/* "pair.to_py":180
 * 
 * @cname("__pyx_convert_pair_to_py_std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e_______std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e___")
 * cdef object __pyx_convert_pair_to_py_std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e_______std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e___(const pair[X,Y]& p):             # <<<<<<<<<<<<<<
 *     return X_to_py(p.first), Y_to_py(p.second)
 * 
 */

static PyObject *__pyx_convert_pair_to_py_std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e_______std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e___(std::pair<std::vector<std::pair<size_t,unsigned int> > ,std::vector<std::pair<size_t,unsigned int> > >  const &__pyx_v_p) {
  PyObject *__pyx_r = NULL;
  __Pyx_RefNannyDeclarations
  PyObject *__pyx_t_1 = NULL;
  PyObject *__pyx_t_2 = NULL;
  PyObject *__pyx_t_3 = NULL;
  __Pyx_RefNannySetupContext("__pyx_convert_pair_to_py_std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e_______std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e___", 0);

  /* "pair.to_py":181
 * @cname("__pyx_convert_pair_to_py_std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e_______std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e___")
 * cdef object __pyx_convert_pair_to_py_std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e_______std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e___(const pair[X,Y]& p):
 *     return X_to_py(p.first), Y_to_py(p.second)             # <<<<<<<<<<<<<<
 * 
 * 
 */
  __Pyx_XDECREF(__pyx_r);
  __pyx_t_1 = __pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_v_p.first); if (unlikely(!__pyx_t_1)) __PYX_ERR(2, 181, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_t_2 = __pyx_convert_vector_to_py_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e___(__pyx_v_p.second); if (unlikely(!__pyx_t_2)) __PYX_ERR(2, 181, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __pyx_t_3 = PyTuple_New(2); if (unlikely(!__pyx_t_3)) __PYX_ERR(2, 181, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_3);
  __Pyx_GIVEREF(__pyx_t_1);
  PyTuple_SET_ITEM(__pyx_t_3, 0, __pyx_t_1);
  __Pyx_GIVEREF(__pyx_t_2);
  PyTuple_SET_ITEM(__pyx_t_3, 1, __pyx_t_2);
  __pyx_t_1 = 0;
  __pyx_t_2 = 0;
  __pyx_r = __pyx_t_3;
  __pyx_t_3 = 0;
  goto __pyx_L0;

  /* "pair.to_py":180
 * 
 * @cname("__pyx_convert_pair_to_py_std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e_______std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e___")
 * cdef object __pyx_convert_pair_to_py_std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e_______std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e___(const pair[X,Y]& p):             # <<<<<<<<<<<<<<
 *     return X_to_py(p.first), Y_to_py(p.second)
 * 
 */

  /* function exit code */
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_2);
  __Pyx_XDECREF(__pyx_t_3);
  __Pyx_AddTraceback("pair.to_py.__pyx_convert_pair_to_py_std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e_______std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e___", __pyx_clineno, __pyx_lineno, __pyx_filename);
  __pyx_r = 0;
  __pyx_L0:;
  __Pyx_XGIVEREF(__pyx_r);
  __Pyx_RefNannyFinishContext();
  return __pyx_r;
}

static PyObject *__pyx_tp_new_5fwdpy_6matrix_DataMatrix(PyTypeObject *t, PyObject *a, PyObject *k) {
  struct __pyx_obj_5fwdpy_6matrix_DataMatrix *p;
  PyObject *o;
  if (likely((t->tp_flags & Py_TPFLAGS_IS_ABSTRACT) == 0)) {
    o = (*t->tp_alloc)(t, 0);
  } else {
    o = (PyObject *) PyBaseObject_Type.tp_new(t, __pyx_empty_tuple, 0);
  }
  if (unlikely(!o)) return 0;
  p = ((struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)o);
  p->neutral = Py_None; Py_INCREF(Py_None);
  p->selected = Py_None; Py_INCREF(Py_None);
  p->neutral_positions = Py_None; Py_INCREF(Py_None);
  p->selected_positions = Py_None; Py_INCREF(Py_None);
  p->neutral_popfreq = Py_None; Py_INCREF(Py_None);
  p->selected_popfreq = Py_None; Py_INCREF(Py_None);
  if (unlikely(__pyx_pw_5fwdpy_6matrix_10DataMatrix_1__cinit__(o, a, k) < 0)) goto bad;
  return o;
  bad:
  Py_DECREF(o); o = 0;
  return NULL;
}

static void __pyx_tp_dealloc_5fwdpy_6matrix_DataMatrix(PyObject *o) {
  struct __pyx_obj_5fwdpy_6matrix_DataMatrix *p = (struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)o;
  #if PY_VERSION_HEX >= 0x030400a1
  if (unlikely(Py_TYPE(o)->tp_finalize) && !_PyGC_FINALIZED(o)) {
    if (PyObject_CallFinalizerFromDealloc(o)) return;
  }
  #endif
  PyObject_GC_UnTrack(o);
  Py_CLEAR(p->neutral);
  Py_CLEAR(p->selected);
  Py_CLEAR(p->neutral_positions);
  Py_CLEAR(p->selected_positions);
  Py_CLEAR(p->neutral_popfreq);
  Py_CLEAR(p->selected_popfreq);
  (*Py_TYPE(o)->tp_free)(o);
}

static int __pyx_tp_traverse_5fwdpy_6matrix_DataMatrix(PyObject *o, visitproc v, void *a) {
  int e;
  struct __pyx_obj_5fwdpy_6matrix_DataMatrix *p = (struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)o;
  if (p->neutral) {
    e = (*v)(p->neutral, a); if (e) return e;
  }
  if (p->selected) {
    e = (*v)(p->selected, a); if (e) return e;
  }
  if (p->neutral_positions) {
    e = (*v)(p->neutral_positions, a); if (e) return e;
  }
  if (p->selected_positions) {
    e = (*v)(p->selected_positions, a); if (e) return e;
  }
  if (p->neutral_popfreq) {
    e = (*v)(p->neutral_popfreq, a); if (e) return e;
  }
  if (p->selected_popfreq) {
    e = (*v)(p->selected_popfreq, a); if (e) return e;
  }
  return 0;
}

static int __pyx_tp_clear_5fwdpy_6matrix_DataMatrix(PyObject *o) {
  PyObject* tmp;
  struct __pyx_obj_5fwdpy_6matrix_DataMatrix *p = (struct __pyx_obj_5fwdpy_6matrix_DataMatrix *)o;
  tmp = ((PyObject*)p->neutral);
  p->neutral = Py_None; Py_INCREF(Py_None);
  Py_XDECREF(tmp);
  tmp = ((PyObject*)p->selected);
  p->selected = Py_None; Py_INCREF(Py_None);
  Py_XDECREF(tmp);
  tmp = ((PyObject*)p->neutral_positions);
  p->neutral_positions = Py_None; Py_INCREF(Py_None);
  Py_XDECREF(tmp);
  tmp = ((PyObject*)p->selected_positions);
  p->selected_positions = Py_None; Py_INCREF(Py_None);
  Py_XDECREF(tmp);
  tmp = ((PyObject*)p->neutral_popfreq);
  p->neutral_popfreq = Py_None; Py_INCREF(Py_None);
  Py_XDECREF(tmp);
  tmp = ((PyObject*)p->selected_popfreq);
  p->selected_popfreq = Py_None; Py_INCREF(Py_None);
  Py_XDECREF(tmp);
  return 0;
}

static PyObject *__pyx_getprop_5fwdpy_6matrix_10DataMatrix_neutral(PyObject *o, CYTHON_UNUSED void *x) {
  return __pyx_pw_5fwdpy_6matrix_10DataMatrix_7neutral_1__get__(o);
}

static PyObject *__pyx_getprop_5fwdpy_6matrix_10DataMatrix_selected(PyObject *o, CYTHON_UNUSED void *x) {
  return __pyx_pw_5fwdpy_6matrix_10DataMatrix_8selected_1__get__(o);
}

static PyObject *__pyx_getprop_5fwdpy_6matrix_10DataMatrix_neutral_positions(PyObject *o, CYTHON_UNUSED void *x) {
  return __pyx_pw_5fwdpy_6matrix_10DataMatrix_17neutral_positions_1__get__(o);
}

static PyObject *__pyx_getprop_5fwdpy_6matrix_10DataMatrix_selected_positions(PyObject *o, CYTHON_UNUSED void *x) {
  return __pyx_pw_5fwdpy_6matrix_10DataMatrix_18selected_positions_1__get__(o);
}

static PyObject *__pyx_getprop_5fwdpy_6matrix_10DataMatrix_neutral_popfreq(PyObject *o, CYTHON_UNUSED void *x) {
  return __pyx_pw_5fwdpy_6matrix_10DataMatrix_15neutral_popfreq_1__get__(o);
}

static PyObject *__pyx_getprop_5fwdpy_6matrix_10DataMatrix_selected_popfreq(PyObject *o, CYTHON_UNUSED void *x) {
  return __pyx_pw_5fwdpy_6matrix_10DataMatrix_16selected_popfreq_1__get__(o);
}

static PyObject *__pyx_getprop_5fwdpy_6matrix_10DataMatrix_nrow(PyObject *o, CYTHON_UNUSED void *x) {
  return __pyx_pw_5fwdpy_6matrix_10DataMatrix_4nrow_1__get__(o);
}

static PyObject *__pyx_getprop_5fwdpy_6matrix_10DataMatrix_nn(PyObject *o, CYTHON_UNUSED void *x) {
  return __pyx_pw_5fwdpy_6matrix_10DataMatrix_2nn_1__get__(o);
}

static PyObject *__pyx_getprop_5fwdpy_6matrix_10DataMatrix_ns(PyObject *o, CYTHON_UNUSED void *x) {
  return __pyx_pw_5fwdpy_6matrix_10DataMatrix_2ns_1__get__(o);
}

static PyMethodDef __pyx_methods_5fwdpy_6matrix_DataMatrix[] = {
  {"nmatrix", (PyCFunction)__pyx_pw_5fwdpy_6matrix_10DataMatrix_3nmatrix, METH_VARARGS|METH_KEYWORDS, __pyx_doc_5fwdpy_6matrix_10DataMatrix_2nmatrix},
  {"smatrix", (PyCFunction)__pyx_pw_5fwdpy_6matrix_10DataMatrix_5smatrix, METH_VARARGS|METH_KEYWORDS, __pyx_doc_5fwdpy_6matrix_10DataMatrix_4smatrix},
  {"matrix", (PyCFunction)__pyx_pw_5fwdpy_6matrix_10DataMatrix_7matrix, METH_VARARGS|METH_KEYWORDS, __pyx_doc_5fwdpy_6matrix_10DataMatrix_6matrix},
  {0, 0, 0, 0}
};

static struct PyGetSetDef __pyx_getsets_5fwdpy_6matrix_DataMatrix[] = {
  {(char *)"neutral", __pyx_getprop_5fwdpy_6matrix_10DataMatrix_neutral, 0, (char *)"Data for neutral positions", 0},
  {(char *)"selected", __pyx_getprop_5fwdpy_6matrix_10DataMatrix_selected, 0, (char *)"Data for selected positions", 0},
  {(char *)"neutral_positions", __pyx_getprop_5fwdpy_6matrix_10DataMatrix_neutral_positions, 0, (char *)"Neutral positions", 0},
  {(char *)"selected_positions", __pyx_getprop_5fwdpy_6matrix_10DataMatrix_selected_positions, 0, (char *)"selected positions", 0},
  {(char *)"neutral_popfreq", __pyx_getprop_5fwdpy_6matrix_10DataMatrix_neutral_popfreq, 0, (char *)"Neutral frequencies in simulation", 0},
  {(char *)"selected_popfreq", __pyx_getprop_5fwdpy_6matrix_10DataMatrix_selected_popfreq, 0, (char *)"selected frequencies in simulation", 0},
  {(char *)"nrow", __pyx_getprop_5fwdpy_6matrix_10DataMatrix_nrow, 0, (char *)"Number of rows", 0},
  {(char *)"nn", __pyx_getprop_5fwdpy_6matrix_10DataMatrix_nn, 0, (char *)"Number of neutral mutations", 0},
  {(char *)"ns", __pyx_getprop_5fwdpy_6matrix_10DataMatrix_ns, 0, (char *)"Number of selected nutations", 0},
  {0, 0, 0, 0, 0}
};

static PyTypeObject __pyx_type_5fwdpy_6matrix_DataMatrix = {
  PyVarObject_HEAD_INIT(0, 0)
  "fwdpy.matrix.DataMatrix", /*tp_name*/
  sizeof(struct __pyx_obj_5fwdpy_6matrix_DataMatrix), /*tp_basicsize*/
  0, /*tp_itemsize*/
  __pyx_tp_dealloc_5fwdpy_6matrix_DataMatrix, /*tp_dealloc*/
  0, /*tp_print*/
  0, /*tp_getattr*/
  0, /*tp_setattr*/
  #if PY_MAJOR_VERSION < 3
  0, /*tp_compare*/
  #endif
  #if PY_MAJOR_VERSION >= 3
  0, /*tp_as_async*/
  #endif
  0, /*tp_repr*/
  0, /*tp_as_number*/
  0, /*tp_as_sequence*/
  0, /*tp_as_mapping*/
  0, /*tp_hash*/
  0, /*tp_call*/
  0, /*tp_str*/
  0, /*tp_getattro*/
  0, /*tp_setattro*/
  0, /*tp_as_buffer*/
  Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/
  "\n    Matrix representation of a sample.\n    All array types are array.array.\n    \n    .. versionadded:: 0.0.4\n    ", /*tp_doc*/
  __pyx_tp_traverse_5fwdpy_6matrix_DataMatrix, /*tp_traverse*/
  __pyx_tp_clear_5fwdpy_6matrix_DataMatrix, /*tp_clear*/
  0, /*tp_richcompare*/
  0, /*tp_weaklistoffset*/
  0, /*tp_iter*/
  0, /*tp_iternext*/
  __pyx_methods_5fwdpy_6matrix_DataMatrix, /*tp_methods*/
  0, /*tp_members*/
  __pyx_getsets_5fwdpy_6matrix_DataMatrix, /*tp_getset*/
  0, /*tp_base*/
  0, /*tp_dict*/
  0, /*tp_descr_get*/
  0, /*tp_descr_set*/
  0, /*tp_dictoffset*/
  0, /*tp_init*/
  0, /*tp_alloc*/
  __pyx_tp_new_5fwdpy_6matrix_DataMatrix, /*tp_new*/
  0, /*tp_free*/
  0, /*tp_is_gc*/
  0, /*tp_bases*/
  0, /*tp_mro*/
  0, /*tp_cache*/
  0, /*tp_subclasses*/
  0, /*tp_weaklist*/
  0, /*tp_del*/
  0, /*tp_version_tag*/
  #if PY_VERSION_HEX >= 0x030400a1
  0, /*tp_finalize*/
  #endif
};

static PyObject *__pyx_tp_new_5fwdpy_6matrix_GenotypeMatrix(PyTypeObject *t, PyObject *a, PyObject *k) {
  PyObject *o = __pyx_tp_new_5fwdpy_6matrix_DataMatrix(t, a, k);
  if (unlikely(!o)) return 0;
  return o;
}

static PyTypeObject __pyx_type_5fwdpy_6matrix_GenotypeMatrix = {
  PyVarObject_HEAD_INIT(0, 0)
  "fwdpy.matrix.GenotypeMatrix", /*tp_name*/
  sizeof(struct __pyx_obj_5fwdpy_6matrix_GenotypeMatrix), /*tp_basicsize*/
  0, /*tp_itemsize*/
  __pyx_tp_dealloc_5fwdpy_6matrix_DataMatrix, /*tp_dealloc*/
  0, /*tp_print*/
  0, /*tp_getattr*/
  0, /*tp_setattr*/
  #if PY_MAJOR_VERSION < 3
  0, /*tp_compare*/
  #endif
  #if PY_MAJOR_VERSION >= 3
  0, /*tp_as_async*/
  #endif
  0, /*tp_repr*/
  0, /*tp_as_number*/
  0, /*tp_as_sequence*/
  0, /*tp_as_mapping*/
  0, /*tp_hash*/
  0, /*tp_call*/
  0, /*tp_str*/
  0, /*tp_getattro*/
  0, /*tp_setattro*/
  0, /*tp_as_buffer*/
  Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/
  "\n    Interface is identical to :class:`fwdpy.fwdpy.DataMatrix`\n    ", /*tp_doc*/
  __pyx_tp_traverse_5fwdpy_6matrix_DataMatrix, /*tp_traverse*/
  __pyx_tp_clear_5fwdpy_6matrix_DataMatrix, /*tp_clear*/
  0, /*tp_richcompare*/
  0, /*tp_weaklistoffset*/
  0, /*tp_iter*/
  0, /*tp_iternext*/
  0, /*tp_methods*/
  0, /*tp_members*/
  0, /*tp_getset*/
  0, /*tp_base*/
  0, /*tp_dict*/
  0, /*tp_descr_get*/
  0, /*tp_descr_set*/
  0, /*tp_dictoffset*/
  0, /*tp_init*/
  0, /*tp_alloc*/
  __pyx_tp_new_5fwdpy_6matrix_GenotypeMatrix, /*tp_new*/
  0, /*tp_free*/
  0, /*tp_is_gc*/
  0, /*tp_bases*/
  0, /*tp_mro*/
  0, /*tp_cache*/
  0, /*tp_subclasses*/
  0, /*tp_weaklist*/
  0, /*tp_del*/
  0, /*tp_version_tag*/
  #if PY_VERSION_HEX >= 0x030400a1
  0, /*tp_finalize*/
  #endif
};

static PyObject *__pyx_tp_new_5fwdpy_6matrix_HaplotypeMatrix(PyTypeObject *t, PyObject *a, PyObject *k) {
  PyObject *o = __pyx_tp_new_5fwdpy_6matrix_DataMatrix(t, a, k);
  if (unlikely(!o)) return 0;
  return o;
}

static PyMethodDef __pyx_methods_5fwdpy_6matrix_HaplotypeMatrix[] = {
  {"as_sample", (PyCFunction)__pyx_pw_5fwdpy_6matrix_15HaplotypeMatrix_1as_sample, METH_NOARGS, __pyx_doc_5fwdpy_6matrix_15HaplotypeMatrix_as_sample},
  {0, 0, 0, 0}
};

static PyTypeObject __pyx_type_5fwdpy_6matrix_HaplotypeMatrix = {
  PyVarObject_HEAD_INIT(0, 0)
  "fwdpy.matrix.HaplotypeMatrix", /*tp_name*/
  sizeof(struct __pyx_obj_5fwdpy_6matrix_HaplotypeMatrix), /*tp_basicsize*/
  0, /*tp_itemsize*/
  __pyx_tp_dealloc_5fwdpy_6matrix_DataMatrix, /*tp_dealloc*/
  0, /*tp_print*/
  0, /*tp_getattr*/
  0, /*tp_setattr*/
  #if PY_MAJOR_VERSION < 3
  0, /*tp_compare*/
  #endif
  #if PY_MAJOR_VERSION >= 3
  0, /*tp_as_async*/
  #endif
  0, /*tp_repr*/
  0, /*tp_as_number*/
  0, /*tp_as_sequence*/
  0, /*tp_as_mapping*/
  0, /*tp_hash*/
  0, /*tp_call*/
  0, /*tp_str*/
  0, /*tp_getattro*/
  0, /*tp_setattro*/
  0, /*tp_as_buffer*/
  Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_BASETYPE|Py_TPFLAGS_HAVE_GC, /*tp_flags*/
  "\n    An extension of :class:`fwdpy.fwdpy.DataMatrix`\n    that allows for conversion to data formats compatible\n    wiht pylibseq/libsequence.\n    ", /*tp_doc*/
  __pyx_tp_traverse_5fwdpy_6matrix_DataMatrix, /*tp_traverse*/
  __pyx_tp_clear_5fwdpy_6matrix_DataMatrix, /*tp_clear*/
  0, /*tp_richcompare*/
  0, /*tp_weaklistoffset*/
  0, /*tp_iter*/
  0, /*tp_iternext*/
  __pyx_methods_5fwdpy_6matrix_HaplotypeMatrix, /*tp_methods*/
  0, /*tp_members*/
  0, /*tp_getset*/
  0, /*tp_base*/
  0, /*tp_dict*/
  0, /*tp_descr_get*/
  0, /*tp_descr_set*/
  0, /*tp_dictoffset*/
  0, /*tp_init*/
  0, /*tp_alloc*/
  __pyx_tp_new_5fwdpy_6matrix_HaplotypeMatrix, /*tp_new*/
  0, /*tp_free*/
  0, /*tp_is_gc*/
  0, /*tp_bases*/
  0, /*tp_mro*/
  0, /*tp_cache*/
  0, /*tp_subclasses*/
  0, /*tp_weaklist*/
  0, /*tp_del*/
  0, /*tp_version_tag*/
  #if PY_VERSION_HEX >= 0x030400a1
  0, /*tp_finalize*/
  #endif
};

static PyMethodDef __pyx_methods[] = {
  {0, 0, 0, 0}
};

#if PY_MAJOR_VERSION >= 3
static struct PyModuleDef __pyx_moduledef = {
  #if PY_VERSION_HEX < 0x03020000
    { PyObject_HEAD_INIT(NULL) NULL, 0, NULL },
  #else
    PyModuleDef_HEAD_INIT,
  #endif
    "matrix",
    0, /* m_doc */
    -1, /* m_size */
    __pyx_methods /* m_methods */,
    NULL, /* m_reload */
    NULL, /* m_traverse */
    NULL, /* m_clear */
    NULL /* m_free */
};
#endif

static __Pyx_StringTabEntry __pyx_string_tab[] = {
  {&__pyx_kp_s_0, __pyx_k_0, sizeof(__pyx_k_0), 0, 0, 1, 0},
  {&__pyx_kp_s_1, __pyx_k_1, sizeof(__pyx_k_1), 0, 0, 1, 0},
  {&__pyx_kp_s_2, __pyx_k_2, sizeof(__pyx_k_2), 0, 0, 1, 0},
  {&__pyx_n_s_KeyError, __pyx_k_KeyError, sizeof(__pyx_k_KeyError), 0, 0, 1, 1},
  {&__pyx_kp_s_Minimum_derived_allele_frequency, __pyx_k_Minimum_derived_allele_frequency, sizeof(__pyx_k_Minimum_derived_allele_frequency), 0, 0, 1, 0},
  {&__pyx_kp_s_No_value_specified_for_struct_at, __pyx_k_No_value_specified_for_struct_at, sizeof(__pyx_k_No_value_specified_for_struct_at), 0, 0, 1, 0},
  {&__pyx_kp_s_No_value_specified_for_struct_at_2, __pyx_k_No_value_specified_for_struct_at_2, sizeof(__pyx_k_No_value_specified_for_struct_at_2), 0, 0, 1, 0},
  {&__pyx_kp_s_No_value_specified_for_struct_at_3, __pyx_k_No_value_specified_for_struct_at_3, sizeof(__pyx_k_No_value_specified_for_struct_at_3), 0, 0, 1, 0},
  {&__pyx_kp_s_No_value_specified_for_struct_at_4, __pyx_k_No_value_specified_for_struct_at_4, sizeof(__pyx_k_No_value_specified_for_struct_at_4), 0, 0, 1, 0},
  {&__pyx_kp_s_No_value_specified_for_struct_at_5, __pyx_k_No_value_specified_for_struct_at_5, sizeof(__pyx_k_No_value_specified_for_struct_at_5), 0, 0, 1, 0},
  {&__pyx_kp_s_No_value_specified_for_struct_at_6, __pyx_k_No_value_specified_for_struct_at_6, sizeof(__pyx_k_No_value_specified_for_struct_at_6), 0, 0, 1, 0},
  {&__pyx_kp_s_No_value_specified_for_struct_at_7, __pyx_k_No_value_specified_for_struct_at_7, sizeof(__pyx_k_No_value_specified_for_struct_at_7), 0, 0, 1, 0},
  {&__pyx_n_s_NotImplementedError, __pyx_k_NotImplementedError, sizeof(__pyx_k_NotImplementedError), 0, 0, 1, 1},
  {&__pyx_n_s_RuntimeError, __pyx_k_RuntimeError, sizeof(__pyx_k_RuntimeError), 0, 0, 1, 1},
  {&__pyx_n_s_TypeError, __pyx_k_TypeError, sizeof(__pyx_k_TypeError), 0, 0, 1, 1},
  {&__pyx_n_s_ValueError, __pyx_k_ValueError, sizeof(__pyx_k_ValueError), 0, 0, 1, 1},
  {&__pyx_kp_s__6, __pyx_k__6, sizeof(__pyx_k__6), 0, 0, 1, 0},
  {&__pyx_n_s_append, __pyx_k_append, sizeof(__pyx_k_append), 0, 0, 1, 1},
  {&__pyx_n_s_array, __pyx_k_array, sizeof(__pyx_k_array), 0, 0, 1, 1},
  {&__pyx_n_s_d, __pyx_k_d, sizeof(__pyx_k_d), 0, 0, 1, 1},
  {&__pyx_n_s_deme, __pyx_k_deme, sizeof(__pyx_k_deme), 0, 0, 1, 1},
  {&__pyx_n_s_deme_2, __pyx_k_deme_2, sizeof(__pyx_k_deme_2), 0, 0, 1, 1},
  {&__pyx_kp_s_deme_cannot_be_None, __pyx_k_deme_cannot_be_None, sizeof(__pyx_k_deme_cannot_be_None), 0, 0, 1, 0},
  {&__pyx_kp_s_deme_cannot_be_none, __pyx_k_deme_cannot_be_none, sizeof(__pyx_k_deme_cannot_be_none), 0, 0, 1, 0},
  {&__pyx_n_s_dtype, __pyx_k_dtype, sizeof(__pyx_k_dtype), 0, 0, 1, 1},
  {&__pyx_n_s_fwdpy_matrix, __pyx_k_fwdpy_matrix, sizeof(__pyx_k_fwdpy_matrix), 0, 0, 1, 1},
  {&__pyx_n_s_genotype_matrix, __pyx_k_genotype_matrix, sizeof(__pyx_k_genotype_matrix), 0, 0, 1, 1},
  {&__pyx_n_s_get, __pyx_k_get, sizeof(__pyx_k_get), 0, 0, 1, 1},
  {&__pyx_n_s_get_mutation_keys, __pyx_k_get_mutation_keys, sizeof(__pyx_k_get_mutation_keys), 0, 0, 1, 1},
  {&__pyx_n_s_h, __pyx_k_h, sizeof(__pyx_k_h), 0, 0, 1, 1},
  {&__pyx_n_s_haplotype_matrix, __pyx_k_haplotype_matrix, sizeof(__pyx_k_haplotype_matrix), 0, 0, 1, 1},
  {&__pyx_kp_s_home_kevin_src_fwdpy_fwdpy_matr, __pyx_k_home_kevin_src_fwdpy_fwdpy_matr, sizeof(__pyx_k_home_kevin_src_fwdpy_fwdpy_matr), 0, 0, 1, 0},
  {&__pyx_n_s_i1, __pyx_k_i1, sizeof(__pyx_k_i1), 0, 0, 1, 1},
  {&__pyx_n_s_import, __pyx_k_import, sizeof(__pyx_k_import), 0, 0, 1, 1},
  {&__pyx_n_s_include_neutral, __pyx_k_include_neutral, sizeof(__pyx_k_include_neutral), 0, 0, 1, 1},
  {&__pyx_n_s_include_selected, __pyx_k_include_selected, sizeof(__pyx_k_include_selected), 0, 0, 1, 1},
  {&__pyx_n_s_individuals, __pyx_k_individuals, sizeof(__pyx_k_individuals), 0, 0, 1, 1},
  {&__pyx_n_s_join, __pyx_k_join, sizeof(__pyx_k_join), 0, 0, 1, 1},
  {&__pyx_n_s_key, __pyx_k_key, sizeof(__pyx_k_key), 0, 0, 1, 1},
  {&__pyx_n_s_keys, __pyx_k_keys, sizeof(__pyx_k_keys), 0, 0, 1, 1},
  {&__pyx_n_s_main, __pyx_k_main, sizeof(__pyx_k_main), 0, 0, 1, 1},
  {&__pyx_n_s_mcounts, __pyx_k_mcounts, sizeof(__pyx_k_mcounts), 0, 0, 1, 1},
  {&__pyx_n_s_min_pop_daf, __pyx_k_min_pop_daf, sizeof(__pyx_k_min_pop_daf), 0, 0, 1, 1},
  {&__pyx_n_s_min_sample_daf, __pyx_k_min_sample_daf, sizeof(__pyx_k_min_sample_daf), 0, 0, 1, 1},
  {&__pyx_n_s_mpop, __pyx_k_mpop, sizeof(__pyx_k_mpop), 0, 0, 1, 1},
  {&__pyx_n_s_neutral, __pyx_k_neutral, sizeof(__pyx_k_neutral), 0, 0, 1, 1},
  {&__pyx_n_s_neutral_popfreq, __pyx_k_neutral_popfreq, sizeof(__pyx_k_neutral_popfreq), 0, 0, 1, 1},
  {&__pyx_n_s_neutral_positions, __pyx_k_neutral_positions, sizeof(__pyx_k_neutral_positions), 0, 0, 1, 1},
  {&__pyx_n_s_nmatrix, __pyx_k_nmatrix, sizeof(__pyx_k_nmatrix), 0, 0, 1, 1},
  {&__pyx_n_s_nrow, __pyx_k_nrow, sizeof(__pyx_k_nrow), 0, 0, 1, 1},
  {&__pyx_n_s_numpy, __pyx_k_numpy, sizeof(__pyx_k_numpy), 0, 0, 1, 1},
  {&__pyx_n_s_pop, __pyx_k_pop, sizeof(__pyx_k_pop), 0, 0, 1, 1},
  {&__pyx_n_s_popsize, __pyx_k_popsize, sizeof(__pyx_k_popsize), 0, 0, 1, 1},
  {&__pyx_n_s_popsizes, __pyx_k_popsizes, sizeof(__pyx_k_popsizes), 0, 0, 1, 1},
  {&__pyx_kp_s_population_type_not_supported, __pyx_k_population_type_not_supported, sizeof(__pyx_k_population_type_not_supported), 0, 0, 1, 0},
  {&__pyx_n_s_pyx_vtable, __pyx_k_pyx_vtable, sizeof(__pyx_k_pyx_vtable), 0, 0, 1, 1},
  {&__pyx_n_s_range, __pyx_k_range, sizeof(__pyx_k_range), 0, 0, 1, 1},
  {&__pyx_n_s_remove_fixed, __pyx_k_remove_fixed, sizeof(__pyx_k_remove_fixed), 0, 0, 1, 1},
  {&__pyx_n_s_reshape, __pyx_k_reshape, sizeof(__pyx_k_reshape), 0, 0, 1, 1},
  {&__pyx_n_s_selected, __pyx_k_selected, sizeof(__pyx_k_selected), 0, 0, 1, 1},
  {&__pyx_n_s_selected_popfreq, __pyx_k_selected_popfreq, sizeof(__pyx_k_selected_popfreq), 0, 0, 1, 1},
  {&__pyx_n_s_selected_positions, __pyx_k_selected_positions, sizeof(__pyx_k_selected_positions), 0, 0, 1, 1},
  {&__pyx_n_s_shape, __pyx_k_shape, sizeof(__pyx_k_shape), 0, 0, 1, 1},
  {&__pyx_n_s_smatrix, __pyx_k_smatrix, sizeof(__pyx_k_smatrix), 0, 0, 1, 1},
  {&__pyx_n_s_sort, __pyx_k_sort, sizeof(__pyx_k_sort), 0, 0, 1, 1},
  {&__pyx_n_s_sort_keys_by_position_locals_lam, __pyx_k_sort_keys_by_position_locals_lam, sizeof(__pyx_k_sort_keys_by_position_locals_lam), 0, 0, 1, 1},
  {&__pyx_n_s_sorted, __pyx_k_sorted, sizeof(__pyx_k_sorted), 0, 0, 1, 1},
  {&__pyx_n_s_sum, __pyx_k_sum, sizeof(__pyx_k_sum), 0, 0, 1, 1},
  {&__pyx_n_s_test, __pyx_k_test, sizeof(__pyx_k_test), 0, 0, 1, 1},
  {&__pyx_n_s_where, __pyx_k_where, sizeof(__pyx_k_where), 0, 0, 1, 1},
  {&__pyx_n_s_zip, __pyx_k_zip, sizeof(__pyx_k_zip), 0, 0, 1, 1},
  {0, 0, 0, 0, 0, 0, 0}
};
static int __Pyx_InitCachedBuiltins(void) {
  __pyx_builtin_sorted = __Pyx_GetBuiltinName(__pyx_n_s_sorted); if (!__pyx_builtin_sorted) __PYX_ERR(0, 40, __pyx_L1_error)
  __pyx_builtin_zip = __Pyx_GetBuiltinName(__pyx_n_s_zip); if (!__pyx_builtin_zip) __PYX_ERR(0, 40, __pyx_L1_error)
  __pyx_builtin_range = __Pyx_GetBuiltinName(__pyx_n_s_range); if (!__pyx_builtin_range) __PYX_ERR(0, 129, __pyx_L1_error)
  __pyx_builtin_RuntimeError = __Pyx_GetBuiltinName(__pyx_n_s_RuntimeError); if (!__pyx_builtin_RuntimeError) __PYX_ERR(0, 178, __pyx_L1_error)
  __pyx_builtin_sum = __Pyx_GetBuiltinName(__pyx_n_s_sum); if (!__pyx_builtin_sum) __PYX_ERR(0, 204, __pyx_L1_error)
  __pyx_builtin_NotImplementedError = __Pyx_GetBuiltinName(__pyx_n_s_NotImplementedError); if (!__pyx_builtin_NotImplementedError) __PYX_ERR(0, 235, __pyx_L1_error)
  __pyx_builtin_TypeError = __Pyx_GetBuiltinName(__pyx_n_s_TypeError); if (!__pyx_builtin_TypeError) __PYX_ERR(2, 14, __pyx_L1_error)
  __pyx_builtin_KeyError = __Pyx_GetBuiltinName(__pyx_n_s_KeyError); if (!__pyx_builtin_KeyError) __PYX_ERR(2, 18, __pyx_L1_error)
  __pyx_builtin_ValueError = __Pyx_GetBuiltinName(__pyx_n_s_ValueError); if (!__pyx_builtin_ValueError) __PYX_ERR(2, 19, __pyx_L1_error)
  return 0;
  __pyx_L1_error:;
  return -1;
}

static int __Pyx_InitCachedConstants(void) {
  __Pyx_RefNannyDeclarations
  __Pyx_RefNannySetupContext("__Pyx_InitCachedConstants", 0);

  /* "fwdpy/matrix.pyx":131
 *             for col in range(nm.shape[1]):
 *                 nsi=numpy.array(['0']*nm.shape[0])
 *                 nsi[numpy.where(nm[:,col]==1)[0]]='1'             # <<<<<<<<<<<<<<
 *                 nsi[numpy.where(nm[:,col]==2)[0]]='2'
 *                 ns.append(nsi)
 */
  __pyx_slice__4 = PySlice_New(Py_None, Py_None, Py_None); if (unlikely(!__pyx_slice__4)) __PYX_ERR(0, 131, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_slice__4);
  __Pyx_GIVEREF(__pyx_slice__4);

  /* "fwdpy/matrix.pyx":132
 *                 nsi=numpy.array(['0']*nm.shape[0])
 *                 nsi[numpy.where(nm[:,col]==1)[0]]='1'
 *                 nsi[numpy.where(nm[:,col]==2)[0]]='2'             # <<<<<<<<<<<<<<
 *                 ns.append(nsi)
 *             rv['neutral']=[(i,"".join(j)) for i,j in zip(self.neutral_positions,ns)]
 */
  __pyx_slice__5 = PySlice_New(Py_None, Py_None, Py_None); if (unlikely(!__pyx_slice__5)) __PYX_ERR(0, 132, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_slice__5);
  __Pyx_GIVEREF(__pyx_slice__5);

  /* "fwdpy/matrix.pyx":139
 *             for col in range(sm.shape[1]):
 *                 ssi=numpy.array(['0']*sm.shape[0])
 *                 ssi[numpy.where(sm[:,col]==1)[0]]='1'             # <<<<<<<<<<<<<<
 *                 ssi[numpy.where(sm[:,col]==2)[0]]='2'
 *                 ss.append(ssi)
 */
  __pyx_slice__7 = PySlice_New(Py_None, Py_None, Py_None); if (unlikely(!__pyx_slice__7)) __PYX_ERR(0, 139, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_slice__7);
  __Pyx_GIVEREF(__pyx_slice__7);

  /* "fwdpy/matrix.pyx":140
 *                 ssi=numpy.array(['0']*sm.shape[0])
 *                 ssi[numpy.where(sm[:,col]==1)[0]]='1'
 *                 ssi[numpy.where(sm[:,col]==2)[0]]='2'             # <<<<<<<<<<<<<<
 *                 ss.append(ssi)
 *             rv['selected']=[(i,"".join(j)) for i,j in zip(self.selected_positions,ss)]
 */
  __pyx_slice__8 = PySlice_New(Py_None, Py_None, Py_None); if (unlikely(!__pyx_slice__8)) __PYX_ERR(0, 140, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_slice__8);
  __Pyx_GIVEREF(__pyx_slice__8);

  /* "fwdpy/matrix.pyx":178
 *     if min_sample_daf is not None:
 *         if float(min_sample_daf) < 0. or float(min_sample_daf) >= 1.:
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")             # <<<<<<<<<<<<<<
 *     if min_pop_daf is not None:
 *         if float(min_pop_daf) < 0. or float(min_pop_daf) >= 1.:
 */
  __pyx_tuple__9 = PyTuple_Pack(1, __pyx_kp_s_Minimum_derived_allele_frequency); if (unlikely(!__pyx_tuple__9)) __PYX_ERR(0, 178, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__9);
  __Pyx_GIVEREF(__pyx_tuple__9);

  /* "fwdpy/matrix.pyx":181
 *     if min_pop_daf is not None:
 *         if float(min_pop_daf) < 0. or float(min_pop_daf) >= 1.:
 *             raise RuntimeError("Minimum derived allele frequency in sample must be a float 0.0 <= 1 < 1.0")             # <<<<<<<<<<<<<<
 * 
 *     #Get the mutation keys first
 */
  __pyx_tuple__10 = PyTuple_Pack(1, __pyx_kp_s_Minimum_derived_allele_frequency); if (unlikely(!__pyx_tuple__10)) __PYX_ERR(0, 181, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__10);
  __Pyx_GIVEREF(__pyx_tuple__10);

  /* "fwdpy/matrix.pyx":199
 *     elif isinstance(pop,MetaPop):
 *         if deme is None:
 *             raise RuntimeError("deme cannot be none")             # <<<<<<<<<<<<<<
 *         keys = mutation_keys[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,include_neutral,include_selected,<size_t>deme_)
 *         if sort is True:
 */
  __pyx_tuple__11 = PyTuple_Pack(1, __pyx_kp_s_deme_cannot_be_none); if (unlikely(!__pyx_tuple__11)) __PYX_ERR(0, 199, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__11);
  __Pyx_GIVEREF(__pyx_tuple__11);

  /* "fwdpy/matrix.pyx":232
 *     if isinstance(pop,MetaPop):
 *         if deme is None:
 *             raise RuntimeError("deme cannot be None")             # <<<<<<<<<<<<<<
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     else:
 */
  __pyx_tuple__12 = PyTuple_Pack(1, __pyx_kp_s_deme_cannot_be_None); if (unlikely(!__pyx_tuple__12)) __PYX_ERR(0, 232, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__12);
  __Pyx_GIVEREF(__pyx_tuple__12);

  /* "fwdpy/matrix.pyx":235
 *         return HaplotypeMatrix(fwdpp_haplotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     else:
 *         raise NotImplementedError("population type not supported")             # <<<<<<<<<<<<<<
 * 
 * def genotype_matrix(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None,keys=None):
 */
  __pyx_tuple__13 = PyTuple_Pack(1, __pyx_kp_s_population_type_not_supported); if (unlikely(!__pyx_tuple__13)) __PYX_ERR(0, 235, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__13);
  __Pyx_GIVEREF(__pyx_tuple__13);

  /* "fwdpy/matrix.pyx":258
 *     if isinstance(pop,MetaPop):
 *         if deme is None:
 *             raise RuntimeError("deme cannot be None")             # <<<<<<<<<<<<<<
 *         return GenotypeMatrix(fwdpp_genotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     else:
 */
  __pyx_tuple__14 = PyTuple_Pack(1, __pyx_kp_s_deme_cannot_be_None); if (unlikely(!__pyx_tuple__14)) __PYX_ERR(0, 258, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__14);
  __Pyx_GIVEREF(__pyx_tuple__14);

  /* "fwdpy/matrix.pyx":261
 *         return GenotypeMatrix(fwdpp_genotype_matrix[metapop_t](deref((<MetaPop>pop).mpop.get()),individuals,keys[0],keys[1],<size_t>deme_))
 *     else:
 *         raise NotImplementedError("population type not supported")             # <<<<<<<<<<<<<<
 */
  __pyx_tuple__15 = PyTuple_Pack(1, __pyx_kp_s_population_type_not_supported); if (unlikely(!__pyx_tuple__15)) __PYX_ERR(0, 261, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__15);
  __Pyx_GIVEREF(__pyx_tuple__15);

  /* "FromPyStructUtility":19
 *         value = obj['neutral']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'neutral'")             # <<<<<<<<<<<<<<
 *     result.neutral = value
 *     try:
 */
  __pyx_tuple__16 = PyTuple_Pack(1, __pyx_kp_s_No_value_specified_for_struct_at); if (unlikely(!__pyx_tuple__16)) __PYX_ERR(2, 19, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__16);
  __Pyx_GIVEREF(__pyx_tuple__16);

  /* "FromPyStructUtility":24
 *         value = obj['selected']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'selected'")             # <<<<<<<<<<<<<<
 *     result.selected = value
 *     try:
 */
  __pyx_tuple__17 = PyTuple_Pack(1, __pyx_kp_s_No_value_specified_for_struct_at_2); if (unlikely(!__pyx_tuple__17)) __PYX_ERR(2, 24, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__17);
  __Pyx_GIVEREF(__pyx_tuple__17);

  /* "FromPyStructUtility":29
 *         value = obj['neutral_positions']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'neutral_positions'")             # <<<<<<<<<<<<<<
 *     result.neutral_positions = value
 *     try:
 */
  __pyx_tuple__18 = PyTuple_Pack(1, __pyx_kp_s_No_value_specified_for_struct_at_3); if (unlikely(!__pyx_tuple__18)) __PYX_ERR(2, 29, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__18);
  __Pyx_GIVEREF(__pyx_tuple__18);

  /* "FromPyStructUtility":34
 *         value = obj['selected_positions']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'selected_positions'")             # <<<<<<<<<<<<<<
 *     result.selected_positions = value
 *     try:
 */
  __pyx_tuple__19 = PyTuple_Pack(1, __pyx_kp_s_No_value_specified_for_struct_at_4); if (unlikely(!__pyx_tuple__19)) __PYX_ERR(2, 34, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__19);
  __Pyx_GIVEREF(__pyx_tuple__19);

  /* "FromPyStructUtility":39
 *         value = obj['neutral_popfreq']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'neutral_popfreq'")             # <<<<<<<<<<<<<<
 *     result.neutral_popfreq = value
 *     try:
 */
  __pyx_tuple__20 = PyTuple_Pack(1, __pyx_kp_s_No_value_specified_for_struct_at_5); if (unlikely(!__pyx_tuple__20)) __PYX_ERR(2, 39, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__20);
  __Pyx_GIVEREF(__pyx_tuple__20);

  /* "FromPyStructUtility":44
 *         value = obj['selected_popfreq']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'selected_popfreq'")             # <<<<<<<<<<<<<<
 *     result.selected_popfreq = value
 *     try:
 */
  __pyx_tuple__21 = PyTuple_Pack(1, __pyx_kp_s_No_value_specified_for_struct_at_6); if (unlikely(!__pyx_tuple__21)) __PYX_ERR(2, 44, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__21);
  __Pyx_GIVEREF(__pyx_tuple__21);

  /* "FromPyStructUtility":49
 *         value = obj['nrow']
 *     except KeyError:
 *         raise ValueError("No value specified for struct attribute 'nrow'")             # <<<<<<<<<<<<<<
 *     result.nrow = value
 *     return result
 */
  __pyx_tuple__22 = PyTuple_Pack(1, __pyx_kp_s_No_value_specified_for_struct_at_7); if (unlikely(!__pyx_tuple__22)) __PYX_ERR(2, 49, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__22);
  __Pyx_GIVEREF(__pyx_tuple__22);

  /* "fwdpy/matrix.pyx":61
 *         self.nn=len(self.neutral_positions)
 *         self.ns=len(self.selected_positions)
 *     def nmatrix(self,dtype = numpy.dtype('i1')):             # <<<<<<<<<<<<<<
 *         """
 *         Returns matrix of neutral sites
 */
  __pyx_tuple__23 = PyTuple_Pack(1, __pyx_n_s_i1); if (unlikely(!__pyx_tuple__23)) __PYX_ERR(0, 61, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__23);
  __Pyx_GIVEREF(__pyx_tuple__23);

  /* "fwdpy/matrix.pyx":71
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 *     def smatrix(self,dtype = numpy.dtype('i1')):             # <<<<<<<<<<<<<<
 *         """
 *         Returns matrix of selected sites
 */
  __pyx_tuple__24 = PyTuple_Pack(1, __pyx_n_s_i1); if (unlikely(!__pyx_tuple__24)) __PYX_ERR(0, 71, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__24);
  __Pyx_GIVEREF(__pyx_tuple__24);

  /* "fwdpy/matrix.pyx":81
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 *     def matrix(self,dtype = numpy.dtype('i1')):             # <<<<<<<<<<<<<<
 *         """
 *         Returns matrix of neutral and selected sites.  If either matrix is empty, the other
 */
  __pyx_tuple__25 = PyTuple_Pack(1, __pyx_n_s_i1); if (unlikely(!__pyx_tuple__25)) __PYX_ERR(0, 81, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__25);
  __Pyx_GIVEREF(__pyx_tuple__25);

  /* "fwdpy/matrix.pyx":145
 *         return rv
 * 
 * def get_mutation_keys(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None):             # <<<<<<<<<<<<<<
 *     """
 *     Generate keys to the set of mutations present in the sample defined by a set of individuals.
 */
  __pyx_tuple__26 = PyTuple_Pack(11, __pyx_n_s_pop, __pyx_n_s_individuals, __pyx_n_s_include_neutral, __pyx_n_s_include_selected, __pyx_n_s_remove_fixed, __pyx_n_s_sort, __pyx_n_s_min_sample_daf, __pyx_n_s_min_pop_daf, __pyx_n_s_deme, __pyx_n_s_deme_2, __pyx_n_s_keys); if (unlikely(!__pyx_tuple__26)) __PYX_ERR(0, 145, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__26);
  __Pyx_GIVEREF(__pyx_tuple__26);
  __pyx_codeobj__27 = (PyObject*)__Pyx_PyCode_New(9, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__26, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_home_kevin_src_fwdpy_fwdpy_matr, __pyx_n_s_get_mutation_keys, 145, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__27)) __PYX_ERR(0, 145, __pyx_L1_error)

  /* "fwdpy/matrix.pyx":212
 *     return keys
 * 
 * def haplotype_matrix(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None,keys=None):             # <<<<<<<<<<<<<<
 *     """
 *     Generate a haplotype matrix stored in a :class:`fwdpy.matrix.HaplotypeMatrix`
 */
  __pyx_tuple__28 = PyTuple_Pack(11, __pyx_n_s_pop, __pyx_n_s_individuals, __pyx_n_s_include_neutral, __pyx_n_s_include_selected, __pyx_n_s_remove_fixed, __pyx_n_s_sort, __pyx_n_s_min_sample_daf, __pyx_n_s_min_pop_daf, __pyx_n_s_deme, __pyx_n_s_keys, __pyx_n_s_deme_2); if (unlikely(!__pyx_tuple__28)) __PYX_ERR(0, 212, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__28);
  __Pyx_GIVEREF(__pyx_tuple__28);
  __pyx_codeobj__29 = (PyObject*)__Pyx_PyCode_New(10, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__28, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_home_kevin_src_fwdpy_fwdpy_matr, __pyx_n_s_haplotype_matrix, 212, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__29)) __PYX_ERR(0, 212, __pyx_L1_error)

  /* "fwdpy/matrix.pyx":237
 *         raise NotImplementedError("population type not supported")
 * 
 * def genotype_matrix(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None,keys=None):             # <<<<<<<<<<<<<<
 *     """
 *     Generate a genotype matrix stored in a :class:`fwdpy.matrix.GenotypeMatrix`
 */
  __pyx_tuple__30 = PyTuple_Pack(11, __pyx_n_s_pop, __pyx_n_s_individuals, __pyx_n_s_include_neutral, __pyx_n_s_include_selected, __pyx_n_s_remove_fixed, __pyx_n_s_sort, __pyx_n_s_min_sample_daf, __pyx_n_s_min_pop_daf, __pyx_n_s_deme, __pyx_n_s_keys, __pyx_n_s_deme_2); if (unlikely(!__pyx_tuple__30)) __PYX_ERR(0, 237, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_tuple__30);
  __Pyx_GIVEREF(__pyx_tuple__30);
  __pyx_codeobj__31 = (PyObject*)__Pyx_PyCode_New(10, 0, 11, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__30, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_home_kevin_src_fwdpy_fwdpy_matr, __pyx_n_s_genotype_matrix, 237, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__31)) __PYX_ERR(0, 237, __pyx_L1_error)
  __Pyx_RefNannyFinishContext();
  return 0;
  __pyx_L1_error:;
  __Pyx_RefNannyFinishContext();
  return -1;
}

static int __Pyx_InitGlobals(void) {
  if (__Pyx_InitStrings(__pyx_string_tab) < 0) __PYX_ERR(0, 1, __pyx_L1_error);
  __pyx_int_0 = PyInt_FromLong(0); if (unlikely(!__pyx_int_0)) __PYX_ERR(0, 1, __pyx_L1_error)
  __pyx_int_1 = PyInt_FromLong(1); if (unlikely(!__pyx_int_1)) __PYX_ERR(0, 1, __pyx_L1_error)
  __pyx_int_2 = PyInt_FromLong(2); if (unlikely(!__pyx_int_2)) __PYX_ERR(0, 1, __pyx_L1_error)
  return 0;
  __pyx_L1_error:;
  return -1;
}

#if PY_MAJOR_VERSION < 3
PyMODINIT_FUNC initmatrix(void); /*proto*/
PyMODINIT_FUNC initmatrix(void)
#else
PyMODINIT_FUNC PyInit_matrix(void); /*proto*/
PyMODINIT_FUNC PyInit_matrix(void)
#endif
{
  PyObject *__pyx_t_1 = NULL;
  PyObject *__pyx_t_2 = NULL;
  __Pyx_RefNannyDeclarations
  #if CYTHON_REFNANNY
  __Pyx_RefNanny = __Pyx_RefNannyImportAPI("refnanny");
  if (!__Pyx_RefNanny) {
      PyErr_Clear();
      __Pyx_RefNanny = __Pyx_RefNannyImportAPI("Cython.Runtime.refnanny");
      if (!__Pyx_RefNanny)
          Py_FatalError("failed to import 'refnanny' module");
  }
  #endif
  __Pyx_RefNannySetupContext("PyMODINIT_FUNC PyInit_matrix(void)", 0);
  if (__Pyx_check_binary_version() < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  __pyx_empty_tuple = PyTuple_New(0); if (unlikely(!__pyx_empty_tuple)) __PYX_ERR(0, 1, __pyx_L1_error)
  __pyx_empty_bytes = PyBytes_FromStringAndSize("", 0); if (unlikely(!__pyx_empty_bytes)) __PYX_ERR(0, 1, __pyx_L1_error)
  __pyx_empty_unicode = PyUnicode_FromStringAndSize("", 0); if (unlikely(!__pyx_empty_unicode)) __PYX_ERR(0, 1, __pyx_L1_error)
  #ifdef __Pyx_CyFunction_USED
  if (__pyx_CyFunction_init() < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  #endif
  #ifdef __Pyx_FusedFunction_USED
  if (__pyx_FusedFunction_init() < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  #endif
  #ifdef __Pyx_Coroutine_USED
  if (__pyx_Coroutine_init() < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  #endif
  #ifdef __Pyx_Generator_USED
  if (__pyx_Generator_init() < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  #endif
  #ifdef __Pyx_StopAsyncIteration_USED
  if (__pyx_StopAsyncIteration_init() < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  #endif
  /*--- Library function declarations ---*/
  /*--- Threads initialization code ---*/
  #if defined(__PYX_FORCE_INIT_THREADS) && __PYX_FORCE_INIT_THREADS
  #ifdef WITH_THREAD /* Python build with threading support? */
  PyEval_InitThreads();
  #endif
  #endif
  /*--- Module creation code ---*/
  #if PY_MAJOR_VERSION < 3
  __pyx_m = Py_InitModule4("matrix", __pyx_methods, 0, 0, PYTHON_API_VERSION); Py_XINCREF(__pyx_m);
  #else
  __pyx_m = PyModule_Create(&__pyx_moduledef);
  #endif
  if (unlikely(!__pyx_m)) __PYX_ERR(0, 1, __pyx_L1_error)
  __pyx_d = PyModule_GetDict(__pyx_m); if (unlikely(!__pyx_d)) __PYX_ERR(0, 1, __pyx_L1_error)
  Py_INCREF(__pyx_d);
  __pyx_b = PyImport_AddModule(__Pyx_BUILTIN_MODULE_NAME); if (unlikely(!__pyx_b)) __PYX_ERR(0, 1, __pyx_L1_error)
  #if CYTHON_COMPILING_IN_PYPY
  Py_INCREF(__pyx_b);
  #endif
  if (PyObject_SetAttrString(__pyx_m, "__builtins__", __pyx_b) < 0) __PYX_ERR(0, 1, __pyx_L1_error);
  /*--- Initialize various global constants etc. ---*/
  if (__Pyx_InitGlobals() < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  #if PY_MAJOR_VERSION < 3 && (__PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT)
  if (__Pyx_init_sys_getdefaultencoding_params() < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  #endif
  if (__pyx_module_is_main_fwdpy__matrix) {
    if (PyObject_SetAttrString(__pyx_m, "__name__", __pyx_n_s_main) < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  }
  #if PY_MAJOR_VERSION >= 3
  {
    PyObject *modules = PyImport_GetModuleDict(); if (unlikely(!modules)) __PYX_ERR(0, 1, __pyx_L1_error)
    if (!PyDict_GetItemString(modules, "fwdpy.matrix")) {
      if (unlikely(PyDict_SetItemString(modules, "fwdpy.matrix", __pyx_m) < 0)) __PYX_ERR(0, 1, __pyx_L1_error)
    }
  }
  #endif
  /*--- Builtin init code ---*/
  if (__Pyx_InitCachedBuiltins() < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  /*--- Constants init code ---*/
  if (__Pyx_InitCachedConstants() < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  /*--- Global init code ---*/
  /*--- Variable export code ---*/
  /*--- Function export code ---*/
  if (__Pyx_ExportFunction("sort_keys_by_position", (void (*)(void))__pyx_f_5fwdpy_6matrix_sort_keys_by_position, "PyObject *(__pyx_t_5fwdpy_6matrix_key_pair &, fwdpy::mcont_t const &)") < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  if (__Pyx_ExportFunction("remove_fixed_keys", (void (*)(void))__pyx_f_5fwdpy_6matrix_remove_fixed_keys, "__pyx_t_5fwdpy_6matrix_key_pair (__pyx_t_5fwdpy_6matrix_key_pair &, __pyx_t_5fwdpy_5fwdpy_uint const )") < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  if (__Pyx_ExportFunction("apply_min_sample_daf", (void (*)(void))__pyx_f_5fwdpy_6matrix_apply_min_sample_daf, "__pyx_t_5fwdpy_6matrix_key_pair (__pyx_t_5fwdpy_6matrix_key_pair &, double const , double const )") < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  if (__Pyx_ExportFunction("apply_min_pop_daf", (void (*)(void))__pyx_f_5fwdpy_6matrix_apply_min_pop_daf, "__pyx_t_5fwdpy_6matrix_key_pair (__pyx_t_5fwdpy_6matrix_key_pair &, unsigned int const , double const , __pyx_t_5fwdpy_5fwdpy_ucont_t const &)") < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  /*--- Type init code ---*/
  if (PyType_Ready(&__pyx_type_5fwdpy_6matrix_DataMatrix) < 0) __PYX_ERR(0, 44, __pyx_L1_error)
  __pyx_type_5fwdpy_6matrix_DataMatrix.tp_print = 0;
  if (PyObject_SetAttrString(__pyx_m, "DataMatrix", (PyObject *)&__pyx_type_5fwdpy_6matrix_DataMatrix) < 0) __PYX_ERR(0, 44, __pyx_L1_error)
  __pyx_ptype_5fwdpy_6matrix_DataMatrix = &__pyx_type_5fwdpy_6matrix_DataMatrix;
  __pyx_type_5fwdpy_6matrix_GenotypeMatrix.tp_base = __pyx_ptype_5fwdpy_6matrix_DataMatrix;
  if (PyType_Ready(&__pyx_type_5fwdpy_6matrix_GenotypeMatrix) < 0) __PYX_ERR(0, 98, __pyx_L1_error)
  __pyx_type_5fwdpy_6matrix_GenotypeMatrix.tp_print = 0;
  if (PyObject_SetAttrString(__pyx_m, "GenotypeMatrix", (PyObject *)&__pyx_type_5fwdpy_6matrix_GenotypeMatrix) < 0) __PYX_ERR(0, 98, __pyx_L1_error)
  __pyx_ptype_5fwdpy_6matrix_GenotypeMatrix = &__pyx_type_5fwdpy_6matrix_GenotypeMatrix;
  __pyx_type_5fwdpy_6matrix_HaplotypeMatrix.tp_base = __pyx_ptype_5fwdpy_6matrix_DataMatrix;
  if (PyType_Ready(&__pyx_type_5fwdpy_6matrix_HaplotypeMatrix) < 0) __PYX_ERR(0, 104, __pyx_L1_error)
  __pyx_type_5fwdpy_6matrix_HaplotypeMatrix.tp_print = 0;
  if (PyObject_SetAttrString(__pyx_m, "HaplotypeMatrix", (PyObject *)&__pyx_type_5fwdpy_6matrix_HaplotypeMatrix) < 0) __PYX_ERR(0, 104, __pyx_L1_error)
  __pyx_ptype_5fwdpy_6matrix_HaplotypeMatrix = &__pyx_type_5fwdpy_6matrix_HaplotypeMatrix;
  /*--- Type import code ---*/
  __pyx_ptype_5fwdpy_8internal_8internal_shwrappervec = __Pyx_ImportType("fwdpy.internal.internal", "shwrappervec", sizeof(struct __pyx_obj_5fwdpy_8internal_8internal_shwrappervec), 1); if (unlikely(!__pyx_ptype_5fwdpy_8internal_8internal_shwrappervec)) __PYX_ERR(3, 7, __pyx_L1_error)
  __pyx_ptype_5fwdpy_8internal_8internal_region_manager_wrapper = __Pyx_ImportType("fwdpy.internal.internal", "region_manager_wrapper", sizeof(struct __pyx_obj_5fwdpy_8internal_8internal_region_manager_wrapper), 1); if (unlikely(!__pyx_ptype_5fwdpy_8internal_8internal_region_manager_wrapper)) __PYX_ERR(3, 17, __pyx_L1_error)
  __pyx_ptype_5fwdpy_7fitness_SpopFitness = __Pyx_ImportType("fwdpy.fitness", "SpopFitness", sizeof(struct __pyx_obj_5fwdpy_7fitness_SpopFitness), 1); if (unlikely(!__pyx_ptype_5fwdpy_7fitness_SpopFitness)) __PYX_ERR(4, 108, __pyx_L1_error)
  __pyx_ptype_5fwdpy_7fitness_SpopAdditive = __Pyx_ImportType("fwdpy.fitness", "SpopAdditive", sizeof(struct __pyx_obj_5fwdpy_7fitness_SpopAdditive), 1); if (unlikely(!__pyx_ptype_5fwdpy_7fitness_SpopAdditive)) __PYX_ERR(4, 114, __pyx_L1_error)
  __pyx_ptype_5fwdpy_7fitness_SpopMult = __Pyx_ImportType("fwdpy.fitness", "SpopMult", sizeof(struct __pyx_obj_5fwdpy_7fitness_SpopMult), 1); if (unlikely(!__pyx_ptype_5fwdpy_7fitness_SpopMult)) __PYX_ERR(4, 117, __pyx_L1_error)
  __pyx_ptype_5fwdpy_7fitness_MlocusFitness = __Pyx_ImportType("fwdpy.fitness", "MlocusFitness", sizeof(struct __pyx_obj_5fwdpy_7fitness_MlocusFitness), 1); if (unlikely(!__pyx_ptype_5fwdpy_7fitness_MlocusFitness)) __PYX_ERR(4, 120, __pyx_L1_error)
  __pyx_ptype_5fwdpy_7fitness_MlocusAdditive = __Pyx_ImportType("fwdpy.fitness", "MlocusAdditive", sizeof(struct __pyx_obj_5fwdpy_7fitness_MlocusAdditive), 1); if (unlikely(!__pyx_ptype_5fwdpy_7fitness_MlocusAdditive)) __PYX_ERR(4, 126, __pyx_L1_error)
  __pyx_ptype_5fwdpy_7fitness_MlocusMult = __Pyx_ImportType("fwdpy.fitness", "MlocusMult", sizeof(struct __pyx_obj_5fwdpy_7fitness_MlocusMult), 1); if (unlikely(!__pyx_ptype_5fwdpy_7fitness_MlocusMult)) __PYX_ERR(4, 129, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_PopType = __Pyx_ImportType("fwdpy.fwdpy", "PopType", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_PopType), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_PopType)) __PYX_ERR(5, 124, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_Spop = __Pyx_ImportType("fwdpy.fwdpy", "Spop", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_Spop), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_Spop)) __PYX_ERR(5, 132, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_Spop = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_Spop*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_Spop->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_Spop)) __PYX_ERR(5, 132, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_MetaPop = __Pyx_ImportType("fwdpy.fwdpy", "MetaPop", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_MetaPop), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_MetaPop)) __PYX_ERR(5, 138, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_MetaPop = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_MetaPop*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_MetaPop->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_MetaPop)) __PYX_ERR(5, 138, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_MlocusPop = __Pyx_ImportType("fwdpy.fwdpy", "MlocusPop", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_MlocusPop), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_MlocusPop)) __PYX_ERR(5, 145, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_MlocusPop = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_MlocusPop*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_MlocusPop->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_MlocusPop)) __PYX_ERR(5, 145, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_SpopGenMut = __Pyx_ImportType("fwdpy.fwdpy", "SpopGenMut", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_SpopGenMut), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_SpopGenMut)) __PYX_ERR(5, 151, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_SpopGenMut = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_SpopGenMut*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_SpopGenMut->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_SpopGenMut)) __PYX_ERR(5, 151, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_PopVec = __Pyx_ImportType("fwdpy.fwdpy", "PopVec", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_PopVec), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_PopVec)) __PYX_ERR(5, 157, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_SpopVec = __Pyx_ImportType("fwdpy.fwdpy", "SpopVec", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_SpopVec), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_SpopVec)) __PYX_ERR(5, 165, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_SpopVec = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_SpopVec*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_SpopVec->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_SpopVec)) __PYX_ERR(5, 165, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_SpopGenMutVec = __Pyx_ImportType("fwdpy.fwdpy", "SpopGenMutVec", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_SpopGenMutVec), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_SpopGenMutVec)) __PYX_ERR(5, 171, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_SpopGenMutVec = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_SpopGenMutVec*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_SpopGenMutVec->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_SpopGenMutVec)) __PYX_ERR(5, 171, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_MetaPopVec = __Pyx_ImportType("fwdpy.fwdpy", "MetaPopVec", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_MetaPopVec), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_MetaPopVec)) __PYX_ERR(5, 176, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_MetaPopVec = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_MetaPopVec*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_MetaPopVec->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_MetaPopVec)) __PYX_ERR(5, 176, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_MlocusPopVec = __Pyx_ImportType("fwdpy.fwdpy", "MlocusPopVec", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_MlocusPopVec), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_MlocusPopVec)) __PYX_ERR(5, 182, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_MlocusPopVec = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_MlocusPopVec*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_MlocusPopVec->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_MlocusPopVec)) __PYX_ERR(5, 182, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_GSLrng = __Pyx_ImportType("fwdpy.fwdpy", "GSLrng", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_GSLrng), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_GSLrng)) __PYX_ERR(5, 189, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_TemporalSampler = __Pyx_ImportType("fwdpy.fwdpy", "TemporalSampler", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_TemporalSampler), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_TemporalSampler)) __PYX_ERR(5, 285, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_TemporalSampler = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_TemporalSampler*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_TemporalSampler->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_TemporalSampler)) __PYX_ERR(5, 285, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_NothingSampler = __Pyx_ImportType("fwdpy.fwdpy", "NothingSampler", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_NothingSampler), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_NothingSampler)) __PYX_ERR(5, 293, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_NothingSampler = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_NothingSampler*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_NothingSampler->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_NothingSampler)) __PYX_ERR(5, 293, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_QtraitStatsSampler = __Pyx_ImportType("fwdpy.fwdpy", "QtraitStatsSampler", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_QtraitStatsSampler), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_QtraitStatsSampler)) __PYX_ERR(5, 296, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_QtraitStatsSampler = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_QtraitStatsSampler*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_QtraitStatsSampler->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_QtraitStatsSampler)) __PYX_ERR(5, 296, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_PopSampler = __Pyx_ImportType("fwdpy.fwdpy", "PopSampler", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_PopSampler), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_PopSampler)) __PYX_ERR(5, 299, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_PopSampler = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_PopSampler*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_PopSampler->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_PopSampler)) __PYX_ERR(5, 299, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_VASampler = __Pyx_ImportType("fwdpy.fwdpy", "VASampler", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_VASampler), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_VASampler)) __PYX_ERR(5, 302, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_VASampler = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_VASampler*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_VASampler->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_VASampler)) __PYX_ERR(5, 302, __pyx_L1_error)
  __pyx_ptype_5fwdpy_5fwdpy_FreqSampler = __Pyx_ImportType("fwdpy.fwdpy", "FreqSampler", sizeof(struct __pyx_obj_5fwdpy_5fwdpy_FreqSampler), 1); if (unlikely(!__pyx_ptype_5fwdpy_5fwdpy_FreqSampler)) __PYX_ERR(5, 305, __pyx_L1_error)
  __pyx_vtabptr_5fwdpy_5fwdpy_FreqSampler = (struct __pyx_vtabstruct_5fwdpy_5fwdpy_FreqSampler*)__Pyx_GetVtable(__pyx_ptype_5fwdpy_5fwdpy_FreqSampler->tp_dict); if (unlikely(!__pyx_vtabptr_5fwdpy_5fwdpy_FreqSampler)) __PYX_ERR(5, 305, __pyx_L1_error)
  /*--- Variable import code ---*/
  /*--- Function import code ---*/
  /*--- Execution code ---*/
  #if defined(__Pyx_Generator_USED) || defined(__Pyx_Coroutine_USED)
  if (__Pyx_patch_abc() < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  #endif

  /* "fwdpy/matrix.pyx":4
 * from cython.operator cimport dereference as deref
 * from fwdpy cimport uint
 * import numpy             # <<<<<<<<<<<<<<
 * import array
 * 
 */
  __pyx_t_1 = __Pyx_Import(__pyx_n_s_numpy, 0, -1); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 4, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  if (PyDict_SetItem(__pyx_d, __pyx_n_s_numpy, __pyx_t_1) < 0) __PYX_ERR(0, 4, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":5
 * from fwdpy cimport uint
 * import numpy
 * import array             # <<<<<<<<<<<<<<
 * 
 * cdef key_pair remove_fixed_keys(key_pair & keys,const uint n) nogil:
 */
  __pyx_t_1 = __Pyx_Import(__pyx_n_s_array, 0, -1); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 5, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  if (PyDict_SetItem(__pyx_d, __pyx_n_s_array, __pyx_t_1) < 0) __PYX_ERR(0, 5, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":61
 *         self.nn=len(self.neutral_positions)
 *         self.ns=len(self.selected_positions)
 *     def nmatrix(self,dtype = numpy.dtype('i1')):             # <<<<<<<<<<<<<<
 *         """
 *         Returns matrix of neutral sites
 */
  __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 61, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_t_2 = __Pyx_PyObject_GetAttrStr(__pyx_t_1, __pyx_n_s_dtype); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 61, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
  __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_2, __pyx_tuple__23, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 61, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  __pyx_k_ = __pyx_t_1;
  __Pyx_GIVEREF(__pyx_t_1);
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":71
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 *     def smatrix(self,dtype = numpy.dtype('i1')):             # <<<<<<<<<<<<<<
 *         """
 *         Returns matrix of selected sites
 */
  __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 71, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_t_2 = __Pyx_PyObject_GetAttrStr(__pyx_t_1, __pyx_n_s_dtype); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 71, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
  __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_2, __pyx_tuple__24, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 71, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  __pyx_k__2 = __pyx_t_1;
  __Pyx_GIVEREF(__pyx_t_1);
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":81
 *             return None
 *         return numpy.reshape(numpy.array(self.neutral,dtype=dtype),[self.nrow,self.nn])
 *     def matrix(self,dtype = numpy.dtype('i1')):             # <<<<<<<<<<<<<<
 *         """
 *         Returns matrix of neutral and selected sites.  If either matrix is empty, the other
 */
  __pyx_t_1 = __Pyx_GetModuleGlobalName(__pyx_n_s_numpy); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 81, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __pyx_t_2 = __Pyx_PyObject_GetAttrStr(__pyx_t_1, __pyx_n_s_dtype); if (unlikely(!__pyx_t_2)) __PYX_ERR(0, 81, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_2);
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
  __pyx_t_1 = __Pyx_PyObject_Call(__pyx_t_2, __pyx_tuple__25, NULL); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 81, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  __Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
  __pyx_k__3 = __pyx_t_1;
  __Pyx_GIVEREF(__pyx_t_1);
  __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":145
 *         return rv
 * 
 * def get_mutation_keys(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None):             # <<<<<<<<<<<<<<
 *     """
 *     Generate keys to the set of mutations present in the sample defined by a set of individuals.
 */
  __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_5fwdpy_6matrix_1get_mutation_keys, NULL, __pyx_n_s_fwdpy_matrix); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 145, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  if (PyDict_SetItem(__pyx_d, __pyx_n_s_get_mutation_keys, __pyx_t_1) < 0) __PYX_ERR(0, 145, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":212
 *     return keys
 * 
 * def haplotype_matrix(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None,keys=None):             # <<<<<<<<<<<<<<
 *     """
 *     Generate a haplotype matrix stored in a :class:`fwdpy.matrix.HaplotypeMatrix`
 */
  __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_5fwdpy_6matrix_3haplotype_matrix, NULL, __pyx_n_s_fwdpy_matrix); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 212, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  if (PyDict_SetItem(__pyx_d, __pyx_n_s_haplotype_matrix, __pyx_t_1) < 0) __PYX_ERR(0, 212, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":237
 *         raise NotImplementedError("population type not supported")
 * 
 * def genotype_matrix(pop,list individuals,include_neutral=True,include_selected=True,remove_fixed=False,sort=True,min_sample_daf=None,min_pop_daf=None,deme=None,keys=None):             # <<<<<<<<<<<<<<
 *     """
 *     Generate a genotype matrix stored in a :class:`fwdpy.matrix.GenotypeMatrix`
 */
  __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_5fwdpy_6matrix_5genotype_matrix, NULL, __pyx_n_s_fwdpy_matrix); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 237, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  if (PyDict_SetItem(__pyx_d, __pyx_n_s_genotype_matrix, __pyx_t_1) < 0) __PYX_ERR(0, 237, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

  /* "fwdpy/matrix.pyx":1
 * from fwdpy cimport *             # <<<<<<<<<<<<<<
 * from cython.operator cimport dereference as deref
 * from fwdpy cimport uint
 */
  __pyx_t_1 = PyDict_New(); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 1, __pyx_L1_error)
  __Pyx_GOTREF(__pyx_t_1);
  if (PyDict_SetItem(__pyx_d, __pyx_n_s_test, __pyx_t_1) < 0) __PYX_ERR(0, 1, __pyx_L1_error)
  __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;

  /* "pair.to_py":180
 * 
 * @cname("__pyx_convert_pair_to_py_std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e_______std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e___")
 * cdef object __pyx_convert_pair_to_py_std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e_______std_3a__3a_vector_3c_std_3a__3a_pair_3c_size_t_2c_unsigned_int_3e____3e___(const pair[X,Y]& p):             # <<<<<<<<<<<<<<
 *     return X_to_py(p.first), Y_to_py(p.second)
 * 
 */

  /*--- Wrapped vars code ---*/

  goto __pyx_L0;
  __pyx_L1_error:;
  __Pyx_XDECREF(__pyx_t_1);
  __Pyx_XDECREF(__pyx_t_2);
  if (__pyx_m) {
    if (__pyx_d) {
      __Pyx_AddTraceback("init fwdpy.matrix", __pyx_clineno, __pyx_lineno, __pyx_filename);
    }
    Py_DECREF(__pyx_m); __pyx_m = 0;
  } else if (!PyErr_Occurred()) {
    PyErr_SetString(PyExc_ImportError, "init fwdpy.matrix");
  }
  __pyx_L0:;
  __Pyx_RefNannyFinishContext();
  #if PY_MAJOR_VERSION < 3
  return;
  #else
  return __pyx_m;
  #endif
}

/* --- Runtime support code --- */
/* Refnanny */
#if CYTHON_REFNANNY
static __Pyx_RefNannyAPIStruct *__Pyx_RefNannyImportAPI(const char *modname) {
    PyObject *m = NULL, *p = NULL;
    void *r = NULL;
    m = PyImport_ImportModule((char *)modname);
    if (!m) goto end;
    p = PyObject_GetAttrString(m, (char *)"RefNannyAPI");
    if (!p) goto end;
    r = PyLong_AsVoidPtr(p);
end:
    Py_XDECREF(p);
    Py_XDECREF(m);
    return (__Pyx_RefNannyAPIStruct *)r;
}
#endif

/* GetBuiltinName */
static PyObject *__Pyx_GetBuiltinName(PyObject *name) {
    PyObject* result = __Pyx_PyObject_GetAttrStr(__pyx_b, name);
    if (unlikely(!result)) {
        PyErr_Format(PyExc_NameError,
#if PY_MAJOR_VERSION >= 3
            "name '%U' is not defined", name);
#else
            "name '%.200s' is not defined", PyString_AS_STRING(name));
#endif
    }
    return result;
}

/* PyErrFetchRestore */
#if CYTHON_FAST_THREAD_STATE
static CYTHON_INLINE void __Pyx_ErrRestoreInState(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) {
    PyObject *tmp_type, *tmp_value, *tmp_tb;
    tmp_type = tstate->curexc_type;
    tmp_value = tstate->curexc_value;
    tmp_tb = tstate->curexc_traceback;
    tstate->curexc_type = type;
    tstate->curexc_value = value;
    tstate->curexc_traceback = tb;
    Py_XDECREF(tmp_type);
    Py_XDECREF(tmp_value);
    Py_XDECREF(tmp_tb);
}
static CYTHON_INLINE void __Pyx_ErrFetchInState(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) {
    *type = tstate->curexc_type;
    *value = tstate->curexc_value;
    *tb = tstate->curexc_traceback;
    tstate->curexc_type = 0;
    tstate->curexc_value = 0;
    tstate->curexc_traceback = 0;
}
#endif

/* WriteUnraisableException */
static void __Pyx_WriteUnraisable(const char *name, CYTHON_UNUSED int clineno,
                                  CYTHON_UNUSED int lineno, CYTHON_UNUSED const char *filename,
                                  int full_traceback, CYTHON_UNUSED int nogil) {
    PyObject *old_exc, *old_val, *old_tb;
    PyObject *ctx;
    __Pyx_PyThreadState_declare
#ifdef WITH_THREAD
    PyGILState_STATE state;
    if (nogil)
        state = PyGILState_Ensure();
#ifdef _MSC_VER
    else state = (PyGILState_STATE)-1;
#endif
#endif
    __Pyx_PyThreadState_assign
    __Pyx_ErrFetch(&old_exc, &old_val, &old_tb);
    if (full_traceback) {
        Py_XINCREF(old_exc);
        Py_XINCREF(old_val);
        Py_XINCREF(old_tb);
        __Pyx_ErrRestore(old_exc, old_val, old_tb);
        PyErr_PrintEx(1);
    }
    #if PY_MAJOR_VERSION < 3
    ctx = PyString_FromString(name);
    #else
    ctx = PyUnicode_FromString(name);
    #endif
    __Pyx_ErrRestore(old_exc, old_val, old_tb);
    if (!ctx) {
        PyErr_WriteUnraisable(Py_None);
    } else {
        PyErr_WriteUnraisable(ctx);
        Py_DECREF(ctx);
    }
#ifdef WITH_THREAD
    if (nogil)
        PyGILState_Release(state);
#endif
}

/* GetItemInt */
static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) {
    PyObject *r;
    if (!j) return NULL;
    r = PyObject_GetItem(o, j);
    Py_DECREF(j);
    return r;
}
static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i,
                                                              CYTHON_NCP_UNUSED int wraparound,
                                                              CYTHON_NCP_UNUSED int boundscheck) {
#if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
    if (wraparound & unlikely(i < 0)) i += PyList_GET_SIZE(o);
    if ((!boundscheck) || likely((0 <= i) & (i < PyList_GET_SIZE(o)))) {
        PyObject *r = PyList_GET_ITEM(o, i);
        Py_INCREF(r);
        return r;
    }
    return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i));
#else
    return PySequence_GetItem(o, i);
#endif
}
static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i,
                                                              CYTHON_NCP_UNUSED int wraparound,
                                                              CYTHON_NCP_UNUSED int boundscheck) {
#if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
    if (wraparound & unlikely(i < 0)) i += PyTuple_GET_SIZE(o);
    if ((!boundscheck) || likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) {
        PyObject *r = PyTuple_GET_ITEM(o, i);
        Py_INCREF(r);
        return r;
    }
    return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i));
#else
    return PySequence_GetItem(o, i);
#endif
}
static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int is_list,
                                                     CYTHON_NCP_UNUSED int wraparound,
                                                     CYTHON_NCP_UNUSED int boundscheck) {
#if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS && CYTHON_USE_TYPE_SLOTS
    if (is_list || PyList_CheckExact(o)) {
        Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyList_GET_SIZE(o);
        if ((!boundscheck) || (likely((n >= 0) & (n < PyList_GET_SIZE(o))))) {
            PyObject *r = PyList_GET_ITEM(o, n);
            Py_INCREF(r);
            return r;
        }
    }
    else if (PyTuple_CheckExact(o)) {
        Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyTuple_GET_SIZE(o);
        if ((!boundscheck) || likely((n >= 0) & (n < PyTuple_GET_SIZE(o)))) {
            PyObject *r = PyTuple_GET_ITEM(o, n);
            Py_INCREF(r);
            return r;
        }
    } else {
        PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence;
        if (likely(m && m->sq_item)) {
            if (wraparound && unlikely(i < 0) && likely(m->sq_length)) {
                Py_ssize_t l = m->sq_length(o);
                if (likely(l >= 0)) {
                    i += l;
                } else {
                    if (!PyErr_ExceptionMatches(PyExc_OverflowError))
                        return NULL;
                    PyErr_Clear();
                }
            }
            return m->sq_item(o, i);
        }
    }
#else
    if (is_list || PySequence_Check(o)) {
        return PySequence_GetItem(o, i);
    }
#endif
    return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i));
}

/* PyObjectCall */
#if CYTHON_COMPILING_IN_CPYTHON
static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) {
    PyObject *result;
    ternaryfunc call = func->ob_type->tp_call;
    if (unlikely(!call))
        return PyObject_Call(func, arg, kw);
    if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object")))
        return NULL;
    result = (*call)(func, arg, kw);
    Py_LeaveRecursiveCall();
    if (unlikely(!result) && unlikely(!PyErr_Occurred())) {
        PyErr_SetString(
            PyExc_SystemError,
            "NULL result without error in PyObject_Call");
    }
    return result;
}
#endif

/* FetchCommonType */
static PyTypeObject* __Pyx_FetchCommonType(PyTypeObject* type) {
    PyObject* fake_module;
    PyTypeObject* cached_type = NULL;
    fake_module = PyImport_AddModule((char*) "_cython_" CYTHON_ABI);
    if (!fake_module) return NULL;
    Py_INCREF(fake_module);
    cached_type = (PyTypeObject*) PyObject_GetAttrString(fake_module, type->tp_name);
    if (cached_type) {
        if (!PyType_Check((PyObject*)cached_type)) {
            PyErr_Format(PyExc_TypeError,
                "Shared Cython type %.200s is not a type object",
                type->tp_name);
            goto bad;
        }
        if (cached_type->tp_basicsize != type->tp_basicsize) {
            PyErr_Format(PyExc_TypeError,
                "Shared Cython type %.200s has the wrong size, try recompiling",
                type->tp_name);
            goto bad;
        }
    } else {
        if (!PyErr_ExceptionMatches(PyExc_AttributeError)) goto bad;
        PyErr_Clear();
        if (PyType_Ready(type) < 0) goto bad;
        if (PyObject_SetAttrString(fake_module, type->tp_name, (PyObject*) type) < 0)
            goto bad;
        Py_INCREF(type);
        cached_type = type;
    }
done:
    Py_DECREF(fake_module);
    return cached_type;
bad:
    Py_XDECREF(cached_type);
    cached_type = NULL;
    goto done;
}

/* CythonFunction */
static PyObject *
__Pyx_CyFunction_get_doc(__pyx_CyFunctionObject *op, CYTHON_UNUSED void *closure)
{
    if (unlikely(op->func_doc == NULL)) {
        if (op->func.m_ml->ml_doc) {
#if PY_MAJOR_VERSION >= 3
            op->func_doc = PyUnicode_FromString(op->func.m_ml->ml_doc);
#else
            op->func_doc = PyString_FromString(op->func.m_ml->ml_doc);
#endif
            if (unlikely(op->func_doc == NULL))
                return NULL;
        } else {
            Py_INCREF(Py_None);
            return Py_None;
        }
    }
    Py_INCREF(op->func_doc);
    return op->func_doc;
}
static int
__Pyx_CyFunction_set_doc(__pyx_CyFunctionObject *op, PyObject *value)
{
    PyObject *tmp = op->func_doc;
    if (value == NULL) {
        value = Py_None;
    }
    Py_INCREF(value);
    op->func_doc = value;
    Py_XDECREF(tmp);
    return 0;
}
static PyObject *
__Pyx_CyFunction_get_name(__pyx_CyFunctionObject *op)
{
    if (unlikely(op->func_name == NULL)) {
#if PY_MAJOR_VERSION >= 3
        op->func_name = PyUnicode_InternFromString(op->func.m_ml->ml_name);
#else
        op->func_name = PyString_InternFromString(op->func.m_ml->ml_name);
#endif
        if (unlikely(op->func_name == NULL))
            return NULL;
    }
    Py_INCREF(op->func_name);
    return op->func_name;
}
static int
__Pyx_CyFunction_set_name(__pyx_CyFunctionObject *op, PyObject *value)
{
    PyObject *tmp;
#if PY_MAJOR_VERSION >= 3
    if (unlikely(value == NULL || !PyUnicode_Check(value))) {
#else
    if (unlikely(value == NULL || !PyString_Check(value))) {
#endif
        PyErr_SetString(PyExc_TypeError,
                        "__name__ must be set to a string object");
        return -1;
    }
    tmp = op->func_name;
    Py_INCREF(value);
    op->func_name = value;
    Py_XDECREF(tmp);
    return 0;
}
static PyObject *
__Pyx_CyFunction_get_qualname(__pyx_CyFunctionObject *op)
{
    Py_INCREF(op->func_qualname);
    return op->func_qualname;
}
static int
__Pyx_CyFunction_set_qualname(__pyx_CyFunctionObject *op, PyObject *value)
{
    PyObject *tmp;
#if PY_MAJOR_VERSION >= 3
    if (unlikely(value == NULL || !PyUnicode_Check(value))) {
#else
    if (unlikely(value == NULL || !PyString_Check(value))) {
#endif
        PyErr_SetString(PyExc_TypeError,
                        "__qualname__ must be set to a string object");
        return -1;
    }
    tmp = op->func_qualname;
    Py_INCREF(value);
    op->func_qualname = value;
    Py_XDECREF(tmp);
    return 0;
}
static PyObject *
__Pyx_CyFunction_get_self(__pyx_CyFunctionObject *m, CYTHON_UNUSED void *closure)
{
    PyObject *self;
    self = m->func_closure;
    if (self == NULL)
        self = Py_None;
    Py_INCREF(self);
    return self;
}
static PyObject *
__Pyx_CyFunction_get_dict(__pyx_CyFunctionObject *op)
{
    if (unlikely(op->func_dict == NULL)) {
        op->func_dict = PyDict_New();
        if (unlikely(op->func_dict == NULL))
            return NULL;
    }
    Py_INCREF(op->func_dict);
    return op->func_dict;
}
static int
__Pyx_CyFunction_set_dict(__pyx_CyFunctionObject *op, PyObject *value)
{
    PyObject *tmp;
    if (unlikely(value == NULL)) {
        PyErr_SetString(PyExc_TypeError,
               "function's dictionary may not be deleted");
        return -1;
    }
    if (unlikely(!PyDict_Check(value))) {
        PyErr_SetString(PyExc_TypeError,
               "setting function's dictionary to a non-dict");
        return -1;
    }
    tmp = op->func_dict;
    Py_INCREF(value);
    op->func_dict = value;
    Py_XDECREF(tmp);
    return 0;
}
static PyObject *
__Pyx_CyFunction_get_globals(__pyx_CyFunctionObject *op)
{
    Py_INCREF(op->func_globals);
    return op->func_globals;
}
static PyObject *
__Pyx_CyFunction_get_closure(CYTHON_UNUSED __pyx_CyFunctionObject *op)
{
    Py_INCREF(Py_None);
    return Py_None;
}
static PyObject *
__Pyx_CyFunction_get_code(__pyx_CyFunctionObject *op)
{
    PyObject* result = (op->func_code) ? op->func_code : Py_None;
    Py_INCREF(result);
    return result;
}
static int
__Pyx_CyFunction_init_defaults(__pyx_CyFunctionObject *op) {
    int result = 0;
    PyObject *res = op->defaults_getter((PyObject *) op);
    if (unlikely(!res))
        return -1;
    #if CYTHON_ASSUME_SAFE_MACROS && !CYTHON_AVOID_BORROWED_REFS
    op->defaults_tuple = PyTuple_GET_ITEM(res, 0);
    Py_INCREF(op->defaults_tuple);
    op->defaults_kwdict = PyTuple_GET_ITEM(res, 1);
    Py_INCREF(op->defaults_kwdict);
    #else
    op->defaults_tuple = PySequence_ITEM(res, 0);
    if (unlikely(!op->defaults_tuple)) result = -1;
    else {
        op->defaults_kwdict = PySequence_ITEM(res, 1);
        if (unlikely(!op->defaults_kwdict)) result = -1;
    }
    #endif
    Py_DECREF(res);
    return result;
}
static int
__Pyx_CyFunction_set_defaults(__pyx_CyFunctionObject *op, PyObject* value) {
    PyObject* tmp;
    if (!value) {
        value = Py_None;
    } else if (value != Py_None && !PyTuple_Check(value)) {
        PyErr_SetString(PyExc_TypeError,
                        "__defaults__ must be set to a tuple object");
        return -1;
    }
    Py_INCREF(value);
    tmp = op->defaults_tuple;
    op->defaults_tuple = value;
    Py_XDECREF(tmp);
    return 0;
}
static PyObject *
__Pyx_CyFunction_get_defaults(__pyx_CyFunctionObject *op) {
    PyObject* result = op->defaults_tuple;
    if (unlikely(!result)) {
        if (op->defaults_getter) {
            if (__Pyx_CyFunction_init_defaults(op) < 0) return NULL;
            result = op->defaults_tuple;
        } else {
            result = Py_None;
        }
    }
    Py_INCREF(result);
    return result;
}
static int
__Pyx_CyFunction_set_kwdefaults(__pyx_CyFunctionObject *op, PyObject* value) {
    PyObject* tmp;
    if (!value) {
        value = Py_None;
    } else if (value != Py_None && !PyDict_Check(value)) {
        PyErr_SetString(PyExc_TypeError,
                        "__kwdefaults__ must be set to a dict object");
        return -1;
    }
    Py_INCREF(value);
    tmp = op->defaults_kwdict;
    op->defaults_kwdict = value;
    Py_XDECREF(tmp);
    return 0;
}
static PyObject *
__Pyx_CyFunction_get_kwdefaults(__pyx_CyFunctionObject *op) {
    PyObject* result = op->defaults_kwdict;
    if (unlikely(!result)) {
        if (op->defaults_getter) {
            if (__Pyx_CyFunction_init_defaults(op) < 0) return NULL;
            result = op->defaults_kwdict;
        } else {
            result = Py_None;
        }
    }
    Py_INCREF(result);
    return result;
}
static int
__Pyx_CyFunction_set_annotations(__pyx_CyFunctionObject *op, PyObject* value) {
    PyObject* tmp;
    if (!value || value == Py_None) {
        value = NULL;
    } else if (!PyDict_Check(value)) {
        PyErr_SetString(PyExc_TypeError,
                        "__annotations__ must be set to a dict object");
        return -1;
    }
    Py_XINCREF(value);
    tmp = op->func_annotations;
    op->func_annotations = value;
    Py_XDECREF(tmp);
    return 0;
}
static PyObject *
__Pyx_CyFunction_get_annotations(__pyx_CyFunctionObject *op) {
    PyObject* result = op->func_annotations;
    if (unlikely(!result)) {
        result = PyDict_New();
        if (unlikely(!result)) return NULL;
        op->func_annotations = result;
    }
    Py_INCREF(result);
    return result;
}
static PyGetSetDef __pyx_CyFunction_getsets[] = {
    {(char *) "func_doc", (getter)__Pyx_CyFunction_get_doc, (setter)__Pyx_CyFunction_set_doc, 0, 0},
    {(char *) "__doc__",  (getter)__Pyx_CyFunction_get_doc, (setter)__Pyx_CyFunction_set_doc, 0, 0},
    {(char *) "func_name", (getter)__Pyx_CyFunction_get_name, (setter)__Pyx_CyFunction_set_name, 0, 0},
    {(char *) "__name__", (getter)__Pyx_CyFunction_get_name, (setter)__Pyx_CyFunction_set_name, 0, 0},
    {(char *) "__qualname__", (getter)__Pyx_CyFunction_get_qualname, (setter)__Pyx_CyFunction_set_qualname, 0, 0},
    {(char *) "__self__", (getter)__Pyx_CyFunction_get_self, 0, 0, 0},
    {(char *) "func_dict", (getter)__Pyx_CyFunction_get_dict, (setter)__Pyx_CyFunction_set_dict, 0, 0},
    {(char *) "__dict__", (getter)__Pyx_CyFunction_get_dict, (setter)__Pyx_CyFunction_set_dict, 0, 0},
    {(char *) "func_globals", (getter)__Pyx_CyFunction_get_globals, 0, 0, 0},
    {(char *) "__globals__", (getter)__Pyx_CyFunction_get_globals, 0, 0, 0},
    {(char *) "func_closure", (getter)__Pyx_CyFunction_get_closure, 0, 0, 0},
    {(char *) "__closure__", (getter)__Pyx_CyFunction_get_closure, 0, 0, 0},
    {(char *) "func_code", (getter)__Pyx_CyFunction_get_code, 0, 0, 0},
    {(char *) "__code__", (getter)__Pyx_CyFunction_get_code, 0, 0, 0},
    {(char *) "func_defaults", (getter)__Pyx_CyFunction_get_defaults, (setter)__Pyx_CyFunction_set_defaults, 0, 0},
    {(char *) "__defaults__", (getter)__Pyx_CyFunction_get_defaults, (setter)__Pyx_CyFunction_set_defaults, 0, 0},
    {(char *) "__kwdefaults__", (getter)__Pyx_CyFunction_get_kwdefaults, (setter)__Pyx_CyFunction_set_kwdefaults, 0, 0},
    {(char *) "__annotations__", (getter)__Pyx_CyFunction_get_annotations, (setter)__Pyx_CyFunction_set_annotations, 0, 0},
    {0, 0, 0, 0, 0}
};
static PyMemberDef __pyx_CyFunction_members[] = {
    {(char *) "__module__", T_OBJECT, offsetof(__pyx_CyFunctionObject, func.m_module), PY_WRITE_RESTRICTED, 0},
    {0, 0, 0,  0, 0}
};
static PyObject *
__Pyx_CyFunction_reduce(__pyx_CyFunctionObject *m, CYTHON_UNUSED PyObject *args)
{
#if PY_MAJOR_VERSION >= 3
    return PyUnicode_FromString(m->func.m_ml->ml_name);
#else
    return PyString_FromString(m->func.m_ml->ml_name);
#endif
}
static PyMethodDef __pyx_CyFunction_methods[] = {
    {"__reduce__", (PyCFunction)__Pyx_CyFunction_reduce, METH_VARARGS, 0},
    {0, 0, 0, 0}
};
#if PY_VERSION_HEX < 0x030500A0
#define __Pyx_CyFunction_weakreflist(cyfunc) ((cyfunc)->func_weakreflist)
#else
#define __Pyx_CyFunction_weakreflist(cyfunc) ((cyfunc)->func.m_weakreflist)
#endif
static PyObject *__Pyx_CyFunction_New(PyTypeObject *type, PyMethodDef *ml, int flags, PyObject* qualname,
                                      PyObject *closure, PyObject *module, PyObject* globals, PyObject* code) {
    __pyx_CyFunctionObject *op = PyObject_GC_New(__pyx_CyFunctionObject, type);
    if (op == NULL)
        return NULL;
    op->flags = flags;
    __Pyx_CyFunction_weakreflist(op) = NULL;
    op->func.m_ml = ml;
    op->func.m_self = (PyObject *) op;
    Py_XINCREF(closure);
    op->func_closure = closure;
    Py_XINCREF(module);
    op->func.m_module = module;
    op->func_dict = NULL;
    op->func_name = NULL;
    Py_INCREF(qualname);
    op->func_qualname = qualname;
    op->func_doc = NULL;
    op->func_classobj = NULL;
    op->func_globals = globals;
    Py_INCREF(op->func_globals);
    Py_XINCREF(code);
    op->func_code = code;
    op->defaults_pyobjects = 0;
    op->defaults = NULL;
    op->defaults_tuple = NULL;
    op->defaults_kwdict = NULL;
    op->defaults_getter = NULL;
    op->func_annotations = NULL;
    PyObject_GC_Track(op);
    return (PyObject *) op;
}
static int
__Pyx_CyFunction_clear(__pyx_CyFunctionObject *m)
{
    Py_CLEAR(m->func_closure);
    Py_CLEAR(m->func.m_module);
    Py_CLEAR(m->func_dict);
    Py_CLEAR(m->func_name);
    Py_CLEAR(m->func_qualname);
    Py_CLEAR(m->func_doc);
    Py_CLEAR(m->func_globals);
    Py_CLEAR(m->func_code);
    Py_CLEAR(m->func_classobj);
    Py_CLEAR(m->defaults_tuple);
    Py_CLEAR(m->defaults_kwdict);
    Py_CLEAR(m->func_annotations);
    if (m->defaults) {
        PyObject **pydefaults = __Pyx_CyFunction_Defaults(PyObject *, m);
        int i;
        for (i = 0; i < m->defaults_pyobjects; i++)
            Py_XDECREF(pydefaults[i]);
        PyObject_Free(m->defaults);
        m->defaults = NULL;
    }
    return 0;
}
static void __Pyx_CyFunction_dealloc(__pyx_CyFunctionObject *m)
{
    PyObject_GC_UnTrack(m);
    if (__Pyx_CyFunction_weakreflist(m) != NULL)
        PyObject_ClearWeakRefs((PyObject *) m);
    __Pyx_CyFunction_clear(m);
    PyObject_GC_Del(m);
}
static int __Pyx_CyFunction_traverse(__pyx_CyFunctionObject *m, visitproc visit, void *arg)
{
    Py_VISIT(m->func_closure);
    Py_VISIT(m->func.m_module);
    Py_VISIT(m->func_dict);
    Py_VISIT(m->func_name);
    Py_VISIT(m->func_qualname);
    Py_VISIT(m->func_doc);
    Py_VISIT(m->func_globals);
    Py_VISIT(m->func_code);
    Py_VISIT(m->func_classobj);
    Py_VISIT(m->defaults_tuple);
    Py_VISIT(m->defaults_kwdict);
    if (m->defaults) {
        PyObject **pydefaults = __Pyx_CyFunction_Defaults(PyObject *, m);
        int i;
        for (i = 0; i < m->defaults_pyobjects; i++)
            Py_VISIT(pydefaults[i]);
    }
    return 0;
}
static PyObject *__Pyx_CyFunction_descr_get(PyObject *func, PyObject *obj, PyObject *type)
{
    __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func;
    if (m->flags & __Pyx_CYFUNCTION_STATICMETHOD) {
        Py_INCREF(func);
        return func;
    }
    if (m->flags & __Pyx_CYFUNCTION_CLASSMETHOD) {
        if (type == NULL)
            type = (PyObject *)(Py_TYPE(obj));
        return __Pyx_PyMethod_New(func, type, (PyObject *)(Py_TYPE(type)));
    }
    if (obj == Py_None)
        obj = NULL;
    return __Pyx_PyMethod_New(func, obj, type);
}
static PyObject*
__Pyx_CyFunction_repr(__pyx_CyFunctionObject *op)
{
#if PY_MAJOR_VERSION >= 3
    return PyUnicode_FromFormat("<cyfunction %U at %p>",
                                op->func_qualname, (void *)op);
#else
    return PyString_FromFormat("<cyfunction %s at %p>",
                               PyString_AsString(op->func_qualname), (void *)op);
#endif
}
static PyObject * __Pyx_CyFunction_CallMethod(PyObject *func, PyObject *self, PyObject *arg, PyObject *kw) {
    PyCFunctionObject* f = (PyCFunctionObject*)func;
    PyCFunction meth = f->m_ml->ml_meth;
    Py_ssize_t size;
    switch (f->m_ml->ml_flags & (METH_VARARGS | METH_KEYWORDS | METH_NOARGS | METH_O)) {
    case METH_VARARGS:
        if (likely(kw == NULL || PyDict_Size(kw) == 0))
            return (*meth)(self, arg);
        break;
    case METH_VARARGS | METH_KEYWORDS:
        return (*(PyCFunctionWithKeywords)meth)(self, arg, kw);
    case METH_NOARGS:
        if (likely(kw == NULL || PyDict_Size(kw) == 0)) {
            size = PyTuple_GET_SIZE(arg);
            if (likely(size == 0))
                return (*meth)(self, NULL);
            PyErr_Format(PyExc_TypeError,
                "%.200s() takes no arguments (%" CYTHON_FORMAT_SSIZE_T "d given)",
                f->m_ml->ml_name, size);
            return NULL;
        }
        break;
    case METH_O:
        if (likely(kw == NULL || PyDict_Size(kw) == 0)) {
            size = PyTuple_GET_SIZE(arg);
            if (likely(size == 1)) {
                PyObject *result, *arg0 = PySequence_ITEM(arg, 0);
                if (unlikely(!arg0)) return NULL;
                result = (*meth)(self, arg0);
                Py_DECREF(arg0);
                return result;
            }
            PyErr_Format(PyExc_TypeError,
                "%.200s() takes exactly one argument (%" CYTHON_FORMAT_SSIZE_T "d given)",
                f->m_ml->ml_name, size);
            return NULL;
        }
        break;
    default:
        PyErr_SetString(PyExc_SystemError, "Bad call flags in "
                        "__Pyx_CyFunction_Call. METH_OLDARGS is no "
                        "longer supported!");
        return NULL;
    }
    PyErr_Format(PyExc_TypeError, "%.200s() takes no keyword arguments",
                 f->m_ml->ml_name);
    return NULL;
}
static CYTHON_INLINE PyObject *__Pyx_CyFunction_Call(PyObject *func, PyObject *arg, PyObject *kw) {
    return __Pyx_CyFunction_CallMethod(func, ((PyCFunctionObject*)func)->m_self, arg, kw);
}
static PyObject *__Pyx_CyFunction_CallAsMethod(PyObject *func, PyObject *args, PyObject *kw) {
    PyObject *result;
    __pyx_CyFunctionObject *cyfunc = (__pyx_CyFunctionObject *) func;
    if ((cyfunc->flags & __Pyx_CYFUNCTION_CCLASS) && !(cyfunc->flags & __Pyx_CYFUNCTION_STATICMETHOD)) {
        Py_ssize_t argc;
        PyObject *new_args;
        PyObject *self;
        argc = PyTuple_GET_SIZE(args);
        new_args = PyTuple_GetSlice(args, 1, argc);
        if (unlikely(!new_args))
            return NULL;
        self = PyTuple_GetItem(args, 0);
        if (unlikely(!self)) {
            Py_DECREF(new_args);
            return NULL;
        }
        result = __Pyx_CyFunction_CallMethod(func, self, new_args, kw);
        Py_DECREF(new_args);
    } else {
        result = __Pyx_CyFunction_Call(func, args, kw);
    }
    return result;
}
static PyTypeObject __pyx_CyFunctionType_type = {
    PyVarObject_HEAD_INIT(0, 0)
    "cython_function_or_method",
    sizeof(__pyx_CyFunctionObject),
    0,
    (destructor) __Pyx_CyFunction_dealloc,
    0,
    0,
    0,
#if PY_MAJOR_VERSION < 3
    0,
#else
    0,
#endif
    (reprfunc) __Pyx_CyFunction_repr,
    0,
    0,
    0,
    0,
    __Pyx_CyFunction_CallAsMethod,
    0,
    0,
    0,
    0,
    Py_TPFLAGS_DEFAULT | Py_TPFLAGS_HAVE_GC,
    0,
    (traverseproc) __Pyx_CyFunction_traverse,
    (inquiry) __Pyx_CyFunction_clear,
    0,
#if PY_VERSION_HEX < 0x030500A0
    offsetof(__pyx_CyFunctionObject, func_weakreflist),
#else
    offsetof(PyCFunctionObject, m_weakreflist),
#endif
    0,
    0,
    __pyx_CyFunction_methods,
    __pyx_CyFunction_members,
    __pyx_CyFunction_getsets,
    0,
    0,
    __Pyx_CyFunction_descr_get,
    0,
    offsetof(__pyx_CyFunctionObject, func_dict),
    0,
    0,
    0,
    0,
    0,
    0,
    0,
    0,
    0,
    0,
    0,
    0,
#if PY_VERSION_HEX >= 0x030400a1
    0,
#endif
};
static int __pyx_CyFunction_init(void) {
    __pyx_CyFunctionType = __Pyx_FetchCommonType(&__pyx_CyFunctionType_type);
    if (__pyx_CyFunctionType == NULL) {
        return -1;
    }
    return 0;
}
static CYTHON_INLINE void *__Pyx_CyFunction_InitDefaults(PyObject *func, size_t size, int pyobjects) {
    __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func;
    m->defaults = PyObject_Malloc(size);
    if (!m->defaults)
        return PyErr_NoMemory();
    memset(m->defaults, 0, size);
    m->defaults_pyobjects = pyobjects;
    return m->defaults;
}
static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsTuple(PyObject *func, PyObject *tuple) {
    __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func;
    m->defaults_tuple = tuple;
    Py_INCREF(tuple);
}
static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsKwDict(PyObject *func, PyObject *dict) {
    __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func;
    m->defaults_kwdict = dict;
    Py_INCREF(dict);
}
static CYTHON_INLINE void __Pyx_CyFunction_SetAnnotationsDict(PyObject *func, PyObject *dict) {
    __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func;
    m->func_annotations = dict;
    Py_INCREF(dict);
}

/* RaiseTooManyValuesToUnpack */
    static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) {
    PyErr_Format(PyExc_ValueError,
                 "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected);
}

/* RaiseNeedMoreValuesToUnpack */
    static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) {
    PyErr_Format(PyExc_ValueError,
                 "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack",
                 index, (index == 1) ? "" : "s");
}

/* IterFinish */
    static CYTHON_INLINE int __Pyx_IterFinish(void) {
#if CYTHON_FAST_THREAD_STATE
    PyThreadState *tstate = PyThreadState_GET();
    PyObject* exc_type = tstate->curexc_type;
    if (unlikely(exc_type)) {
        if (likely(exc_type == PyExc_StopIteration) || PyErr_GivenExceptionMatches(exc_type, PyExc_StopIteration)) {
            PyObject *exc_value, *exc_tb;
            exc_value = tstate->curexc_value;
            exc_tb = tstate->curexc_traceback;
            tstate->curexc_type = 0;
            tstate->curexc_value = 0;
            tstate->curexc_traceback = 0;
            Py_DECREF(exc_type);
            Py_XDECREF(exc_value);
            Py_XDECREF(exc_tb);
            return 0;
        } else {
            return -1;
        }
    }
    return 0;
#else
    if (unlikely(PyErr_Occurred())) {
        if (likely(PyErr_ExceptionMatches(PyExc_StopIteration))) {
            PyErr_Clear();
            return 0;
        } else {
            return -1;
        }
    }
    return 0;
#endif
}

/* UnpackItemEndCheck */
    static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected) {
    if (unlikely(retval)) {
        Py_DECREF(retval);
        __Pyx_RaiseTooManyValuesError(expected);
        return -1;
    } else {
        return __Pyx_IterFinish();
    }
    return 0;
}

/* RaiseDoubleKeywords */
    static void __Pyx_RaiseDoubleKeywordsError(
    const char* func_name,
    PyObject* kw_name)
{
    PyErr_Format(PyExc_TypeError,
        #if PY_MAJOR_VERSION >= 3
        "%s() got multiple values for keyword argument '%U'", func_name, kw_name);
        #else
        "%s() got multiple values for keyword argument '%s'", func_name,
        PyString_AsString(kw_name));
        #endif
}

/* ParseKeywords */
    static int __Pyx_ParseOptionalKeywords(
    PyObject *kwds,
    PyObject **argnames[],
    PyObject *kwds2,
    PyObject *values[],
    Py_ssize_t num_pos_args,
    const char* function_name)
{
    PyObject *key = 0, *value = 0;
    Py_ssize_t pos = 0;
    PyObject*** name;
    PyObject*** first_kw_arg = argnames + num_pos_args;
    while (PyDict_Next(kwds, &pos, &key, &value)) {
        name = first_kw_arg;
        while (*name && (**name != key)) name++;
        if (*name) {
            values[name-argnames] = value;
            continue;
        }
        name = first_kw_arg;
        #if PY_MAJOR_VERSION < 3
        if (likely(PyString_CheckExact(key)) || likely(PyString_Check(key))) {
            while (*name) {
                if ((CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**name) == PyString_GET_SIZE(key))
                        && _PyString_Eq(**name, key)) {
                    values[name-argnames] = value;
                    break;
                }
                name++;
            }
            if (*name) continue;
            else {
                PyObject*** argname = argnames;
                while (argname != first_kw_arg) {
                    if ((**argname == key) || (
                            (CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**argname) == PyString_GET_SIZE(key))
                             && _PyString_Eq(**argname, key))) {
                        goto arg_passed_twice;
                    }
                    argname++;
                }
            }
        } else
        #endif
        if (likely(PyUnicode_Check(key))) {
            while (*name) {
                int cmp = (**name == key) ? 0 :
                #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3
                    (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
                #endif
                    PyUnicode_Compare(**name, key);
                if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad;
                if (cmp == 0) {
                    values[name-argnames] = value;
                    break;
                }
                name++;
            }
            if (*name) continue;
            else {
                PyObject*** argname = argnames;
                while (argname != first_kw_arg) {
                    int cmp = (**argname == key) ? 0 :
                    #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3
                        (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
                    #endif
                        PyUnicode_Compare(**argname, key);
                    if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad;
                    if (cmp == 0) goto arg_passed_twice;
                    argname++;
                }
            }
        } else
            goto invalid_keyword_type;
        if (kwds2) {
            if (unlikely(PyDict_SetItem(kwds2, key, value))) goto bad;
        } else {
            goto invalid_keyword;
        }
    }
    return 0;
arg_passed_twice:
    __Pyx_RaiseDoubleKeywordsError(function_name, key);
    goto bad;
invalid_keyword_type:
    PyErr_Format(PyExc_TypeError,
        "%.200s() keywords must be strings", function_name);
    goto bad;
invalid_keyword:
    PyErr_Format(PyExc_TypeError,
    #if PY_MAJOR_VERSION < 3
        "%.200s() got an unexpected keyword argument '%.200s'",
        function_name, PyString_AsString(key));
    #else
        "%s() got an unexpected keyword argument '%U'",
        function_name, key);
    #endif
bad:
    return -1;
}

/* RaiseArgTupleInvalid */
    static void __Pyx_RaiseArgtupleInvalid(
    const char* func_name,
    int exact,
    Py_ssize_t num_min,
    Py_ssize_t num_max,
    Py_ssize_t num_found)
{
    Py_ssize_t num_expected;
    const char *more_or_less;
    if (num_found < num_min) {
        num_expected = num_min;
        more_or_less = "at least";
    } else {
        num_expected = num_max;
        more_or_less = "at most";
    }
    if (exact) {
        more_or_less = "exactly";
    }
    PyErr_Format(PyExc_TypeError,
                 "%.200s() takes %.8s %" CYTHON_FORMAT_SSIZE_T "d positional argument%.1s (%" CYTHON_FORMAT_SSIZE_T "d given)",
                 func_name, more_or_less, num_expected,
                 (num_expected == 1) ? "" : "s", num_found);
}

/* GetModuleGlobalName */
    static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) {
    PyObject *result;
#if !CYTHON_AVOID_BORROWED_REFS
    result = PyDict_GetItem(__pyx_d, name);
    if (likely(result)) {
        Py_INCREF(result);
    } else {
#else
    result = PyObject_GetItem(__pyx_d, name);
    if (!result) {
        PyErr_Clear();
#endif
        result = __Pyx_GetBuiltinName(name);
    }
    return result;
}

/* PyFunctionFastCall */
      #if CYTHON_FAST_PYCALL
#include "frameobject.h"
static PyObject* __Pyx_PyFunction_FastCallNoKw(PyCodeObject *co, PyObject **args, Py_ssize_t na,
                                               PyObject *globals) {
    PyFrameObject *f;
    PyThreadState *tstate = PyThreadState_GET();
    PyObject **fastlocals;
    Py_ssize_t i;
    PyObject *result;
    assert(globals != NULL);
    /* XXX Perhaps we should create a specialized
       PyFrame_New() that doesn't take locals, but does
       take builtins without sanity checking them.
       */
    assert(tstate != NULL);
    f = PyFrame_New(tstate, co, globals, NULL);
    if (f == NULL) {
        return NULL;
    }
    fastlocals = f->f_localsplus;
    for (i = 0; i < na; i++) {
        Py_INCREF(*args);
        fastlocals[i] = *args++;
    }
    result = PyEval_EvalFrameEx(f,0);
    ++tstate->recursion_depth;
    Py_DECREF(f);
    --tstate->recursion_depth;
    return result;
}
#if 1 || PY_VERSION_HEX < 0x030600B1
static PyObject *__Pyx_PyFunction_FastCallDict(PyObject *func, PyObject **args, int nargs, PyObject *kwargs) {
    PyCodeObject *co = (PyCodeObject *)PyFunction_GET_CODE(func);
    PyObject *globals = PyFunction_GET_GLOBALS(func);
    PyObject *argdefs = PyFunction_GET_DEFAULTS(func);
    PyObject *closure;
#if PY_MAJOR_VERSION >= 3
    PyObject *kwdefs;
#endif
    PyObject *kwtuple, **k;
    PyObject **d;
    Py_ssize_t nd;
    Py_ssize_t nk;
    PyObject *result;
    assert(kwargs == NULL || PyDict_Check(kwargs));
    nk = kwargs ? PyDict_Size(kwargs) : 0;
    if (Py_EnterRecursiveCall((char*)" while calling a Python object")) {
        return NULL;
    }
    if (
#if PY_MAJOR_VERSION >= 3
            co->co_kwonlyargcount == 0 &&
#endif
            likely(kwargs == NULL || nk == 0) &&
            co->co_flags == (CO_OPTIMIZED | CO_NEWLOCALS | CO_NOFREE)) {
        if (argdefs == NULL && co->co_argcount == nargs) {
            result = __Pyx_PyFunction_FastCallNoKw(co, args, nargs, globals);
            goto done;
        }
        else if (nargs == 0 && argdefs != NULL
                 && co->co_argcount == Py_SIZE(argdefs)) {
            /* function called with no arguments, but all parameters have
               a default value: use default values as arguments .*/
            args = &PyTuple_GET_ITEM(argdefs, 0);
            result =__Pyx_PyFunction_FastCallNoKw(co, args, Py_SIZE(argdefs), globals);
            goto done;
        }
    }
    if (kwargs != NULL) {
        Py_ssize_t pos, i;
        kwtuple = PyTuple_New(2 * nk);
        if (kwtuple == NULL) {
            result = NULL;
            goto done;
        }
        k = &PyTuple_GET_ITEM(kwtuple, 0);
        pos = i = 0;
        while (PyDict_Next(kwargs, &pos, &k[i], &k[i+1])) {
            Py_INCREF(k[i]);
            Py_INCREF(k[i+1]);
            i += 2;
        }
        nk = i / 2;
    }
    else {
        kwtuple = NULL;
        k = NULL;
    }
    closure = PyFunction_GET_CLOSURE(func);
#if PY_MAJOR_VERSION >= 3
    kwdefs = PyFunction_GET_KW_DEFAULTS(func);
#endif
    if (argdefs != NULL) {
        d = &PyTuple_GET_ITEM(argdefs, 0);
        nd = Py_SIZE(argdefs);
    }
    else {
        d = NULL;
        nd = 0;
    }
#if PY_MAJOR_VERSION >= 3
    result = PyEval_EvalCodeEx((PyObject*)co, globals, (PyObject *)NULL,
                               args, nargs,
                               k, (int)nk,
                               d, (int)nd, kwdefs, closure);
#else
    result = PyEval_EvalCodeEx(co, globals, (PyObject *)NULL,
                               args, nargs,
                               k, (int)nk,
                               d, (int)nd, closure);
#endif
    Py_XDECREF(kwtuple);
done:
    Py_LeaveRecursiveCall();
    return result;
}
#endif  // CPython < 3.6
#endif  // CYTHON_FAST_PYCALL

/* PyCFunctionFastCall */
      #if CYTHON_FAST_PYCCALL
static CYTHON_INLINE PyObject * __Pyx_PyCFunction_FastCall(PyObject *func_obj, PyObject **args, Py_ssize_t nargs) {
    PyCFunctionObject *func = (PyCFunctionObject*)func_obj;
    PyCFunction meth = PyCFunction_GET_FUNCTION(func);
    PyObject *self = PyCFunction_GET_SELF(func);
    assert(PyCFunction_Check(func));
    assert(METH_FASTCALL == (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST)));
    assert(nargs >= 0);
    assert(nargs == 0 || args != NULL);
    /* _PyCFunction_FastCallDict() must not be called with an exception set,
       because it may clear it (directly or indirectly) and so the
       caller loses its exception */
    assert(!PyErr_Occurred());
    return (*((__Pyx_PyCFunctionFast)meth)) (self, args, nargs, NULL);
}
#endif  // CYTHON_FAST_PYCCALL

/* PyObjectCallMethO */
      #if CYTHON_COMPILING_IN_CPYTHON
static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) {
    PyObject *self, *result;
    PyCFunction cfunc;
    cfunc = PyCFunction_GET_FUNCTION(func);
    self = PyCFunction_GET_SELF(func);
    if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object")))
        return NULL;
    result = cfunc(self, arg);
    Py_LeaveRecursiveCall();
    if (unlikely(!result) && unlikely(!PyErr_Occurred())) {
        PyErr_SetString(
            PyExc_SystemError,
            "NULL result without error in PyObject_Call");
    }
    return result;
}
#endif

/* PyObjectCallOneArg */
      #if CYTHON_COMPILING_IN_CPYTHON
static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) {
    PyObject *result;
    PyObject *args = PyTuple_New(1);
    if (unlikely(!args)) return NULL;
    Py_INCREF(arg);
    PyTuple_SET_ITEM(args, 0, arg);
    result = __Pyx_PyObject_Call(func, args, NULL);
    Py_DECREF(args);
    return result;
}
static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) {
#if CYTHON_FAST_PYCALL
    if (PyFunction_Check(func)) {
        return __Pyx_PyFunction_FastCall(func, &arg, 1);
    }
#endif
#ifdef __Pyx_CyFunction_USED
    if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) {
#else
    if (likely(PyCFunction_Check(func))) {
#endif
        if (likely(PyCFunction_GET_FLAGS(func) & METH_O)) {
            return __Pyx_PyObject_CallMethO(func, arg);
#if CYTHON_FAST_PYCCALL
        } else if (PyCFunction_GET_FLAGS(func) & METH_FASTCALL) {
            return __Pyx_PyCFunction_FastCall(func, &arg, 1);
#endif
        }
    }
    return __Pyx__PyObject_CallOneArg(func, arg);
}
#else
static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) {
    PyObject *result;
    PyObject *args = PyTuple_Pack(1, arg);
    if (unlikely(!args)) return NULL;
    result = __Pyx_PyObject_Call(func, args, NULL);
    Py_DECREF(args);
    return result;
}
#endif

/* PyObjectCallNoArg */
        #if CYTHON_COMPILING_IN_CPYTHON
static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func) {
#if CYTHON_FAST_PYCALL
    if (PyFunction_Check(func)) {
        return __Pyx_PyFunction_FastCall(func, NULL, 0);
    }
#endif
#ifdef __Pyx_CyFunction_USED
    if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) {
#else
    if (likely(PyCFunction_Check(func))) {
#endif
        if (likely(PyCFunction_GET_FLAGS(func) & METH_NOARGS)) {
            return __Pyx_PyObject_CallMethO(func, NULL);
        }
    }
    return __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL);
}
#endif

/* PyIntBinop */
          #if !CYTHON_COMPILING_IN_PYPY
static PyObject* __Pyx_PyInt_EqObjC(PyObject *op1, PyObject *op2, CYTHON_UNUSED long intval, CYTHON_UNUSED int inplace) {
    if (op1 == op2) {
        Py_RETURN_TRUE;
    }
    #if PY_MAJOR_VERSION < 3
    if (likely(PyInt_CheckExact(op1))) {
        const long b = intval;
        long a = PyInt_AS_LONG(op1);
        if (a == b) {
            Py_RETURN_TRUE;
        } else {
            Py_RETURN_FALSE;
        }
    }
    #endif
    #if CYTHON_USE_PYLONG_INTERNALS
    if (likely(PyLong_CheckExact(op1))) {
        const long b = intval;
        long a;
        const digit* digits = ((PyLongObject*)op1)->ob_digit;
        const Py_ssize_t size = Py_SIZE(op1);
        if (likely(__Pyx_sst_abs(size) <= 1)) {
            a = likely(size) ? digits[0] : 0;
            if (size == -1) a = -a;
        } else {
            switch (size) {
                case -2:
                    if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) {
                        a = -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]));
                        break;
                    }
                case 2:
                    if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) {
                        a = (long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]));
                        break;
                    }
                case -3:
                    if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) {
                        a = -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]));
                        break;
                    }
                case 3:
                    if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) {
                        a = (long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]));
                        break;
                    }
                case -4:
                    if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) {
                        a = -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]));
                        break;
                    }
                case 4:
                    if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) {
                        a = (long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0]));
                        break;
                    }
                #if PyLong_SHIFT < 30 && PyLong_SHIFT != 15
                default: return PyLong_Type.tp_richcompare(op1, op2, Py_EQ);
                #else
                default: Py_RETURN_FALSE;
                #endif
            }
        }
            if (a == b) {
                Py_RETURN_TRUE;
            } else {
                Py_RETURN_FALSE;
            }
    }
    #endif
    if (PyFloat_CheckExact(op1)) {
        const long b = intval;
        double a = PyFloat_AS_DOUBLE(op1);
            if ((double)a == (double)b) {
                Py_RETURN_TRUE;
            } else {
                Py_RETURN_FALSE;
            }
    }
    return PyObject_RichCompare(op1, op2, Py_EQ);
}
#endif

/* StringJoin */
          #if !CYTHON_COMPILING_IN_CPYTHON
static CYTHON_INLINE PyObject* __Pyx_PyBytes_Join(PyObject* sep, PyObject* values) {
    return PyObject_CallMethodObjArgs(sep, __pyx_n_s_join, values, NULL);
}
#endif

/* ArgTypeTest */
          static void __Pyx_RaiseArgumentTypeInvalid(const char* name, PyObject *obj, PyTypeObject *type) {
    PyErr_Format(PyExc_TypeError,
        "Argument '%.200s' has incorrect type (expected %.200s, got %.200s)",
        name, type->tp_name, Py_TYPE(obj)->tp_name);
}
static CYTHON_INLINE int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed,
    const char *name, int exact)
{
    if (unlikely(!type)) {
        PyErr_SetString(PyExc_SystemError, "Missing type object");
        return 0;
    }
    if (none_allowed && obj == Py_None) return 1;
    else if (exact) {
        if (likely(Py_TYPE(obj) == type)) return 1;
        #if PY_MAJOR_VERSION == 2
        else if ((type == &PyBaseString_Type) && likely(__Pyx_PyBaseString_CheckExact(obj))) return 1;
        #endif
    }
    else {
        if (likely(PyObject_TypeCheck(obj, type))) return 1;
    }
    __Pyx_RaiseArgumentTypeInvalid(name, obj, type);
    return 0;
}

/* pyobject_as_double */
          static double __Pyx__PyObject_AsDouble(PyObject* obj) {
    PyObject* float_value;
#if !CYTHON_USE_TYPE_SLOTS
    float_value = PyNumber_Float(obj);  if (0) goto bad;
#else
    PyNumberMethods *nb = Py_TYPE(obj)->tp_as_number;
    if (likely(nb) && likely(nb->nb_float)) {
        float_value = nb->nb_float(obj);
        if (likely(float_value) && unlikely(!PyFloat_Check(float_value))) {
            PyErr_Format(PyExc_TypeError,
                "__float__ returned non-float (type %.200s)",
                Py_TYPE(float_value)->tp_name);
            Py_DECREF(float_value);
            goto bad;
        }
    } else if (PyUnicode_CheckExact(obj) || PyBytes_CheckExact(obj)) {
#if PY_MAJOR_VERSION >= 3
        float_value = PyFloat_FromString(obj);
#else
        float_value = PyFloat_FromString(obj, 0);
#endif
    } else {
        PyObject* args = PyTuple_New(1);
        if (unlikely(!args)) goto bad;
        PyTuple_SET_ITEM(args, 0, obj);
        float_value = PyObject_Call((PyObject*)&PyFloat_Type, args, 0);
        PyTuple_SET_ITEM(args, 0, 0);
        Py_DECREF(args);
    }
#endif
    if (likely(float_value)) {
        double value = PyFloat_AS_DOUBLE(float_value);
        Py_DECREF(float_value);
        return value;
    }
bad:
    return (double)-1;
}

/* RaiseException */
          #if PY_MAJOR_VERSION < 3
static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb,
                        CYTHON_UNUSED PyObject *cause) {
    __Pyx_PyThreadState_declare
    Py_XINCREF(type);
    if (!value || value == Py_None)
        value = NULL;
    else
        Py_INCREF(value);
    if (!tb || tb == Py_None)
        tb = NULL;
    else {
        Py_INCREF(tb);
        if (!PyTraceBack_Check(tb)) {
            PyErr_SetString(PyExc_TypeError,
                "raise: arg 3 must be a traceback or None");
            goto raise_error;
        }
    }
    if (PyType_Check(type)) {
#if CYTHON_COMPILING_IN_PYPY
        if (!value) {
            Py_INCREF(Py_None);
            value = Py_None;
        }
#endif
        PyErr_NormalizeException(&type, &value, &tb);
    } else {
        if (value) {
            PyErr_SetString(PyExc_TypeError,
                "instance exception may not have a separate value");
            goto raise_error;
        }
        value = type;
        type = (PyObject*) Py_TYPE(type);
        Py_INCREF(type);
        if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) {
            PyErr_SetString(PyExc_TypeError,
                "raise: exception class must be a subclass of BaseException");
            goto raise_error;
        }
    }
    __Pyx_PyThreadState_assign
    __Pyx_ErrRestore(type, value, tb);
    return;
raise_error:
    Py_XDECREF(value);
    Py_XDECREF(type);
    Py_XDECREF(tb);
    return;
}
#else
static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) {
    PyObject* owned_instance = NULL;
    if (tb == Py_None) {
        tb = 0;
    } else if (tb && !PyTraceBack_Check(tb)) {
        PyErr_SetString(PyExc_TypeError,
            "raise: arg 3 must be a traceback or None");
        goto bad;
    }
    if (value == Py_None)
        value = 0;
    if (PyExceptionInstance_Check(type)) {
        if (value) {
            PyErr_SetString(PyExc_TypeError,
                "instance exception may not have a separate value");
            goto bad;
        }
        value = type;
        type = (PyObject*) Py_TYPE(value);
    } else if (PyExceptionClass_Check(type)) {
        PyObject *instance_class = NULL;
        if (value && PyExceptionInstance_Check(value)) {
            instance_class = (PyObject*) Py_TYPE(value);
            if (instance_class != type) {
                int is_subclass = PyObject_IsSubclass(instance_class, type);
                if (!is_subclass) {
                    instance_class = NULL;
                } else if (unlikely(is_subclass == -1)) {
                    goto bad;
                } else {
                    type = instance_class;
                }
            }
        }
        if (!instance_class) {
            PyObject *args;
            if (!value)
                args = PyTuple_New(0);
            else if (PyTuple_Check(value)) {
                Py_INCREF(value);
                args = value;
            } else
                args = PyTuple_Pack(1, value);
            if (!args)
                goto bad;
            owned_instance = PyObject_Call(type, args, NULL);
            Py_DECREF(args);
            if (!owned_instance)
                goto bad;
            value = owned_instance;
            if (!PyExceptionInstance_Check(value)) {
                PyErr_Format(PyExc_TypeError,
                             "calling %R should have returned an instance of "
                             "BaseException, not %R",
                             type, Py_TYPE(value));
                goto bad;
            }
        }
    } else {
        PyErr_SetString(PyExc_TypeError,
            "raise: exception class must be a subclass of BaseException");
        goto bad;
    }
#if PY_VERSION_HEX >= 0x03030000
    if (cause) {
#else
    if (cause && cause != Py_None) {
#endif
        PyObject *fixed_cause;
        if (cause == Py_None) {
            fixed_cause = NULL;
        } else if (PyExceptionClass_Check(cause)) {
            fixed_cause = PyObject_CallObject(cause, NULL);
            if (fixed_cause == NULL)
                goto bad;
        } else if (PyExceptionInstance_Check(cause)) {
            fixed_cause = cause;
            Py_INCREF(fixed_cause);
        } else {
            PyErr_SetString(PyExc_TypeError,
                            "exception causes must derive from "
                            "BaseException");
            goto bad;
        }
        PyException_SetCause(value, fixed_cause);
    }
    PyErr_SetObject(type, value);
    if (tb) {
#if CYTHON_COMPILING_IN_PYPY
        PyObject *tmp_type, *tmp_value, *tmp_tb;
        PyErr_Fetch(&tmp_type, &tmp_value, &tmp_tb);
        Py_INCREF(tb);
        PyErr_Restore(tmp_type, tmp_value, tb);
        Py_XDECREF(tmp_tb);
#else
        PyThreadState *tstate = PyThreadState_GET();
        PyObject* tmp_tb = tstate->curexc_traceback;
        if (tb != tmp_tb) {
            Py_INCREF(tb);
            tstate->curexc_traceback = tb;
            Py_XDECREF(tmp_tb);
        }
#endif
    }
bad:
    Py_XDECREF(owned_instance);
    return;
}
#endif

/* SaveResetException */
            #if CYTHON_FAST_THREAD_STATE
static CYTHON_INLINE void __Pyx__ExceptionSave(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) {
    *type = tstate->exc_type;
    *value = tstate->exc_value;
    *tb = tstate->exc_traceback;
    Py_XINCREF(*type);
    Py_XINCREF(*value);
    Py_XINCREF(*tb);
}
static CYTHON_INLINE void __Pyx__ExceptionReset(PyThreadState *tstate, PyObject *type, PyObject *value, PyObject *tb) {
    PyObject *tmp_type, *tmp_value, *tmp_tb;
    tmp_type = tstate->exc_type;
    tmp_value = tstate->exc_value;
    tmp_tb = tstate->exc_traceback;
    tstate->exc_type = type;
    tstate->exc_value = value;
    tstate->exc_traceback = tb;
    Py_XDECREF(tmp_type);
    Py_XDECREF(tmp_value);
    Py_XDECREF(tmp_tb);
}
#endif

/* PyErrExceptionMatches */
            #if CYTHON_FAST_THREAD_STATE
static CYTHON_INLINE int __Pyx_PyErr_ExceptionMatchesInState(PyThreadState* tstate, PyObject* err) {
    PyObject *exc_type = tstate->curexc_type;
    if (exc_type == err) return 1;
    if (unlikely(!exc_type)) return 0;
    return PyErr_GivenExceptionMatches(exc_type, err);
}
#endif

/* GetException */
            #if CYTHON_FAST_THREAD_STATE
static int __Pyx__GetException(PyThreadState *tstate, PyObject **type, PyObject **value, PyObject **tb) {
#else
static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) {
#endif
    PyObject *local_type, *local_value, *local_tb;
#if CYTHON_FAST_THREAD_STATE
    PyObject *tmp_type, *tmp_value, *tmp_tb;
    local_type = tstate->curexc_type;
    local_value = tstate->curexc_value;
    local_tb = tstate->curexc_traceback;
    tstate->curexc_type = 0;
    tstate->curexc_value = 0;
    tstate->curexc_traceback = 0;
#else
    PyErr_Fetch(&local_type, &local_value, &local_tb);
#endif
    PyErr_NormalizeException(&local_type, &local_value, &local_tb);
#if CYTHON_FAST_THREAD_STATE
    if (unlikely(tstate->curexc_type))
#else
    if (unlikely(PyErr_Occurred()))
#endif
        goto bad;
    #if PY_MAJOR_VERSION >= 3
    if (local_tb) {
        if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0))
            goto bad;
    }
    #endif
    Py_XINCREF(local_tb);
    Py_XINCREF(local_type);
    Py_XINCREF(local_value);
    *type = local_type;
    *value = local_value;
    *tb = local_tb;
#if CYTHON_FAST_THREAD_STATE
    tmp_type = tstate->exc_type;
    tmp_value = tstate->exc_value;
    tmp_tb = tstate->exc_traceback;
    tstate->exc_type = local_type;
    tstate->exc_value = local_value;
    tstate->exc_traceback = local_tb;
    Py_XDECREF(tmp_type);
    Py_XDECREF(tmp_value);
    Py_XDECREF(tmp_tb);
#else
    PyErr_SetExcInfo(local_type, local_value, local_tb);
#endif
    return 0;
bad:
    *type = 0;
    *value = 0;
    *tb = 0;
    Py_XDECREF(local_type);
    Py_XDECREF(local_value);
    Py_XDECREF(local_tb);
    return -1;
}

/* GetVTable */
              static void* __Pyx_GetVtable(PyObject *dict) {
    void* ptr;
    PyObject *ob = PyObject_GetItem(dict, __pyx_n_s_pyx_vtable);
    if (!ob)
        goto bad;
#if PY_VERSION_HEX >= 0x02070000
    ptr = PyCapsule_GetPointer(ob, 0);
#else
    ptr = PyCObject_AsVoidPtr(ob);
#endif
    if (!ptr && !PyErr_Occurred())
        PyErr_SetString(PyExc_RuntimeError, "invalid vtable found for imported type");
    Py_DECREF(ob);
    return ptr;
bad:
    Py_XDECREF(ob);
    return NULL;
}

/* Import */
              static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) {
    PyObject *empty_list = 0;
    PyObject *module = 0;
    PyObject *global_dict = 0;
    PyObject *empty_dict = 0;
    PyObject *list;
    #if PY_VERSION_HEX < 0x03030000
    PyObject *py_import;
    py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import);
    if (!py_import)
        goto bad;
    #endif
    if (from_list)
        list = from_list;
    else {
        empty_list = PyList_New(0);
        if (!empty_list)
            goto bad;
        list = empty_list;
    }
    global_dict = PyModule_GetDict(__pyx_m);
    if (!global_dict)
        goto bad;
    empty_dict = PyDict_New();
    if (!empty_dict)
        goto bad;
    {
        #if PY_MAJOR_VERSION >= 3
        if (level == -1) {
            if (strchr(__Pyx_MODULE_NAME, '.')) {
                #if PY_VERSION_HEX < 0x03030000
                PyObject *py_level = PyInt_FromLong(1);
                if (!py_level)
                    goto bad;
                module = PyObject_CallFunctionObjArgs(py_import,
                    name, global_dict, empty_dict, list, py_level, NULL);
                Py_DECREF(py_level);
                #else
                module = PyImport_ImportModuleLevelObject(
                    name, global_dict, empty_dict, list, 1);
                #endif
                if (!module) {
                    if (!PyErr_ExceptionMatches(PyExc_ImportError))
                        goto bad;
                    PyErr_Clear();
                }
            }
            level = 0;
        }
        #endif
        if (!module) {
            #if PY_VERSION_HEX < 0x03030000
            PyObject *py_level = PyInt_FromLong(level);
            if (!py_level)
                goto bad;
            module = PyObject_CallFunctionObjArgs(py_import,
                name, global_dict, empty_dict, list, py_level, NULL);
            Py_DECREF(py_level);
            #else
            module = PyImport_ImportModuleLevelObject(
                name, global_dict, empty_dict, list, level);
            #endif
        }
    }
bad:
    #if PY_VERSION_HEX < 0x03030000
    Py_XDECREF(py_import);
    #endif
    Py_XDECREF(empty_list);
    Py_XDECREF(empty_dict);
    return module;
}

/* CodeObjectCache */
              static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) {
    int start = 0, mid = 0, end = count - 1;
    if (end >= 0 && code_line > entries[end].code_line) {
        return count;
    }
    while (start < end) {
        mid = start + (end - start) / 2;
        if (code_line < entries[mid].code_line) {
            end = mid;
        } else if (code_line > entries[mid].code_line) {
             start = mid + 1;
        } else {
            return mid;
        }
    }
    if (code_line <= entries[mid].code_line) {
        return mid;
    } else {
        return mid + 1;
    }
}
static PyCodeObject *__pyx_find_code_object(int code_line) {
    PyCodeObject* code_object;
    int pos;
    if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) {
        return NULL;
    }
    pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line);
    if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) {
        return NULL;
    }
    code_object = __pyx_code_cache.entries[pos].code_object;
    Py_INCREF(code_object);
    return code_object;
}
static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) {
    int pos, i;
    __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries;
    if (unlikely(!code_line)) {
        return;
    }
    if (unlikely(!entries)) {
        entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry));
        if (likely(entries)) {
            __pyx_code_cache.entries = entries;
            __pyx_code_cache.max_count = 64;
            __pyx_code_cache.count = 1;
            entries[0].code_line = code_line;
            entries[0].code_object = code_object;
            Py_INCREF(code_object);
        }
        return;
    }
    pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line);
    if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) {
        PyCodeObject* tmp = entries[pos].code_object;
        entries[pos].code_object = code_object;
        Py_DECREF(tmp);
        return;
    }
    if (__pyx_code_cache.count == __pyx_code_cache.max_count) {
        int new_max = __pyx_code_cache.max_count + 64;
        entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc(
            __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry));
        if (unlikely(!entries)) {
            return;
        }
        __pyx_code_cache.entries = entries;
        __pyx_code_cache.max_count = new_max;
    }
    for (i=__pyx_code_cache.count; i>pos; i--) {
        entries[i] = entries[i-1];
    }
    entries[pos].code_line = code_line;
    entries[pos].code_object = code_object;
    __pyx_code_cache.count++;
    Py_INCREF(code_object);
}

/* AddTraceback */
              #include "compile.h"
#include "frameobject.h"
#include "traceback.h"
static PyCodeObject* __Pyx_CreateCodeObjectForTraceback(
            const char *funcname, int c_line,
            int py_line, const char *filename) {
    PyCodeObject *py_code = 0;
    PyObject *py_srcfile = 0;
    PyObject *py_funcname = 0;
    #if PY_MAJOR_VERSION < 3
    py_srcfile = PyString_FromString(filename);
    #else
    py_srcfile = PyUnicode_FromString(filename);
    #endif
    if (!py_srcfile) goto bad;
    if (c_line) {
        #if PY_MAJOR_VERSION < 3
        py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line);
        #else
        py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line);
        #endif
    }
    else {
        #if PY_MAJOR_VERSION < 3
        py_funcname = PyString_FromString(funcname);
        #else
        py_funcname = PyUnicode_FromString(funcname);
        #endif
    }
    if (!py_funcname) goto bad;
    py_code = __Pyx_PyCode_New(
        0,
        0,
        0,
        0,
        0,
        __pyx_empty_bytes, /*PyObject *code,*/
        __pyx_empty_tuple, /*PyObject *consts,*/
        __pyx_empty_tuple, /*PyObject *names,*/
        __pyx_empty_tuple, /*PyObject *varnames,*/
        __pyx_empty_tuple, /*PyObject *freevars,*/
        __pyx_empty_tuple, /*PyObject *cellvars,*/
        py_srcfile,   /*PyObject *filename,*/
        py_funcname,  /*PyObject *name,*/
        py_line,
        __pyx_empty_bytes  /*PyObject *lnotab*/
    );
    Py_DECREF(py_srcfile);
    Py_DECREF(py_funcname);
    return py_code;
bad:
    Py_XDECREF(py_srcfile);
    Py_XDECREF(py_funcname);
    return NULL;
}
static void __Pyx_AddTraceback(const char *funcname, int c_line,
                               int py_line, const char *filename) {
    PyCodeObject *py_code = 0;
    PyFrameObject *py_frame = 0;
    py_code = __pyx_find_code_object(c_line ? c_line : py_line);
    if (!py_code) {
        py_code = __Pyx_CreateCodeObjectForTraceback(
            funcname, c_line, py_line, filename);
        if (!py_code) goto bad;
        __pyx_insert_code_object(c_line ? c_line : py_line, py_code);
    }
    py_frame = PyFrame_New(
        PyThreadState_GET(), /*PyThreadState *tstate,*/
        py_code,             /*PyCodeObject *code,*/
        __pyx_d,      /*PyObject *globals,*/
        0                    /*PyObject *locals*/
    );
    if (!py_frame) goto bad;
    __Pyx_PyFrame_SetLineNumber(py_frame, py_line);
    PyTraceBack_Here(py_frame);
bad:
    Py_XDECREF(py_code);
    Py_XDECREF(py_frame);
}

/* CIntFromPyVerify */
              #define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value)\
    __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 0)
#define __PYX_VERIFY_RETURN_INT_EXC(target_type, func_type, func_value)\
    __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, 1)
#define __PYX__VERIFY_RETURN_INT(target_type, func_type, func_value, exc)\
    {\
        func_type value = func_value;\
        if (sizeof(target_type) < sizeof(func_type)) {\
            if (unlikely(value != (func_type) (target_type) value)) {\
                func_type zero = 0;\
                if (exc && unlikely(value == (func_type)-1 && PyErr_Occurred()))\
                    return (target_type) -1;\
                if (is_unsigned && unlikely(value < zero))\
                    goto raise_neg_overflow;\
                else\
                    goto raise_overflow;\
            }\
        }\
        return (target_type) value;\
    }

/* CIntToPy */
              static CYTHON_INLINE PyObject* __Pyx_PyInt_From_unsigned_int(unsigned int value) {
    const unsigned int neg_one = (unsigned int) -1, const_zero = (unsigned int) 0;
    const int is_unsigned = neg_one > const_zero;
    if (is_unsigned) {
        if (sizeof(unsigned int) < sizeof(long)) {
            return PyInt_FromLong((long) value);
        } else if (sizeof(unsigned int) <= sizeof(unsigned long)) {
            return PyLong_FromUnsignedLong((unsigned long) value);
#ifdef HAVE_LONG_LONG
        } else if (sizeof(unsigned int) <= sizeof(unsigned PY_LONG_LONG)) {
            return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value);
#endif
        }
    } else {
        if (sizeof(unsigned int) <= sizeof(long)) {
            return PyInt_FromLong((long) value);
#ifdef HAVE_LONG_LONG
        } else if (sizeof(unsigned int) <= sizeof(PY_LONG_LONG)) {
            return PyLong_FromLongLong((PY_LONG_LONG) value);
#endif
        }
    }
    {
        int one = 1; int little = (int)*(unsigned char *)&one;
        unsigned char *bytes = (unsigned char *)&value;
        return _PyLong_FromByteArray(bytes, sizeof(unsigned int),
                                     little, !is_unsigned);
    }
}

/* CIntToPy */
              static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) {
    const long neg_one = (long) -1, const_zero = (long) 0;
    const int is_unsigned = neg_one > const_zero;
    if (is_unsigned) {
        if (sizeof(long) < sizeof(long)) {
            return PyInt_FromLong((long) value);
        } else if (sizeof(long) <= sizeof(unsigned long)) {
            return PyLong_FromUnsignedLong((unsigned long) value);
#ifdef HAVE_LONG_LONG
        } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) {
            return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value);
#endif
        }
    } else {
        if (sizeof(long) <= sizeof(long)) {
            return PyInt_FromLong((long) value);
#ifdef HAVE_LONG_LONG
        } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) {
            return PyLong_FromLongLong((PY_LONG_LONG) value);
#endif
        }
    }
    {
        int one = 1; int little = (int)*(unsigned char *)&one;
        unsigned char *bytes = (unsigned char *)&value;
        return _PyLong_FromByteArray(bytes, sizeof(long),
                                     little, !is_unsigned);
    }
}

/* CIntToPy */
              static CYTHON_INLINE PyObject* __Pyx_PyInt_From_char(char value) {
    const char neg_one = (char) -1, const_zero = (char) 0;
    const int is_unsigned = neg_one > const_zero;
    if (is_unsigned) {
        if (sizeof(char) < sizeof(long)) {
            return PyInt_FromLong((long) value);
        } else if (sizeof(char) <= sizeof(unsigned long)) {
            return PyLong_FromUnsignedLong((unsigned long) value);
#ifdef HAVE_LONG_LONG
        } else if (sizeof(char) <= sizeof(unsigned PY_LONG_LONG)) {
            return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value);
#endif
        }
    } else {
        if (sizeof(char) <= sizeof(long)) {
            return PyInt_FromLong((long) value);
#ifdef HAVE_LONG_LONG
        } else if (sizeof(char) <= sizeof(PY_LONG_LONG)) {
            return PyLong_FromLongLong((PY_LONG_LONG) value);
#endif
        }
    }
    {
        int one = 1; int little = (int)*(unsigned char *)&one;
        unsigned char *bytes = (unsigned char *)&value;
        return _PyLong_FromByteArray(bytes, sizeof(char),
                                     little, !is_unsigned);
    }
}

/* CIntToPy */
              static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) {
    const int neg_one = (int) -1, const_zero = (int) 0;
    const int is_unsigned = neg_one > const_zero;
    if (is_unsigned) {
        if (sizeof(int) < sizeof(long)) {
            return PyInt_FromLong((long) value);
        } else if (sizeof(int) <= sizeof(unsigned long)) {
            return PyLong_FromUnsignedLong((unsigned long) value);
#ifdef HAVE_LONG_LONG
        } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) {
            return PyLong_FromUnsignedLongLong((unsigned PY_LONG_LONG) value);
#endif
        }
    } else {
        if (sizeof(int) <= sizeof(long)) {
            return PyInt_FromLong((long) value);
#ifdef HAVE_LONG_LONG
        } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) {
            return PyLong_FromLongLong((PY_LONG_LONG) value);
#endif
        }
    }
    {
        int one = 1; int little = (int)*(unsigned char *)&one;
        unsigned char *bytes = (unsigned char *)&value;
        return _PyLong_FromByteArray(bytes, sizeof(int),
                                     little, !is_unsigned);
    }
}

static PyObject* __pyx_convert__to_py_struct__KTfwd_3a__3a_data_matrix(struct KTfwd::data_matrix s) {
                PyObject* res;
                PyObject* member;
                res = PyDict_New(); if (unlikely(!res)) return NULL;
                member = __pyx_convert_vector_to_py_char(s.neutral); if (unlikely(!member)) goto bad;
                if (unlikely(PyDict_SetItem(res, __pyx_n_s_neutral, member) < 0)) goto bad;
                Py_DECREF(member);
                member = __pyx_convert_vector_to_py_char(s.selected); if (unlikely(!member)) goto bad;
                if (unlikely(PyDict_SetItem(res, __pyx_n_s_selected, member) < 0)) goto bad;
                Py_DECREF(member);
                member = __pyx_convert_vector_to_py_double(s.neutral_positions); if (unlikely(!member)) goto bad;
                if (unlikely(PyDict_SetItem(res, __pyx_n_s_neutral_positions, member) < 0)) goto bad;
                Py_DECREF(member);
                member = __pyx_convert_vector_to_py_double(s.selected_positions); if (unlikely(!member)) goto bad;
                if (unlikely(PyDict_SetItem(res, __pyx_n_s_selected_positions, member) < 0)) goto bad;
                Py_DECREF(member);
                member = __pyx_convert_vector_to_py_double(s.neutral_popfreq); if (unlikely(!member)) goto bad;
                if (unlikely(PyDict_SetItem(res, __pyx_n_s_neutral_popfreq, member) < 0)) goto bad;
                Py_DECREF(member);
                member = __pyx_convert_vector_to_py_double(s.selected_popfreq); if (unlikely(!member)) goto bad;
                if (unlikely(PyDict_SetItem(res, __pyx_n_s_selected_popfreq, member) < 0)) goto bad;
                Py_DECREF(member);
                member = __Pyx_PyInt_FromSize_t(s.nrow); if (unlikely(!member)) goto bad;
                if (unlikely(PyDict_SetItem(res, __pyx_n_s_nrow, member) < 0)) goto bad;
                Py_DECREF(member);
                return res;
                bad:
                Py_XDECREF(member);
                Py_DECREF(res);
                return NULL;
              }
              /* CIntFromPy */
              static CYTHON_INLINE char __Pyx_PyInt_As_char(PyObject *x) {
    const char neg_one = (char) -1, const_zero = (char) 0;
    const int is_unsigned = neg_one > const_zero;
#if PY_MAJOR_VERSION < 3
    if (likely(PyInt_Check(x))) {
        if (sizeof(char) < sizeof(long)) {
            __PYX_VERIFY_RETURN_INT(char, long, PyInt_AS_LONG(x))
        } else {
            long val = PyInt_AS_LONG(x);
            if (is_unsigned && unlikely(val < 0)) {
                goto raise_neg_overflow;
            }
            return (char) val;
        }
    } else
#endif
    if (likely(PyLong_Check(x))) {
        if (is_unsigned) {
#if CYTHON_USE_PYLONG_INTERNALS
            const digit* digits = ((PyLongObject*)x)->ob_digit;
            switch (Py_SIZE(x)) {
                case  0: return (char) 0;
                case  1: __PYX_VERIFY_RETURN_INT(char, digit, digits[0])
                case 2:
                    if (8 * sizeof(char) > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(char) >= 2 * PyLong_SHIFT) {
                            return (char) (((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0]));
                        }
                    }
                    break;
                case 3:
                    if (8 * sizeof(char) > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(char) >= 3 * PyLong_SHIFT) {
                            return (char) (((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]));
                        }
                    }
                    break;
                case 4:
                    if (8 * sizeof(char) > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(char) >= 4 * PyLong_SHIFT) {
                            return (char) (((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0]));
                        }
                    }
                    break;
            }
#endif
#if CYTHON_COMPILING_IN_CPYTHON
            if (unlikely(Py_SIZE(x) < 0)) {
                goto raise_neg_overflow;
            }
#else
            {
                int result = PyObject_RichCompareBool(x, Py_False, Py_LT);
                if (unlikely(result < 0))
                    return (char) -1;
                if (unlikely(result == 1))
                    goto raise_neg_overflow;
            }
#endif
            if (sizeof(char) <= sizeof(unsigned long)) {
                __PYX_VERIFY_RETURN_INT_EXC(char, unsigned long, PyLong_AsUnsignedLong(x))
#ifdef HAVE_LONG_LONG
            } else if (sizeof(char) <= sizeof(unsigned PY_LONG_LONG)) {
                __PYX_VERIFY_RETURN_INT_EXC(char, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x))
#endif
            }
        } else {
#if CYTHON_USE_PYLONG_INTERNALS
            const digit* digits = ((PyLongObject*)x)->ob_digit;
            switch (Py_SIZE(x)) {
                case  0: return (char) 0;
                case -1: __PYX_VERIFY_RETURN_INT(char, sdigit, (sdigit) (-(sdigit)digits[0]))
                case  1: __PYX_VERIFY_RETURN_INT(char,  digit, +digits[0])
                case -2:
                    if (8 * sizeof(char) - 1 > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) {
                            return (char) (((char)-1)*(((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0])));
                        }
                    }
                    break;
                case 2:
                    if (8 * sizeof(char) > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) {
                            return (char) ((((((char)digits[1]) << PyLong_SHIFT) | (char)digits[0])));
                        }
                    }
                    break;
                case -3:
                    if (8 * sizeof(char) - 1 > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) {
                            return (char) (((char)-1)*(((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])));
                        }
                    }
                    break;
                case 3:
                    if (8 * sizeof(char) > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) {
                            return (char) ((((((((char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])));
                        }
                    }
                    break;
                case -4:
                    if (8 * sizeof(char) - 1 > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(char, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) {
                            return (char) (((char)-1)*(((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])));
                        }
                    }
                    break;
                case 4:
                    if (8 * sizeof(char) > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(char, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(char) - 1 > 4 * PyLong_SHIFT) {
                            return (char) ((((((((((char)digits[3]) << PyLong_SHIFT) | (char)digits[2]) << PyLong_SHIFT) | (char)digits[1]) << PyLong_SHIFT) | (char)digits[0])));
                        }
                    }
                    break;
            }
#endif
            if (sizeof(char) <= sizeof(long)) {
                __PYX_VERIFY_RETURN_INT_EXC(char, long, PyLong_AsLong(x))
#ifdef HAVE_LONG_LONG
            } else if (sizeof(char) <= sizeof(PY_LONG_LONG)) {
                __PYX_VERIFY_RETURN_INT_EXC(char, PY_LONG_LONG, PyLong_AsLongLong(x))
#endif
            }
        }
        {
#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray)
            PyErr_SetString(PyExc_RuntimeError,
                            "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers");
#else
            char val;
            PyObject *v = __Pyx_PyNumber_IntOrLong(x);
 #if PY_MAJOR_VERSION < 3
            if (likely(v) && !PyLong_Check(v)) {
                PyObject *tmp = v;
                v = PyNumber_Long(tmp);
                Py_DECREF(tmp);
            }
 #endif
            if (likely(v)) {
                int one = 1; int is_little = (int)*(unsigned char *)&one;
                unsigned char *bytes = (unsigned char *)&val;
                int ret = _PyLong_AsByteArray((PyLongObject *)v,
                                              bytes, sizeof(val),
                                              is_little, !is_unsigned);
                Py_DECREF(v);
                if (likely(!ret))
                    return val;
            }
#endif
            return (char) -1;
        }
    } else {
        char val;
        PyObject *tmp = __Pyx_PyNumber_IntOrLong(x);
        if (!tmp) return (char) -1;
        val = __Pyx_PyInt_As_char(tmp);
        Py_DECREF(tmp);
        return val;
    }
raise_overflow:
    PyErr_SetString(PyExc_OverflowError,
        "value too large to convert to char");
    return (char) -1;
raise_neg_overflow:
    PyErr_SetString(PyExc_OverflowError,
        "can't convert negative value to char");
    return (char) -1;
}

/* CIntFromPy */
              static CYTHON_INLINE size_t __Pyx_PyInt_As_size_t(PyObject *x) {
    const size_t neg_one = (size_t) -1, const_zero = (size_t) 0;
    const int is_unsigned = neg_one > const_zero;
#if PY_MAJOR_VERSION < 3
    if (likely(PyInt_Check(x))) {
        if (sizeof(size_t) < sizeof(long)) {
            __PYX_VERIFY_RETURN_INT(size_t, long, PyInt_AS_LONG(x))
        } else {
            long val = PyInt_AS_LONG(x);
            if (is_unsigned && unlikely(val < 0)) {
                goto raise_neg_overflow;
            }
            return (size_t) val;
        }
    } else
#endif
    if (likely(PyLong_Check(x))) {
        if (is_unsigned) {
#if CYTHON_USE_PYLONG_INTERNALS
            const digit* digits = ((PyLongObject*)x)->ob_digit;
            switch (Py_SIZE(x)) {
                case  0: return (size_t) 0;
                case  1: __PYX_VERIFY_RETURN_INT(size_t, digit, digits[0])
                case 2:
                    if (8 * sizeof(size_t) > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(size_t) >= 2 * PyLong_SHIFT) {
                            return (size_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]));
                        }
                    }
                    break;
                case 3:
                    if (8 * sizeof(size_t) > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(size_t) >= 3 * PyLong_SHIFT) {
                            return (size_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]));
                        }
                    }
                    break;
                case 4:
                    if (8 * sizeof(size_t) > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(size_t) >= 4 * PyLong_SHIFT) {
                            return (size_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]));
                        }
                    }
                    break;
            }
#endif
#if CYTHON_COMPILING_IN_CPYTHON
            if (unlikely(Py_SIZE(x) < 0)) {
                goto raise_neg_overflow;
            }
#else
            {
                int result = PyObject_RichCompareBool(x, Py_False, Py_LT);
                if (unlikely(result < 0))
                    return (size_t) -1;
                if (unlikely(result == 1))
                    goto raise_neg_overflow;
            }
#endif
            if (sizeof(size_t) <= sizeof(unsigned long)) {
                __PYX_VERIFY_RETURN_INT_EXC(size_t, unsigned long, PyLong_AsUnsignedLong(x))
#ifdef HAVE_LONG_LONG
            } else if (sizeof(size_t) <= sizeof(unsigned PY_LONG_LONG)) {
                __PYX_VERIFY_RETURN_INT_EXC(size_t, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x))
#endif
            }
        } else {
#if CYTHON_USE_PYLONG_INTERNALS
            const digit* digits = ((PyLongObject*)x)->ob_digit;
            switch (Py_SIZE(x)) {
                case  0: return (size_t) 0;
                case -1: __PYX_VERIFY_RETURN_INT(size_t, sdigit, (sdigit) (-(sdigit)digits[0]))
                case  1: __PYX_VERIFY_RETURN_INT(size_t,  digit, +digits[0])
                case -2:
                    if (8 * sizeof(size_t) - 1 > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(size_t, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(size_t) - 1 > 2 * PyLong_SHIFT) {
                            return (size_t) (((size_t)-1)*(((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])));
                        }
                    }
                    break;
                case 2:
                    if (8 * sizeof(size_t) > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(size_t) - 1 > 2 * PyLong_SHIFT) {
                            return (size_t) ((((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])));
                        }
                    }
                    break;
                case -3:
                    if (8 * sizeof(size_t) - 1 > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(size_t, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(size_t) - 1 > 3 * PyLong_SHIFT) {
                            return (size_t) (((size_t)-1)*(((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])));
                        }
                    }
                    break;
                case 3:
                    if (8 * sizeof(size_t) > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(size_t) - 1 > 3 * PyLong_SHIFT) {
                            return (size_t) ((((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])));
                        }
                    }
                    break;
                case -4:
                    if (8 * sizeof(size_t) - 1 > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(size_t, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(size_t) - 1 > 4 * PyLong_SHIFT) {
                            return (size_t) (((size_t)-1)*(((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])));
                        }
                    }
                    break;
                case 4:
                    if (8 * sizeof(size_t) > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(size_t, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(size_t) - 1 > 4 * PyLong_SHIFT) {
                            return (size_t) ((((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0])));
                        }
                    }
                    break;
            }
#endif
            if (sizeof(size_t) <= sizeof(long)) {
                __PYX_VERIFY_RETURN_INT_EXC(size_t, long, PyLong_AsLong(x))
#ifdef HAVE_LONG_LONG
            } else if (sizeof(size_t) <= sizeof(PY_LONG_LONG)) {
                __PYX_VERIFY_RETURN_INT_EXC(size_t, PY_LONG_LONG, PyLong_AsLongLong(x))
#endif
            }
        }
        {
#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray)
            PyErr_SetString(PyExc_RuntimeError,
                            "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers");
#else
            size_t val;
            PyObject *v = __Pyx_PyNumber_IntOrLong(x);
 #if PY_MAJOR_VERSION < 3
            if (likely(v) && !PyLong_Check(v)) {
                PyObject *tmp = v;
                v = PyNumber_Long(tmp);
                Py_DECREF(tmp);
            }
 #endif
            if (likely(v)) {
                int one = 1; int is_little = (int)*(unsigned char *)&one;
                unsigned char *bytes = (unsigned char *)&val;
                int ret = _PyLong_AsByteArray((PyLongObject *)v,
                                              bytes, sizeof(val),
                                              is_little, !is_unsigned);
                Py_DECREF(v);
                if (likely(!ret))
                    return val;
            }
#endif
            return (size_t) -1;
        }
    } else {
        size_t val;
        PyObject *tmp = __Pyx_PyNumber_IntOrLong(x);
        if (!tmp) return (size_t) -1;
        val = __Pyx_PyInt_As_size_t(tmp);
        Py_DECREF(tmp);
        return val;
    }
raise_overflow:
    PyErr_SetString(PyExc_OverflowError,
        "value too large to convert to size_t");
    return (size_t) -1;
raise_neg_overflow:
    PyErr_SetString(PyExc_OverflowError,
        "can't convert negative value to size_t");
    return (size_t) -1;
}

/* CIntFromPy */
              static CYTHON_INLINE unsigned int __Pyx_PyInt_As_unsigned_int(PyObject *x) {
    const unsigned int neg_one = (unsigned int) -1, const_zero = (unsigned int) 0;
    const int is_unsigned = neg_one > const_zero;
#if PY_MAJOR_VERSION < 3
    if (likely(PyInt_Check(x))) {
        if (sizeof(unsigned int) < sizeof(long)) {
            __PYX_VERIFY_RETURN_INT(unsigned int, long, PyInt_AS_LONG(x))
        } else {
            long val = PyInt_AS_LONG(x);
            if (is_unsigned && unlikely(val < 0)) {
                goto raise_neg_overflow;
            }
            return (unsigned int) val;
        }
    } else
#endif
    if (likely(PyLong_Check(x))) {
        if (is_unsigned) {
#if CYTHON_USE_PYLONG_INTERNALS
            const digit* digits = ((PyLongObject*)x)->ob_digit;
            switch (Py_SIZE(x)) {
                case  0: return (unsigned int) 0;
                case  1: __PYX_VERIFY_RETURN_INT(unsigned int, digit, digits[0])
                case 2:
                    if (8 * sizeof(unsigned int) > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(unsigned int) >= 2 * PyLong_SHIFT) {
                            return (unsigned int) (((((unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0]));
                        }
                    }
                    break;
                case 3:
                    if (8 * sizeof(unsigned int) > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(unsigned int) >= 3 * PyLong_SHIFT) {
                            return (unsigned int) (((((((unsigned int)digits[2]) << PyLong_SHIFT) | (unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0]));
                        }
                    }
                    break;
                case 4:
                    if (8 * sizeof(unsigned int) > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(unsigned int) >= 4 * PyLong_SHIFT) {
                            return (unsigned int) (((((((((unsigned int)digits[3]) << PyLong_SHIFT) | (unsigned int)digits[2]) << PyLong_SHIFT) | (unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0]));
                        }
                    }
                    break;
            }
#endif
#if CYTHON_COMPILING_IN_CPYTHON
            if (unlikely(Py_SIZE(x) < 0)) {
                goto raise_neg_overflow;
            }
#else
            {
                int result = PyObject_RichCompareBool(x, Py_False, Py_LT);
                if (unlikely(result < 0))
                    return (unsigned int) -1;
                if (unlikely(result == 1))
                    goto raise_neg_overflow;
            }
#endif
            if (sizeof(unsigned int) <= sizeof(unsigned long)) {
                __PYX_VERIFY_RETURN_INT_EXC(unsigned int, unsigned long, PyLong_AsUnsignedLong(x))
#ifdef HAVE_LONG_LONG
            } else if (sizeof(unsigned int) <= sizeof(unsigned PY_LONG_LONG)) {
                __PYX_VERIFY_RETURN_INT_EXC(unsigned int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x))
#endif
            }
        } else {
#if CYTHON_USE_PYLONG_INTERNALS
            const digit* digits = ((PyLongObject*)x)->ob_digit;
            switch (Py_SIZE(x)) {
                case  0: return (unsigned int) 0;
                case -1: __PYX_VERIFY_RETURN_INT(unsigned int, sdigit, (sdigit) (-(sdigit)digits[0]))
                case  1: __PYX_VERIFY_RETURN_INT(unsigned int,  digit, +digits[0])
                case -2:
                    if (8 * sizeof(unsigned int) - 1 > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(unsigned int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(unsigned int) - 1 > 2 * PyLong_SHIFT) {
                            return (unsigned int) (((unsigned int)-1)*(((((unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0])));
                        }
                    }
                    break;
                case 2:
                    if (8 * sizeof(unsigned int) > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(unsigned int) - 1 > 2 * PyLong_SHIFT) {
                            return (unsigned int) ((((((unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0])));
                        }
                    }
                    break;
                case -3:
                    if (8 * sizeof(unsigned int) - 1 > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(unsigned int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(unsigned int) - 1 > 3 * PyLong_SHIFT) {
                            return (unsigned int) (((unsigned int)-1)*(((((((unsigned int)digits[2]) << PyLong_SHIFT) | (unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0])));
                        }
                    }
                    break;
                case 3:
                    if (8 * sizeof(unsigned int) > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(unsigned int) - 1 > 3 * PyLong_SHIFT) {
                            return (unsigned int) ((((((((unsigned int)digits[2]) << PyLong_SHIFT) | (unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0])));
                        }
                    }
                    break;
                case -4:
                    if (8 * sizeof(unsigned int) - 1 > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(unsigned int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(unsigned int) - 1 > 4 * PyLong_SHIFT) {
                            return (unsigned int) (((unsigned int)-1)*(((((((((unsigned int)digits[3]) << PyLong_SHIFT) | (unsigned int)digits[2]) << PyLong_SHIFT) | (unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0])));
                        }
                    }
                    break;
                case 4:
                    if (8 * sizeof(unsigned int) > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(unsigned int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(unsigned int) - 1 > 4 * PyLong_SHIFT) {
                            return (unsigned int) ((((((((((unsigned int)digits[3]) << PyLong_SHIFT) | (unsigned int)digits[2]) << PyLong_SHIFT) | (unsigned int)digits[1]) << PyLong_SHIFT) | (unsigned int)digits[0])));
                        }
                    }
                    break;
            }
#endif
            if (sizeof(unsigned int) <= sizeof(long)) {
                __PYX_VERIFY_RETURN_INT_EXC(unsigned int, long, PyLong_AsLong(x))
#ifdef HAVE_LONG_LONG
            } else if (sizeof(unsigned int) <= sizeof(PY_LONG_LONG)) {
                __PYX_VERIFY_RETURN_INT_EXC(unsigned int, PY_LONG_LONG, PyLong_AsLongLong(x))
#endif
            }
        }
        {
#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray)
            PyErr_SetString(PyExc_RuntimeError,
                            "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers");
#else
            unsigned int val;
            PyObject *v = __Pyx_PyNumber_IntOrLong(x);
 #if PY_MAJOR_VERSION < 3
            if (likely(v) && !PyLong_Check(v)) {
                PyObject *tmp = v;
                v = PyNumber_Long(tmp);
                Py_DECREF(tmp);
            }
 #endif
            if (likely(v)) {
                int one = 1; int is_little = (int)*(unsigned char *)&one;
                unsigned char *bytes = (unsigned char *)&val;
                int ret = _PyLong_AsByteArray((PyLongObject *)v,
                                              bytes, sizeof(val),
                                              is_little, !is_unsigned);
                Py_DECREF(v);
                if (likely(!ret))
                    return val;
            }
#endif
            return (unsigned int) -1;
        }
    } else {
        unsigned int val;
        PyObject *tmp = __Pyx_PyNumber_IntOrLong(x);
        if (!tmp) return (unsigned int) -1;
        val = __Pyx_PyInt_As_unsigned_int(tmp);
        Py_DECREF(tmp);
        return val;
    }
raise_overflow:
    PyErr_SetString(PyExc_OverflowError,
        "value too large to convert to unsigned int");
    return (unsigned int) -1;
raise_neg_overflow:
    PyErr_SetString(PyExc_OverflowError,
        "can't convert negative value to unsigned int");
    return (unsigned int) -1;
}

/* CIntFromPy */
              static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) {
    const long neg_one = (long) -1, const_zero = (long) 0;
    const int is_unsigned = neg_one > const_zero;
#if PY_MAJOR_VERSION < 3
    if (likely(PyInt_Check(x))) {
        if (sizeof(long) < sizeof(long)) {
            __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG(x))
        } else {
            long val = PyInt_AS_LONG(x);
            if (is_unsigned && unlikely(val < 0)) {
                goto raise_neg_overflow;
            }
            return (long) val;
        }
    } else
#endif
    if (likely(PyLong_Check(x))) {
        if (is_unsigned) {
#if CYTHON_USE_PYLONG_INTERNALS
            const digit* digits = ((PyLongObject*)x)->ob_digit;
            switch (Py_SIZE(x)) {
                case  0: return (long) 0;
                case  1: __PYX_VERIFY_RETURN_INT(long, digit, digits[0])
                case 2:
                    if (8 * sizeof(long) > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(long) >= 2 * PyLong_SHIFT) {
                            return (long) (((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0]));
                        }
                    }
                    break;
                case 3:
                    if (8 * sizeof(long) > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(long) >= 3 * PyLong_SHIFT) {
                            return (long) (((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]));
                        }
                    }
                    break;
                case 4:
                    if (8 * sizeof(long) > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(long) >= 4 * PyLong_SHIFT) {
                            return (long) (((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0]));
                        }
                    }
                    break;
            }
#endif
#if CYTHON_COMPILING_IN_CPYTHON
            if (unlikely(Py_SIZE(x) < 0)) {
                goto raise_neg_overflow;
            }
#else
            {
                int result = PyObject_RichCompareBool(x, Py_False, Py_LT);
                if (unlikely(result < 0))
                    return (long) -1;
                if (unlikely(result == 1))
                    goto raise_neg_overflow;
            }
#endif
            if (sizeof(long) <= sizeof(unsigned long)) {
                __PYX_VERIFY_RETURN_INT_EXC(long, unsigned long, PyLong_AsUnsignedLong(x))
#ifdef HAVE_LONG_LONG
            } else if (sizeof(long) <= sizeof(unsigned PY_LONG_LONG)) {
                __PYX_VERIFY_RETURN_INT_EXC(long, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x))
#endif
            }
        } else {
#if CYTHON_USE_PYLONG_INTERNALS
            const digit* digits = ((PyLongObject*)x)->ob_digit;
            switch (Py_SIZE(x)) {
                case  0: return (long) 0;
                case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, (sdigit) (-(sdigit)digits[0]))
                case  1: __PYX_VERIFY_RETURN_INT(long,  digit, +digits[0])
                case -2:
                    if (8 * sizeof(long) - 1 > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) {
                            return (long) (((long)-1)*(((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0])));
                        }
                    }
                    break;
                case 2:
                    if (8 * sizeof(long) > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) {
                            return (long) ((((((long)digits[1]) << PyLong_SHIFT) | (long)digits[0])));
                        }
                    }
                    break;
                case -3:
                    if (8 * sizeof(long) - 1 > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) {
                            return (long) (((long)-1)*(((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])));
                        }
                    }
                    break;
                case 3:
                    if (8 * sizeof(long) > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) {
                            return (long) ((((((((long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])));
                        }
                    }
                    break;
                case -4:
                    if (8 * sizeof(long) - 1 > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(long, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) {
                            return (long) (((long)-1)*(((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])));
                        }
                    }
                    break;
                case 4:
                    if (8 * sizeof(long) > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(long, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(long) - 1 > 4 * PyLong_SHIFT) {
                            return (long) ((((((((((long)digits[3]) << PyLong_SHIFT) | (long)digits[2]) << PyLong_SHIFT) | (long)digits[1]) << PyLong_SHIFT) | (long)digits[0])));
                        }
                    }
                    break;
            }
#endif
            if (sizeof(long) <= sizeof(long)) {
                __PYX_VERIFY_RETURN_INT_EXC(long, long, PyLong_AsLong(x))
#ifdef HAVE_LONG_LONG
            } else if (sizeof(long) <= sizeof(PY_LONG_LONG)) {
                __PYX_VERIFY_RETURN_INT_EXC(long, PY_LONG_LONG, PyLong_AsLongLong(x))
#endif
            }
        }
        {
#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray)
            PyErr_SetString(PyExc_RuntimeError,
                            "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers");
#else
            long val;
            PyObject *v = __Pyx_PyNumber_IntOrLong(x);
 #if PY_MAJOR_VERSION < 3
            if (likely(v) && !PyLong_Check(v)) {
                PyObject *tmp = v;
                v = PyNumber_Long(tmp);
                Py_DECREF(tmp);
            }
 #endif
            if (likely(v)) {
                int one = 1; int is_little = (int)*(unsigned char *)&one;
                unsigned char *bytes = (unsigned char *)&val;
                int ret = _PyLong_AsByteArray((PyLongObject *)v,
                                              bytes, sizeof(val),
                                              is_little, !is_unsigned);
                Py_DECREF(v);
                if (likely(!ret))
                    return val;
            }
#endif
            return (long) -1;
        }
    } else {
        long val;
        PyObject *tmp = __Pyx_PyNumber_IntOrLong(x);
        if (!tmp) return (long) -1;
        val = __Pyx_PyInt_As_long(tmp);
        Py_DECREF(tmp);
        return val;
    }
raise_overflow:
    PyErr_SetString(PyExc_OverflowError,
        "value too large to convert to long");
    return (long) -1;
raise_neg_overflow:
    PyErr_SetString(PyExc_OverflowError,
        "can't convert negative value to long");
    return (long) -1;
}

/* CIntFromPy */
              static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) {
    const int neg_one = (int) -1, const_zero = (int) 0;
    const int is_unsigned = neg_one > const_zero;
#if PY_MAJOR_VERSION < 3
    if (likely(PyInt_Check(x))) {
        if (sizeof(int) < sizeof(long)) {
            __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x))
        } else {
            long val = PyInt_AS_LONG(x);
            if (is_unsigned && unlikely(val < 0)) {
                goto raise_neg_overflow;
            }
            return (int) val;
        }
    } else
#endif
    if (likely(PyLong_Check(x))) {
        if (is_unsigned) {
#if CYTHON_USE_PYLONG_INTERNALS
            const digit* digits = ((PyLongObject*)x)->ob_digit;
            switch (Py_SIZE(x)) {
                case  0: return (int) 0;
                case  1: __PYX_VERIFY_RETURN_INT(int, digit, digits[0])
                case 2:
                    if (8 * sizeof(int) > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(int) >= 2 * PyLong_SHIFT) {
                            return (int) (((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0]));
                        }
                    }
                    break;
                case 3:
                    if (8 * sizeof(int) > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(int) >= 3 * PyLong_SHIFT) {
                            return (int) (((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]));
                        }
                    }
                    break;
                case 4:
                    if (8 * sizeof(int) > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(int) >= 4 * PyLong_SHIFT) {
                            return (int) (((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0]));
                        }
                    }
                    break;
            }
#endif
#if CYTHON_COMPILING_IN_CPYTHON
            if (unlikely(Py_SIZE(x) < 0)) {
                goto raise_neg_overflow;
            }
#else
            {
                int result = PyObject_RichCompareBool(x, Py_False, Py_LT);
                if (unlikely(result < 0))
                    return (int) -1;
                if (unlikely(result == 1))
                    goto raise_neg_overflow;
            }
#endif
            if (sizeof(int) <= sizeof(unsigned long)) {
                __PYX_VERIFY_RETURN_INT_EXC(int, unsigned long, PyLong_AsUnsignedLong(x))
#ifdef HAVE_LONG_LONG
            } else if (sizeof(int) <= sizeof(unsigned PY_LONG_LONG)) {
                __PYX_VERIFY_RETURN_INT_EXC(int, unsigned PY_LONG_LONG, PyLong_AsUnsignedLongLong(x))
#endif
            }
        } else {
#if CYTHON_USE_PYLONG_INTERNALS
            const digit* digits = ((PyLongObject*)x)->ob_digit;
            switch (Py_SIZE(x)) {
                case  0: return (int) 0;
                case -1: __PYX_VERIFY_RETURN_INT(int, sdigit, (sdigit) (-(sdigit)digits[0]))
                case  1: __PYX_VERIFY_RETURN_INT(int,  digit, +digits[0])
                case -2:
                    if (8 * sizeof(int) - 1 > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) {
                            return (int) (((int)-1)*(((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0])));
                        }
                    }
                    break;
                case 2:
                    if (8 * sizeof(int) > 1 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 2 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) {
                            return (int) ((((((int)digits[1]) << PyLong_SHIFT) | (int)digits[0])));
                        }
                    }
                    break;
                case -3:
                    if (8 * sizeof(int) - 1 > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) {
                            return (int) (((int)-1)*(((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])));
                        }
                    }
                    break;
                case 3:
                    if (8 * sizeof(int) > 2 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 3 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) {
                            return (int) ((((((((int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])));
                        }
                    }
                    break;
                case -4:
                    if (8 * sizeof(int) - 1 > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(int, long, -(long) (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) {
                            return (int) (((int)-1)*(((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])));
                        }
                    }
                    break;
                case 4:
                    if (8 * sizeof(int) > 3 * PyLong_SHIFT) {
                        if (8 * sizeof(unsigned long) > 4 * PyLong_SHIFT) {
                            __PYX_VERIFY_RETURN_INT(int, unsigned long, (((((((((unsigned long)digits[3]) << PyLong_SHIFT) | (unsigned long)digits[2]) << PyLong_SHIFT) | (unsigned long)digits[1]) << PyLong_SHIFT) | (unsigned long)digits[0])))
                        } else if (8 * sizeof(int) - 1 > 4 * PyLong_SHIFT) {
                            return (int) ((((((((((int)digits[3]) << PyLong_SHIFT) | (int)digits[2]) << PyLong_SHIFT) | (int)digits[1]) << PyLong_SHIFT) | (int)digits[0])));
                        }
                    }
                    break;
            }
#endif
            if (sizeof(int) <= sizeof(long)) {
                __PYX_VERIFY_RETURN_INT_EXC(int, long, PyLong_AsLong(x))
#ifdef HAVE_LONG_LONG
            } else if (sizeof(int) <= sizeof(PY_LONG_LONG)) {
                __PYX_VERIFY_RETURN_INT_EXC(int, PY_LONG_LONG, PyLong_AsLongLong(x))
#endif
            }
        }
        {
#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray)
            PyErr_SetString(PyExc_RuntimeError,
                            "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers");
#else
            int val;
            PyObject *v = __Pyx_PyNumber_IntOrLong(x);
 #if PY_MAJOR_VERSION < 3
            if (likely(v) && !PyLong_Check(v)) {
                PyObject *tmp = v;
                v = PyNumber_Long(tmp);
                Py_DECREF(tmp);
            }
 #endif
            if (likely(v)) {
                int one = 1; int is_little = (int)*(unsigned char *)&one;
                unsigned char *bytes = (unsigned char *)&val;
                int ret = _PyLong_AsByteArray((PyLongObject *)v,
                                              bytes, sizeof(val),
                                              is_little, !is_unsigned);
                Py_DECREF(v);
                if (likely(!ret))
                    return val;
            }
#endif
            return (int) -1;
        }
    } else {
        int val;
        PyObject *tmp = __Pyx_PyNumber_IntOrLong(x);
        if (!tmp) return (int) -1;
        val = __Pyx_PyInt_As_int(tmp);
        Py_DECREF(tmp);
        return val;
    }
raise_overflow:
    PyErr_SetString(PyExc_OverflowError,
        "value too large to convert to int");
    return (int) -1;
raise_neg_overflow:
    PyErr_SetString(PyExc_OverflowError,
        "can't convert negative value to int");
    return (int) -1;
}

/* CheckBinaryVersion */
              static int __Pyx_check_binary_version(void) {
    char ctversion[4], rtversion[4];
    PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION);
    PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion());
    if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) {
        char message[200];
        PyOS_snprintf(message, sizeof(message),
                      "compiletime version %s of module '%.100s' "
                      "does not match runtime version %s",
                      ctversion, __Pyx_MODULE_NAME, rtversion);
        return PyErr_WarnEx(NULL, message, 1);
    }
    return 0;
}

/* FunctionExport */
              static int __Pyx_ExportFunction(const char *name, void (*f)(void), const char *sig) {
    PyObject *d = 0;
    PyObject *cobj = 0;
    union {
        void (*fp)(void);
        void *p;
    } tmp;
    d = PyObject_GetAttrString(__pyx_m, (char *)"__pyx_capi__");
    if (!d) {
        PyErr_Clear();
        d = PyDict_New();
        if (!d)
            goto bad;
        Py_INCREF(d);
        if (PyModule_AddObject(__pyx_m, (char *)"__pyx_capi__", d) < 0)
            goto bad;
    }
    tmp.fp = f;
#if PY_VERSION_HEX >= 0x02070000
    cobj = PyCapsule_New(tmp.p, sig, 0);
#else
    cobj = PyCObject_FromVoidPtrAndDesc(tmp.p, (void *)sig, 0);
#endif
    if (!cobj)
        goto bad;
    if (PyDict_SetItemString(d, name, cobj) < 0)
        goto bad;
    Py_DECREF(cobj);
    Py_DECREF(d);
    return 0;
bad:
    Py_XDECREF(cobj);
    Py_XDECREF(d);
    return -1;
}

/* ModuleImport */
              #ifndef __PYX_HAVE_RT_ImportModule
#define __PYX_HAVE_RT_ImportModule
static PyObject *__Pyx_ImportModule(const char *name) {
    PyObject *py_name = 0;
    PyObject *py_module = 0;
    py_name = __Pyx_PyIdentifier_FromString(name);
    if (!py_name)
        goto bad;
    py_module = PyImport_Import(py_name);
    Py_DECREF(py_name);
    return py_module;
bad:
    Py_XDECREF(py_name);
    return 0;
}
#endif

/* TypeImport */
              #ifndef __PYX_HAVE_RT_ImportType
#define __PYX_HAVE_RT_ImportType
static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name,
    size_t size, int strict)
{
    PyObject *py_module = 0;
    PyObject *result = 0;
    PyObject *py_name = 0;
    char warning[200];
    Py_ssize_t basicsize;
#ifdef Py_LIMITED_API
    PyObject *py_basicsize;
#endif
    py_module = __Pyx_ImportModule(module_name);
    if (!py_module)
        goto bad;
    py_name = __Pyx_PyIdentifier_FromString(class_name);
    if (!py_name)
        goto bad;
    result = PyObject_GetAttr(py_module, py_name);
    Py_DECREF(py_name);
    py_name = 0;
    Py_DECREF(py_module);
    py_module = 0;
    if (!result)
        goto bad;
    if (!PyType_Check(result)) {
        PyErr_Format(PyExc_TypeError,
            "%.200s.%.200s is not a type object",
            module_name, class_name);
        goto bad;
    }
#ifndef Py_LIMITED_API
    basicsize = ((PyTypeObject *)result)->tp_basicsize;
#else
    py_basicsize = PyObject_GetAttrString(result, "__basicsize__");
    if (!py_basicsize)
        goto bad;
    basicsize = PyLong_AsSsize_t(py_basicsize);
    Py_DECREF(py_basicsize);
    py_basicsize = 0;
    if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred())
        goto bad;
#endif
    if (!strict && (size_t)basicsize > size) {
        PyOS_snprintf(warning, sizeof(warning),
            "%s.%s size changed, may indicate binary incompatibility. Expected %zd, got %zd",
            module_name, class_name, basicsize, size);
        if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad;
    }
    else if ((size_t)basicsize != size) {
        PyErr_Format(PyExc_ValueError,
            "%.200s.%.200s has the wrong size, try recompiling. Expected %zd, got %zd",
            module_name, class_name, basicsize, size);
        goto bad;
    }
    return (PyTypeObject *)result;
bad:
    Py_XDECREF(py_module);
    Py_XDECREF(result);
    return NULL;
}
#endif

/* InitStrings */
              static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) {
    while (t->p) {
        #if PY_MAJOR_VERSION < 3
        if (t->is_unicode) {
            *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL);
        } else if (t->intern) {
            *t->p = PyString_InternFromString(t->s);
        } else {
            *t->p = PyString_FromStringAndSize(t->s, t->n - 1);
        }
        #else
        if (t->is_unicode | t->is_str) {
            if (t->intern) {
                *t->p = PyUnicode_InternFromString(t->s);
            } else if (t->encoding) {
                *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL);
            } else {
                *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1);
            }
        } else {
            *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1);
        }
        #endif
        if (!*t->p)
            return -1;
        ++t;
    }
    return 0;
}

static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) {
    return __Pyx_PyUnicode_FromStringAndSize(c_str, (Py_ssize_t)strlen(c_str));
}
static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) {
    Py_ssize_t ignore;
    return __Pyx_PyObject_AsStringAndSize(o, &ignore);
}
static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) {
#if CYTHON_COMPILING_IN_CPYTHON && (__PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT)
    if (
#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII
            __Pyx_sys_getdefaultencoding_not_ascii &&
#endif
            PyUnicode_Check(o)) {
#if PY_VERSION_HEX < 0x03030000
        char* defenc_c;
        PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL);
        if (!defenc) return NULL;
        defenc_c = PyBytes_AS_STRING(defenc);
#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII
        {
            char* end = defenc_c + PyBytes_GET_SIZE(defenc);
            char* c;
            for (c = defenc_c; c < end; c++) {
                if ((unsigned char) (*c) >= 128) {
                    PyUnicode_AsASCIIString(o);
                    return NULL;
                }
            }
        }
#endif
        *length = PyBytes_GET_SIZE(defenc);
        return defenc_c;
#else
        if (__Pyx_PyUnicode_READY(o) == -1) return NULL;
#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII
        if (PyUnicode_IS_ASCII(o)) {
            *length = PyUnicode_GET_LENGTH(o);
            return PyUnicode_AsUTF8(o);
        } else {
            PyUnicode_AsASCIIString(o);
            return NULL;
        }
#else
        return PyUnicode_AsUTF8AndSize(o, length);
#endif
#endif
    } else
#endif
#if (!CYTHON_COMPILING_IN_PYPY) || (defined(PyByteArray_AS_STRING) && defined(PyByteArray_GET_SIZE))
    if (PyByteArray_Check(o)) {
        *length = PyByteArray_GET_SIZE(o);
        return PyByteArray_AS_STRING(o);
    } else
#endif
    {
        char* result;
        int r = PyBytes_AsStringAndSize(o, &result, length);
        if (unlikely(r < 0)) {
            return NULL;
        } else {
            return result;
        }
    }
}
static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) {
   int is_true = x == Py_True;
   if (is_true | (x == Py_False) | (x == Py_None)) return is_true;
   else return PyObject_IsTrue(x);
}
static CYTHON_INLINE PyObject* __Pyx_PyNumber_IntOrLong(PyObject* x) {
#if CYTHON_USE_TYPE_SLOTS
  PyNumberMethods *m;
#endif
  const char *name = NULL;
  PyObject *res = NULL;
#if PY_MAJOR_VERSION < 3
  if (PyInt_Check(x) || PyLong_Check(x))
#else
  if (PyLong_Check(x))
#endif
    return __Pyx_NewRef(x);
#if CYTHON_USE_TYPE_SLOTS
  m = Py_TYPE(x)->tp_as_number;
  #if PY_MAJOR_VERSION < 3
  if (m && m->nb_int) {
    name = "int";
    res = PyNumber_Int(x);
  }
  else if (m && m->nb_long) {
    name = "long";
    res = PyNumber_Long(x);
  }
  #else
  if (m && m->nb_int) {
    name = "int";
    res = PyNumber_Long(x);
  }
  #endif
#else
  res = PyNumber_Int(x);
#endif
  if (res) {
#if PY_MAJOR_VERSION < 3
    if (!PyInt_Check(res) && !PyLong_Check(res)) {
#else
    if (!PyLong_Check(res)) {
#endif
      PyErr_Format(PyExc_TypeError,
                   "__%.4s__ returned non-%.4s (type %.200s)",
                   name, name, Py_TYPE(res)->tp_name);
      Py_DECREF(res);
      return NULL;
    }
  }
  else if (!PyErr_Occurred()) {
    PyErr_SetString(PyExc_TypeError,
                    "an integer is required");
  }
  return res;
}
static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) {
  Py_ssize_t ival;
  PyObject *x;
#if PY_MAJOR_VERSION < 3
  if (likely(PyInt_CheckExact(b))) {
    if (sizeof(Py_ssize_t) >= sizeof(long))
        return PyInt_AS_LONG(b);
    else
        return PyInt_AsSsize_t(x);
  }
#endif
  if (likely(PyLong_CheckExact(b))) {
    #if CYTHON_USE_PYLONG_INTERNALS
    const digit* digits = ((PyLongObject*)b)->ob_digit;
    const Py_ssize_t size = Py_SIZE(b);
    if (likely(__Pyx_sst_abs(size) <= 1)) {
        ival = likely(size) ? digits[0] : 0;
        if (size == -1) ival = -ival;
        return ival;
    } else {
      switch (size) {
         case 2:
           if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) {
             return (Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]));
           }
           break;
         case -2:
           if (8 * sizeof(Py_ssize_t) > 2 * PyLong_SHIFT) {
             return -(Py_ssize_t) (((((size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]));
           }
           break;
         case 3:
           if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) {
             return (Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]));
           }
           break;
         case -3:
           if (8 * sizeof(Py_ssize_t) > 3 * PyLong_SHIFT) {
             return -(Py_ssize_t) (((((((size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]));
           }
           break;
         case 4:
           if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) {
             return (Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]));
           }
           break;
         case -4:
           if (8 * sizeof(Py_ssize_t) > 4 * PyLong_SHIFT) {
             return -(Py_ssize_t) (((((((((size_t)digits[3]) << PyLong_SHIFT) | (size_t)digits[2]) << PyLong_SHIFT) | (size_t)digits[1]) << PyLong_SHIFT) | (size_t)digits[0]));
           }
           break;
      }
    }
    #endif
    return PyLong_AsSsize_t(b);
  }
  x = PyNumber_Index(b);
  if (!x) return -1;
  ival = PyInt_AsSsize_t(x);
  Py_DECREF(x);
  return ival;
}
static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) {
    return PyInt_FromSize_t(ival);
}


#endif /* Py_PYTHON_H */
