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- Committer: Bazaar Package Importer
- Author(s): Steffen Moeller
- Date: 2010-12-04 22:30:35 UTC
- mfrom: (1.1.1 upstream)
- Revision ID: james.westby@ubuntu.com-20101204223035-j11kinhcrrdgg2p2
Tags: 1.5-1
* Bumped standard to 3.9.1, no changes required.
* New upstream version.
- major additions to Cookbook
- added AlleleFreqs attribute to ensembl Variation objects.
- added getGeneByStableId method to genome objects.
- added Introns attribute to Transcript objects and an Intron class.
- added Mann-Whitney test and a Monte-Carlo version
- exploratory and confirmatory period estimation techniques (suitable for
symbolic and continuous data)
- Information theoretic measures (AIC and BIC) added
- drawing of trees with collapsed nodes
- progress display indicator support for terminal and GUI apps
- added parser for illumina HiSeq2000 and GAiix sequence files as
cogent.parse.illumina_sequence.MinimalIlluminaSequenceParser.
- added parser to FASTQ files, one of the output options for illumina's
workflow, also added cookbook demo.
- added functionality for parsing of SFF files without the Roche tools in
cogent.parse.binary_sff
- thousand fold performance improvement to nmds
- >10-fold performance improvements to some Table operations
* New upstream version.
- major additions to Cookbook
- added AlleleFreqs attribute to ensembl Variation objects.
- added getGeneByStableId method to genome objects.
- added Introns attribute to Transcript objects and an Intron class.
- added Mann-Whitney test and a Monte-Carlo version
- exploratory and confirmatory period estimation techniques (suitable for
symbolic and continuous data)
- Information theoretic measures (AIC and BIC) added
- drawing of trees with collapsed nodes
- progress display indicator support for terminal and GUI apps
- added parser for illumina HiSeq2000 and GAiix sequence files as
cogent.parse.illumina_sequence.MinimalIlluminaSequenceParser.
- added parser to FASTQ files, one of the output options for illumina's
workflow, also added cookbook demo.
- added functionality for parsing of SFF files without the Roche tools in
cogent.parse.binary_sff
- thousand fold performance improvement to nmds
- >10-fold performance improvements to some Table operations
- files added:
- cogent/cluster/approximate_mds.py
- doc/_static
- files removed:
- tests/test_core/test_tree2.py
- files modified:
- .pc/fix_python_shebang_line.patch/cogent/align/dp_calculation.py
added
removed
cogent/maths/_period.c
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} __Pyx_BufFmt_StackElem;
462
463
464
static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info);
465
static int __Pyx_GetBufferAndValidate(Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack);
466
static void __Pyx_RaiseBufferIndexError(int axis); /*proto*/
467
#define __Pyx_BufPtrStrided1d(type, buf, i0, s0) (type)((char*)buf + i0 * s0)
468
469
static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb); /*proto*/
470
static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb); /*proto*/
471
472
#include <string.h>
473
474
475
static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) {
476
PyObject *r;
477
if (!j) return NULL;
478
r = PyObject_GetItem(o, j);
479
Py_DECREF(j);
480
return r;
481
}
482
483
484
#define __Pyx_GetItemInt_List(o, i, size, to_py_func) ((size <= sizeof(Py_ssize_t)) ? \
485
__Pyx_GetItemInt_List_Fast(o, i, size <= sizeof(long)) : \
486
__Pyx_GetItemInt_Generic(o, to_py_func(i)))
487
488
static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, int fits_long) {
489
if (likely(o != Py_None)) {
490
if (likely((0 <= i) & (i < PyList_GET_SIZE(o)))) {
491
PyObject *r = PyList_GET_ITEM(o, i);
492
Py_INCREF(r);
493
return r;
494
}
495
else if ((-PyList_GET_SIZE(o) <= i) & (i < 0)) {
496
PyObject *r = PyList_GET_ITEM(o, PyList_GET_SIZE(o) + i);
497
Py_INCREF(r);
498
return r;
499
}
500
}
501
return __Pyx_GetItemInt_Generic(o, fits_long ? PyInt_FromLong(i) : PyLong_FromLongLong(i));
502
}
503
504
#define __Pyx_GetItemInt_Tuple(o, i, size, to_py_func) ((size <= sizeof(Py_ssize_t)) ? \
505
__Pyx_GetItemInt_Tuple_Fast(o, i, size <= sizeof(long)) : \
506
__Pyx_GetItemInt_Generic(o, to_py_func(i)))
507
508
static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, int fits_long) {
509
if (likely(o != Py_None)) {
510
if (likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) {
511
PyObject *r = PyTuple_GET_ITEM(o, i);
512
Py_INCREF(r);
513
return r;
514
}
515
else if ((-PyTuple_GET_SIZE(o) <= i) & (i < 0)) {
516
PyObject *r = PyTuple_GET_ITEM(o, PyTuple_GET_SIZE(o) + i);
517
Py_INCREF(r);
518
return r;
519
}
520
}
521
return __Pyx_GetItemInt_Generic(o, fits_long ? PyInt_FromLong(i) : PyLong_FromLongLong(i));
522
}
523
524
525
#define __Pyx_GetItemInt(o, i, size, to_py_func) ((size <= sizeof(Py_ssize_t)) ? \
526
__Pyx_GetItemInt_Fast(o, i, size <= sizeof(long)) : \
527
__Pyx_GetItemInt_Generic(o, to_py_func(i)))
528
529
static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, int fits_long) {
530
PyObject *r;
531
if (PyList_CheckExact(o) && ((0 <= i) & (i < PyList_GET_SIZE(o)))) {
532
r = PyList_GET_ITEM(o, i);
533
Py_INCREF(r);
534
}
535
else if (PyTuple_CheckExact(o) && ((0 <= i) & (i < PyTuple_GET_SIZE(o)))) {
536
r = PyTuple_GET_ITEM(o, i);
537
Py_INCREF(r);
538
}
539
else if (Py_TYPE(o)->tp_as_sequence && Py_TYPE(o)->tp_as_sequence->sq_item && (likely(i >= 0))) {
540
r = PySequence_GetItem(o, i);
541
}
542
else {
543
r = __Pyx_GetItemInt_Generic(o, fits_long ? PyInt_FromLong(i) : PyLong_FromLongLong(i));
544
}
545
return r;
546
}
547
548
static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index);
549
550
static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(void);
551
552
static PyObject *__Pyx_UnpackItem(PyObject *, Py_ssize_t index); /*proto*/
553
static int __Pyx_EndUnpack(PyObject *); /*proto*/
554
555
static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); /*proto*/
556
557
static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void);
558
559
static void __Pyx_UnpackTupleError(PyObject *, Py_ssize_t index); /*proto*/
560
561
static int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed,
562
const char *name, int exact); /*proto*/
563
#if PY_MAJOR_VERSION < 3
564
static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags);
565
static void __Pyx_ReleaseBuffer(Py_buffer *view);
566
#else
567
#define __Pyx_GetBuffer PyObject_GetBuffer
568
#define __Pyx_ReleaseBuffer PyBuffer_Release
569
#endif
570
571
Py_ssize_t __Pyx_zeros[] = {0};
572
Py_ssize_t __Pyx_minusones[] = {-1};
573
574
static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list); /*proto*/
575
576
static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name); /*proto*/
577
578
#if CYTHON_CCOMPLEX
579
#ifdef __cplusplus
580
#define __Pyx_CREAL(z) ((z).real())
581
#define __Pyx_CIMAG(z) ((z).imag())
582
#else
583
#define __Pyx_CREAL(z) (__real__(z))
584
#define __Pyx_CIMAG(z) (__imag__(z))
585
#endif
586
#else
587
#define __Pyx_CREAL(z) ((z).real)
588
#define __Pyx_CIMAG(z) ((z).imag)
589
#endif
590
591
#if defined(_WIN32) && defined(__cplusplus) && CYTHON_CCOMPLEX
592
#define __Pyx_SET_CREAL(z,x) ((z).real(x))
593
#define __Pyx_SET_CIMAG(z,y) ((z).imag(y))
594
#else
595
#define __Pyx_SET_CREAL(z,x) __Pyx_CREAL(z) = (x)
596
#define __Pyx_SET_CIMAG(z,y) __Pyx_CIMAG(z) = (y)
597
#endif
598
599
static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double, double);
600
601
#if CYTHON_CCOMPLEX
602
#define __Pyx_c_eq(a, b) ((a)==(b))
603
#define __Pyx_c_sum(a, b) ((a)+(b))
604
#define __Pyx_c_diff(a, b) ((a)-(b))
605
#define __Pyx_c_prod(a, b) ((a)*(b))
606
#define __Pyx_c_quot(a, b) ((a)/(b))
607
#define __Pyx_c_neg(a) (-(a))
608
#ifdef __cplusplus
609
#define __Pyx_c_is_zero(z) ((z)==(double)0)
610
#define __Pyx_c_conj(z) (::std::conj(z))
611
/*#define __Pyx_c_abs(z) (::std::abs(z))*/
612
#else
613
#define __Pyx_c_is_zero(z) ((z)==0)
614
#define __Pyx_c_conj(z) (conj(z))
615
/*#define __Pyx_c_abs(z) (cabs(z))*/
616
#endif
617
#else
618
static CYTHON_INLINE int __Pyx_c_eq(__pyx_t_double_complex, __pyx_t_double_complex);
619
static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum(__pyx_t_double_complex, __pyx_t_double_complex);
620
static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff(__pyx_t_double_complex, __pyx_t_double_complex);
621
static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod(__pyx_t_double_complex, __pyx_t_double_complex);
622
static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot(__pyx_t_double_complex, __pyx_t_double_complex);
623
static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg(__pyx_t_double_complex);
624
static CYTHON_INLINE int __Pyx_c_is_zero(__pyx_t_double_complex);
625
static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj(__pyx_t_double_complex);
626
/*static CYTHON_INLINE double __Pyx_c_abs(__pyx_t_double_complex);*/
627
#endif
628
629
static CYTHON_INLINE __pyx_t_npy_float64_complex __pyx_t_npy_float64_complex_from_parts(npy_float64, npy_float64);
630
631
#if CYTHON_CCOMPLEX
632
#define __Pyx_c_eq_npy_float64(a, b) ((a)==(b))
633
#define __Pyx_c_sum_npy_float64(a, b) ((a)+(b))
634
#define __Pyx_c_diff_npy_float64(a, b) ((a)-(b))
635
#define __Pyx_c_prod_npy_float64(a, b) ((a)*(b))
636
#define __Pyx_c_quot_npy_float64(a, b) ((a)/(b))
637
#define __Pyx_c_neg_npy_float64(a) (-(a))
638
#ifdef __cplusplus
639
#define __Pyx_c_is_zero_npy_float64(z) ((z)==(npy_float64)0)
640
#define __Pyx_c_conj_npy_float64(z) (::std::conj(z))
641
/*#define __Pyx_c_abs_npy_float64(z) (::std::abs(z))*/
642
#else
643
#define __Pyx_c_is_zero_npy_float64(z) ((z)==0)
644
#define __Pyx_c_conj_npy_float64(z) (conj_npy_float64(z))
645
/*#define __Pyx_c_abs_npy_float64(z) (cabs_npy_float64(z))*/
646
#endif
647
#else
648
static CYTHON_INLINE int __Pyx_c_eq_npy_float64(__pyx_t_npy_float64_complex, __pyx_t_npy_float64_complex);
649
static CYTHON_INLINE __pyx_t_npy_float64_complex __Pyx_c_sum_npy_float64(__pyx_t_npy_float64_complex, __pyx_t_npy_float64_complex);
650
static CYTHON_INLINE __pyx_t_npy_float64_complex __Pyx_c_diff_npy_float64(__pyx_t_npy_float64_complex, __pyx_t_npy_float64_complex);
651
static CYTHON_INLINE __pyx_t_npy_float64_complex __Pyx_c_prod_npy_float64(__pyx_t_npy_float64_complex, __pyx_t_npy_float64_complex);
652
static CYTHON_INLINE __pyx_t_npy_float64_complex __Pyx_c_quot_npy_float64(__pyx_t_npy_float64_complex, __pyx_t_npy_float64_complex);
653
static CYTHON_INLINE __pyx_t_npy_float64_complex __Pyx_c_neg_npy_float64(__pyx_t_npy_float64_complex);
654
static CYTHON_INLINE int __Pyx_c_is_zero_npy_float64(__pyx_t_npy_float64_complex);
655
static CYTHON_INLINE __pyx_t_npy_float64_complex __Pyx_c_conj_npy_float64(__pyx_t_npy_float64_complex);
656
/*static CYTHON_INLINE npy_float64 __Pyx_c_abs_npy_float64(__pyx_t_npy_float64_complex);*/
657
#endif
658
659
static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float, float);
660
661
#if CYTHON_CCOMPLEX
662
#define __Pyx_c_eqf(a, b) ((a)==(b))
663
#define __Pyx_c_sumf(a, b) ((a)+(b))
664
#define __Pyx_c_difff(a, b) ((a)-(b))
665
#define __Pyx_c_prodf(a, b) ((a)*(b))
666
#define __Pyx_c_quotf(a, b) ((a)/(b))
667
#define __Pyx_c_negf(a) (-(a))
668
#ifdef __cplusplus
669
#define __Pyx_c_is_zerof(z) ((z)==(float)0)
670
#define __Pyx_c_conjf(z) (::std::conj(z))
671
/*#define __Pyx_c_absf(z) (::std::abs(z))*/
672
#else
673
#define __Pyx_c_is_zerof(z) ((z)==0)
674
#define __Pyx_c_conjf(z) (conjf(z))
675
/*#define __Pyx_c_absf(z) (cabsf(z))*/
676
#endif
677
#else
678
static CYTHON_INLINE int __Pyx_c_eqf(__pyx_t_float_complex, __pyx_t_float_complex);
679
static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sumf(__pyx_t_float_complex, __pyx_t_float_complex);
680
static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_difff(__pyx_t_float_complex, __pyx_t_float_complex);
681
static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prodf(__pyx_t_float_complex, __pyx_t_float_complex);
682
static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quotf(__pyx_t_float_complex, __pyx_t_float_complex);
683
static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_negf(__pyx_t_float_complex);
684
static CYTHON_INLINE int __Pyx_c_is_zerof(__pyx_t_float_complex);
685
static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conjf(__pyx_t_float_complex);
686
/*static CYTHON_INLINE float __Pyx_c_absf(__pyx_t_float_complex);*/
687
#endif
688
689
static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb); /*proto*/
690
691
static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject *);
692
693
static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject *);
694
695
static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject *);
696
697
static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject *);
698
699
static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject *);
700
701
static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject *);
702
703
static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject *);
704
705
static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject *);
706
707
static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject *);
708
709
static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject *);
710
711
static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject *);
712
713
static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject *);
714
715
static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject *);
716
717
static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject *);
718
719
static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject *);
720
721
static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, long size, int strict); /*proto*/
722
723
static PyObject *__Pyx_ImportModule(const char *name); /*proto*/
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725
static void __Pyx_AddTraceback(const char *funcname); /*proto*/
726
727
static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); /*proto*/
728
/* Module declarations from python_buffer */
729
730
/* Module declarations from python_ref */
731
732
/* Module declarations from stdlib */
733
734
/* Module declarations from stdio */
735
736
/* Module declarations from numpy */
737
738
/* Module declarations from numpy */
739
740
static PyTypeObject *__pyx_ptype_5numpy_dtype = 0;
741
static PyTypeObject *__pyx_ptype_5numpy_flatiter = 0;
742
static PyTypeObject *__pyx_ptype_5numpy_broadcast = 0;
743
static PyTypeObject *__pyx_ptype_5numpy_ndarray = 0;
744
static PyTypeObject *__pyx_ptype_5numpy_ufunc = 0;
745
static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew1(PyObject *); /*proto*/
746
static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew2(PyObject *, PyObject *); /*proto*/
747
static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew3(PyObject *, PyObject *, PyObject *); /*proto*/
748
static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew4(PyObject *, PyObject *, PyObject *, PyObject *); /*proto*/
749
static CYTHON_INLINE PyObject *__pyx_f_5numpy_PyArray_MultiIterNew5(PyObject *, PyObject *, PyObject *, PyObject *, PyObject *); /*proto*/
750
static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, char *, char *, int *); /*proto*/
751
static CYTHON_INLINE void __pyx_f_5numpy_set_array_base(PyArrayObject *, PyObject *); /*proto*/
752
static CYTHON_INLINE PyObject *__pyx_f_5numpy_get_array_base(PyArrayObject *); /*proto*/
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/* Module declarations from cogent.maths._period */
754
755
static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_float64_t = { "numpy.float64_t", NULL, sizeof(__pyx_t_5numpy_float64_t), 'R' };
756
static __Pyx_TypeInfo __Pyx_TypeInfo___pyx_t_double_complex = { "double complex", NULL, sizeof(__pyx_t_double_complex), 'C' };
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static __Pyx_TypeInfo __Pyx_TypeInfo_nn___pyx_t_5numpy_uint8_t = { "numpy.uint8_t", NULL, sizeof(__pyx_t_5numpy_uint8_t), 'U' };
758
#define __Pyx_MODULE_NAME "cogent.maths._period"
759
int __pyx_module_is_main_cogent__maths___period = 0;
760
761
/* Implementation of cogent.maths._period */
762
static PyObject *__pyx_builtin_range;
763
static PyObject *__pyx_builtin_ValueError;
764
static PyObject *__pyx_builtin_RuntimeError;
765
static char __pyx_k_1[] = "ndarray is not C contiguous";
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static char __pyx_k_2[] = "ndarray is not Fortran contiguous";
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static char __pyx_k_3[] = "Non-native byte order not supported";
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static char __pyx_k_4[] = "unknown dtype code in numpy.pxd (%d)";
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static char __pyx_k_5[] = "Format string allocated too short, see comment in numpy.pxd";
770
static char __pyx_k_6[] = "Format string allocated too short.";
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static char __pyx_k_7[] = "goertzel_inner (line 6)";
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static char __pyx_k_8[] = "ipdft_inner (line 22)";
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static char __pyx_k__B[] = "B";
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static char __pyx_k__H[] = "H";
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static char __pyx_k__I[] = "I";
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static char __pyx_k__L[] = "L";
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static char __pyx_k__N[] = "N";
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static char __pyx_k__O[] = "O";
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static char __pyx_k__Q[] = "Q";
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static char __pyx_k__W[] = "W";
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static char __pyx_k__X[] = "X";
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static char __pyx_k__b[] = "b";
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static char __pyx_k__d[] = "d";
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static char __pyx_k__f[] = "f";
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static char __pyx_k__g[] = "g";
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static char __pyx_k__h[] = "h";
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static char __pyx_k__i[] = "i";
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static char __pyx_k__l[] = "l";
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static char __pyx_k__q[] = "q";
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static char __pyx_k__x[] = "x";
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static char __pyx_k__Zd[] = "Zd";
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static char __pyx_k__Zf[] = "Zf";
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static char __pyx_k__Zg[] = "Zg";
794
static char __pyx_k__pi[] = "pi";
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static char __pyx_k__xc[] = "xc";
796
static char __pyx_k__buf[] = "buf";
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static char __pyx_k__cos[] = "cos";
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static char __pyx_k__exp[] = "exp";
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static char __pyx_k__obj[] = "obj";
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static char __pyx_k__seq[] = "seq";
801
static char __pyx_k__base[] = "base";
802
static char __pyx_k__ndim[] = "ndim";
803
static char __pyx_k__sqrt[] = "sqrt";
804
static char __pyx_k__ulim[] = "ulim";
805
static char __pyx_k__descr[] = "descr";
806
static char __pyx_k__names[] = "names";
807
static char __pyx_k__numpy[] = "numpy";
808
static char __pyx_k__range[] = "range";
809
static char __pyx_k__shape[] = "shape";
810
static char __pyx_k__fields[] = "fields";
811
static char __pyx_k__format[] = "format";
812
static char __pyx_k__motifs[] = "motifs";
813
static char __pyx_k__period[] = "period";
814
static char __pyx_k__result[] = "result";
815
static char __pyx_k__strides[] = "strides";
816
static char __pyx_k____main__[] = "__main__";
817
static char __pyx_k____test__[] = "__test__";
818
static char __pyx_k__itemsize[] = "itemsize";
819
static char __pyx_k__readonly[] = "readonly";
820
static char __pyx_k__type_num[] = "type_num";
821
static char __pyx_k__byteorder[] = "byteorder";
822
static char __pyx_k__ValueError[] = "ValueError";
823
static char __pyx_k__suboffsets[] = "suboffsets";
824
static char __pyx_k__ipdft_inner[] = "ipdft_inner";
825
static char __pyx_k__RuntimeError[] = "RuntimeError";
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static char __pyx_k__motif_length[] = "motif_length";
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static char __pyx_k__goertzel_inner[] = "goertzel_inner";
828
static PyObject *__pyx_kp_u_1;
829
static PyObject *__pyx_kp_u_2;
830
static PyObject *__pyx_kp_u_3;
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static PyObject *__pyx_kp_u_4;
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static PyObject *__pyx_kp_u_5;
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static PyObject *__pyx_kp_u_6;
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static PyObject *__pyx_kp_u_7;
835
static PyObject *__pyx_kp_u_8;
836
static PyObject *__pyx_n_s__N;
837
static PyObject *__pyx_n_s__RuntimeError;
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static PyObject *__pyx_n_s__ValueError;
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static PyObject *__pyx_n_s__W;
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static PyObject *__pyx_n_s__X;
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static PyObject *__pyx_n_s____main__;
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static PyObject *__pyx_n_s____test__;
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844
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845
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846
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847
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848
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849
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850
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851
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852
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853
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854
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855
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856
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857
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858
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859
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860
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861
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862
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863
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864
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865
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866
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867
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868
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869
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870
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871
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872
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873
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874
static PyObject *__pyx_int_2;
875
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876
877
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878
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879
*
880
* def goertzel_inner(np.ndarray[np.float64_t, ndim=1] x, int N, int period): # <<<<<<<<<<<<<<
881
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882
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883
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884
885
static PyObject *__pyx_pf_6cogent_5maths_7_period_goertzel_inner(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/
886
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887
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888
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889
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890
int __pyx_v_period;
891
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892
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893
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894
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895
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896
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897
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898
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899
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900
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902
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903
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904
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905
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906
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907
int __pyx_t_7;
908
int __pyx_t_8;
909
int __pyx_t_9;
910
int __pyx_t_10;
911
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912
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913
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915
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916
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917
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918
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920
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921
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922
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923
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924
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925
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926
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927
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928
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929
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930
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934
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935
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936
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937
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938
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939
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1004
__Pyx_GOTREF(__pyx_t_3);
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1008
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1011
/* "/Users/gavin/DevRepos/PyCogent-trunk/cogent/maths/_period.pyx":12
1012
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1013
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1014
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1015
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1016
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1017
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1018
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1020
/* "/Users/gavin/DevRepos/PyCogent-trunk/cogent/maths/_period.pyx":13
1021
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1022
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1023
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1024
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1025
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1026
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1027
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1028
1029
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1030
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1031
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1032
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1033
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1034
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1035
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1036
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1037
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1038
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1039
1040
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1041
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1042
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1043
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1044
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1045
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1046
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1047
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1048
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1049
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1050
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1051
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1052
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1054
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1055
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1056
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1057
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1058
1059
/* "/Users/gavin/DevRepos/PyCogent-trunk/cogent/maths/_period.pyx":16
1060
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1061
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1062
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1063
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1064
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1065
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1066
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1067
1068
/* "/Users/gavin/DevRepos/PyCogent-trunk/cogent/maths/_period.pyx":17
1069
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1070
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1071
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1072
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1073
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1074
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1075
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1076
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1077
1078
/* "/Users/gavin/DevRepos/PyCogent-trunk/cogent/maths/_period.pyx":19
1079
* s_prev = s
1080
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1081
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1082
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1083
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1084
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1085
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1086
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1087
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1091
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1095
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1102
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1103
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1104
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1105
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1106
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1107
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1110
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1111
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1147
1148
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1149
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1150
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1151
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1155
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1156
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1157
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1171
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1172
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1173
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1174
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1175
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1176
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1177
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1178
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1179
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1180
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1190
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1191
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1197
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1198
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1199
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1200
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1201
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1212
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1213
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1290
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1291
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1297
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1299
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1300
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1320
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1340
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1357
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1475
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1520
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1522
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1531
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1532
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1533
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1534
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1543
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1545
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1558
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1559
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1561
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1562
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1573
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1622
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1623
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1624
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1625
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1626
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1627
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1628
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1629
1630
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1631
static PyObject *__pyx_pf_6cogent_5maths_7_period_seq_to_symbols(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) {
1632
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1633
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1634
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1635
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1636
int __pyx_v_i;
1637
int __pyx_v_j;
1638
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1639
int __pyx_v_num_motifs;
1640
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1641
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1642
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1643
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1644
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1645
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1646
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1647
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1648
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1649
int __pyx_t_5;
1650
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1651
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1652
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1653
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1654
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1655
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1656
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1660
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1661
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1662
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1663
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1664
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1665
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1666
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1667
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1670
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1671
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1672
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1673
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1674
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1675
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1676
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1678
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1679
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1680
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1681
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1682
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1684
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1685
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1686
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1687
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1688
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1689
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1691
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1692
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1693
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1695
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1696
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1700
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1705
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1706
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1707
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1711
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1712
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1763
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1764
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1765
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1766
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1767
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1768
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1773
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1774
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1775
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1776
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1779
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1787
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1788
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1789
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1790
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1791
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1795
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1797
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1798
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1799
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1800
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1823
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1832
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1837
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1838
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1848
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1849
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1850
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1872
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1879
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1881
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1882
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1883
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1884
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1885
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1886
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1887
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1888
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1889
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1890
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1892
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1894
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1895
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1896
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1897
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1898
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1899
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1900
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1901
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1907
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1908
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1909
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1910
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1911
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1912
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1913
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1914
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1915
1916
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":194
1917
* cdef int copy_shape, i, ndim
1918
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1919
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1920
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1921
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1922
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1923
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1924
1925
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":196
1926
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1927
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1928
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1929
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1930
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1931
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1932
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1933
1934
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":198
1935
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1936
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1937
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1938
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1939
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1940
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1941
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1942
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1943
1944
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":199
1945
*
1946
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1947
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1948
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1949
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1950
*/
1951
__pyx_v_copy_shape = 1;
1952
goto __pyx_L5;
1953
}
1954
/*else*/ {
1955
1956
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":201
1957
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1958
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1959
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1960
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1961
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1962
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1963
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1964
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1965
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1966
1967
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":203
1968
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1969
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1970
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1971
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1972
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1973
*/
1974
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1975
if (__pyx_t_1) {
1976
1977
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":204
1978
*
1979
* if ((flags & pybuf.PyBUF_C_CONTIGUOUS == pybuf.PyBUF_C_CONTIGUOUS)
1980
* and not PyArray_CHKFLAGS(self, NPY_C_CONTIGUOUS)): # <<<<<<<<<<<<<<
1981
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1982
*
1983
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1984
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1985
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1986
} else {
1987
__pyx_t_3 = __pyx_t_1;
1988
}
1989
if (__pyx_t_3) {
1990
1991
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":205
1992
* if ((flags & pybuf.PyBUF_C_CONTIGUOUS == pybuf.PyBUF_C_CONTIGUOUS)
1993
* and not PyArray_CHKFLAGS(self, NPY_C_CONTIGUOUS)):
1994
* raise ValueError(u"ndarray is not C contiguous") # <<<<<<<<<<<<<<
1995
*
1996
* if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS)
1997
*/
1998
__pyx_t_4 = PyTuple_New(1); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 205; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
1999
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2000
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2001
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2002
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2003
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2004
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2005
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2006
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2007
__Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
2008
{__pyx_filename = __pyx_f[1]; __pyx_lineno = 205; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
2009
goto __pyx_L6;
2010
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2011
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2012
2013
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":207
2014
* raise ValueError(u"ndarray is not C contiguous")
2015
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2016
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2017
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2018
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2019
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2020
__pyx_t_3 = ((__pyx_v_flags & PyBUF_F_CONTIGUOUS) == PyBUF_F_CONTIGUOUS);
2021
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2022
2023
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":208
2024
*
2025
* if ((flags & pybuf.PyBUF_F_CONTIGUOUS == pybuf.PyBUF_F_CONTIGUOUS)
2026
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2027
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2028
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2029
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2030
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2031
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2032
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2033
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2034
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2035
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2036
2037
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":209
2038
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2039
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2040
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2048
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2049
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2050
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2055
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2058
2059
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":211
2060
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2068
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":212
2069
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/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":213
2078
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2086
2087
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":216
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2096
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":217
2097
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2100
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2101
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2102
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2103
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2104
2105
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":218
2106
* info.strides = <Py_ssize_t*>stdlib.malloc(sizeof(Py_ssize_t) * ndim * 2)
2107
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2109
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2110
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2111
*/
2112
__pyx_t_6 = __pyx_v_ndim;
2113
for (__pyx_t_7 = 0; __pyx_t_7 < __pyx_t_6; __pyx_t_7+=1) {
2114
__pyx_v_i = __pyx_t_7;
2115
2116
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":219
2117
* info.shape = info.strides + ndim
2118
* for i in range(ndim):
2119
* info.strides[i] = PyArray_STRIDES(self)[i] # <<<<<<<<<<<<<<
2120
* info.shape[i] = PyArray_DIMS(self)[i]
2121
* else:
2122
*/
2123
(__pyx_v_info->strides[__pyx_v_i]) = (PyArray_STRIDES(((PyArrayObject *)__pyx_v_self))[__pyx_v_i]);
2124
2125
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":220
2126
* for i in range(ndim):
2127
* info.strides[i] = PyArray_STRIDES(self)[i]
2128
* info.shape[i] = PyArray_DIMS(self)[i] # <<<<<<<<<<<<<<
2129
* else:
2130
* info.strides = <Py_ssize_t*>PyArray_STRIDES(self)
2131
*/
2132
(__pyx_v_info->shape[__pyx_v_i]) = (PyArray_DIMS(((PyArrayObject *)__pyx_v_self))[__pyx_v_i]);
2133
}
2134
goto __pyx_L8;
2135
}
2136
/*else*/ {
2137
2138
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":222
2139
* info.shape[i] = PyArray_DIMS(self)[i]
2140
* else:
2141
* info.strides = <Py_ssize_t*>PyArray_STRIDES(self) # <<<<<<<<<<<<<<
2142
* info.shape = <Py_ssize_t*>PyArray_DIMS(self)
2143
* info.suboffsets = NULL
2144
*/
2145
__pyx_v_info->strides = ((Py_ssize_t *)PyArray_STRIDES(((PyArrayObject *)__pyx_v_self)));
2146
2147
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":223
2148
* else:
2149
* info.strides = <Py_ssize_t*>PyArray_STRIDES(self)
2150
* info.shape = <Py_ssize_t*>PyArray_DIMS(self) # <<<<<<<<<<<<<<
2151
* info.suboffsets = NULL
2152
* info.itemsize = PyArray_ITEMSIZE(self)
2153
*/
2154
__pyx_v_info->shape = ((Py_ssize_t *)PyArray_DIMS(((PyArrayObject *)__pyx_v_self)));
2155
}
2156
__pyx_L8:;
2157
2158
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":224
2159
* info.strides = <Py_ssize_t*>PyArray_STRIDES(self)
2160
* info.shape = <Py_ssize_t*>PyArray_DIMS(self)
2161
* info.suboffsets = NULL # <<<<<<<<<<<<<<
2162
* info.itemsize = PyArray_ITEMSIZE(self)
2163
* info.readonly = not PyArray_ISWRITEABLE(self)
2164
*/
2165
__pyx_v_info->suboffsets = NULL;
2166
2167
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":225
2168
* info.shape = <Py_ssize_t*>PyArray_DIMS(self)
2169
* info.suboffsets = NULL
2170
* info.itemsize = PyArray_ITEMSIZE(self) # <<<<<<<<<<<<<<
2171
* info.readonly = not PyArray_ISWRITEABLE(self)
2172
*
2173
*/
2174
__pyx_v_info->itemsize = PyArray_ITEMSIZE(((PyArrayObject *)__pyx_v_self));
2175
2176
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":226
2177
* info.suboffsets = NULL
2178
* info.itemsize = PyArray_ITEMSIZE(self)
2179
* info.readonly = not PyArray_ISWRITEABLE(self) # <<<<<<<<<<<<<<
2180
*
2181
* cdef int t
2182
*/
2183
__pyx_v_info->readonly = (!PyArray_ISWRITEABLE(((PyArrayObject *)__pyx_v_self)));
2184
2185
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":229
2186
*
2187
* cdef int t
2188
* cdef char* f = NULL # <<<<<<<<<<<<<<
2189
* cdef dtype descr = self.descr
2190
* cdef list stack
2191
*/
2192
__pyx_v_f = NULL;
2193
2194
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":230
2195
* cdef int t
2196
* cdef char* f = NULL
2197
* cdef dtype descr = self.descr # <<<<<<<<<<<<<<
2198
* cdef list stack
2199
* cdef int offset
2200
*/
2201
__Pyx_INCREF(((PyObject *)((PyArrayObject *)__pyx_v_self)->descr));
2202
__pyx_v_descr = ((PyArrayObject *)__pyx_v_self)->descr;
2203
2204
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":234
2205
* cdef int offset
2206
*
2207
* cdef bint hasfields = PyDataType_HASFIELDS(descr) # <<<<<<<<<<<<<<
2208
*
2209
* if not hasfields and not copy_shape:
2210
*/
2211
__pyx_v_hasfields = PyDataType_HASFIELDS(__pyx_v_descr);
2212
2213
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":236
2214
* cdef bint hasfields = PyDataType_HASFIELDS(descr)
2215
*
2216
* if not hasfields and not copy_shape: # <<<<<<<<<<<<<<
2217
* # do not call releasebuffer
2218
* info.obj = None
2219
*/
2220
__pyx_t_2 = (!__pyx_v_hasfields);
2221
if (__pyx_t_2) {
2222
__pyx_t_3 = (!__pyx_v_copy_shape);
2223
__pyx_t_1 = __pyx_t_3;
2224
} else {
2225
__pyx_t_1 = __pyx_t_2;
2226
}
2227
if (__pyx_t_1) {
2228
2229
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":238
2230
* if not hasfields and not copy_shape:
2231
* # do not call releasebuffer
2232
* info.obj = None # <<<<<<<<<<<<<<
2233
* else:
2234
* # need to call releasebuffer
2235
*/
2236
__Pyx_INCREF(Py_None);
2237
__Pyx_GIVEREF(Py_None);
2238
__Pyx_GOTREF(__pyx_v_info->obj);
2239
__Pyx_DECREF(__pyx_v_info->obj);
2240
__pyx_v_info->obj = Py_None;
2241
goto __pyx_L11;
2242
}
2243
/*else*/ {
2244
2245
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":241
2246
* else:
2247
* # need to call releasebuffer
2248
* info.obj = self # <<<<<<<<<<<<<<
2249
*
2250
* if not hasfields:
2251
*/
2252
__Pyx_INCREF(__pyx_v_self);
2253
__Pyx_GIVEREF(__pyx_v_self);
2254
__Pyx_GOTREF(__pyx_v_info->obj);
2255
__Pyx_DECREF(__pyx_v_info->obj);
2256
__pyx_v_info->obj = __pyx_v_self;
2257
}
2258
__pyx_L11:;
2259
2260
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":243
2261
* info.obj = self
2262
*
2263
* if not hasfields: # <<<<<<<<<<<<<<
2264
* t = descr.type_num
2265
* if ((descr.byteorder == '>' and little_endian) or
2266
*/
2267
__pyx_t_1 = (!__pyx_v_hasfields);
2268
if (__pyx_t_1) {
2269
2270
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":244
2271
*
2272
* if not hasfields:
2273
* t = descr.type_num # <<<<<<<<<<<<<<
2274
* if ((descr.byteorder == '>' and little_endian) or
2275
* (descr.byteorder == '<' and not little_endian)):
2276
*/
2277
__pyx_v_t = __pyx_v_descr->type_num;
2278
2279
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":245
2280
* if not hasfields:
2281
* t = descr.type_num
2282
* if ((descr.byteorder == '>' and little_endian) or # <<<<<<<<<<<<<<
2283
* (descr.byteorder == '<' and not little_endian)):
2284
* raise ValueError(u"Non-native byte order not supported")
2285
*/
2286
__pyx_t_1 = (__pyx_v_descr->byteorder == '>');
2287
if (__pyx_t_1) {
2288
__pyx_t_2 = __pyx_v_little_endian;
2289
} else {
2290
__pyx_t_2 = __pyx_t_1;
2291
}
2292
if (!__pyx_t_2) {
2293
2294
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":246
2295
* t = descr.type_num
2296
* if ((descr.byteorder == '>' and little_endian) or
2297
* (descr.byteorder == '<' and not little_endian)): # <<<<<<<<<<<<<<
2298
* raise ValueError(u"Non-native byte order not supported")
2299
* if t == NPY_BYTE: f = "b"
2300
*/
2301
__pyx_t_1 = (__pyx_v_descr->byteorder == '<');
2302
if (__pyx_t_1) {
2303
__pyx_t_3 = (!__pyx_v_little_endian);
2304
__pyx_t_8 = __pyx_t_3;
2305
} else {
2306
__pyx_t_8 = __pyx_t_1;
2307
}
2308
__pyx_t_1 = __pyx_t_8;
2309
} else {
2310
__pyx_t_1 = __pyx_t_2;
2311
}
2312
if (__pyx_t_1) {
2313
2314
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":247
2315
* if ((descr.byteorder == '>' and little_endian) or
2316
* (descr.byteorder == '<' and not little_endian)):
2317
* raise ValueError(u"Non-native byte order not supported") # <<<<<<<<<<<<<<
2318
* if t == NPY_BYTE: f = "b"
2319
* elif t == NPY_UBYTE: f = "B"
2320
*/
2321
__pyx_t_4 = PyTuple_New(1); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 247; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
2322
__Pyx_GOTREF(__pyx_t_4);
2323
__Pyx_INCREF(((PyObject *)__pyx_kp_u_3));
2324
PyTuple_SET_ITEM(__pyx_t_4, 0, ((PyObject *)__pyx_kp_u_3));
2325
__Pyx_GIVEREF(((PyObject *)__pyx_kp_u_3));
2326
__pyx_t_5 = PyObject_Call(__pyx_builtin_ValueError, __pyx_t_4, NULL); if (unlikely(!__pyx_t_5)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 247; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
2327
__Pyx_GOTREF(__pyx_t_5);
2328
__Pyx_DECREF(__pyx_t_4); __pyx_t_4 = 0;
2329
__Pyx_Raise(__pyx_t_5, 0, 0);
2330
__Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
2331
{__pyx_filename = __pyx_f[1]; __pyx_lineno = 247; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
2332
goto __pyx_L13;
2333
}
2334
__pyx_L13:;
2335
2336
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":248
2337
* (descr.byteorder == '<' and not little_endian)):
2338
* raise ValueError(u"Non-native byte order not supported")
2339
* if t == NPY_BYTE: f = "b" # <<<<<<<<<<<<<<
2340
* elif t == NPY_UBYTE: f = "B"
2341
* elif t == NPY_SHORT: f = "h"
2342
*/
2343
__pyx_t_1 = (__pyx_v_t == NPY_BYTE);
2344
if (__pyx_t_1) {
2345
__pyx_v_f = __pyx_k__b;
2346
goto __pyx_L14;
2347
}
2348
2349
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":249
2350
* raise ValueError(u"Non-native byte order not supported")
2351
* if t == NPY_BYTE: f = "b"
2352
* elif t == NPY_UBYTE: f = "B" # <<<<<<<<<<<<<<
2353
* elif t == NPY_SHORT: f = "h"
2354
* elif t == NPY_USHORT: f = "H"
2355
*/
2356
__pyx_t_1 = (__pyx_v_t == NPY_UBYTE);
2357
if (__pyx_t_1) {
2358
__pyx_v_f = __pyx_k__B;
2359
goto __pyx_L14;
2360
}
2361
2362
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":250
2363
* if t == NPY_BYTE: f = "b"
2364
* elif t == NPY_UBYTE: f = "B"
2365
* elif t == NPY_SHORT: f = "h" # <<<<<<<<<<<<<<
2366
* elif t == NPY_USHORT: f = "H"
2367
* elif t == NPY_INT: f = "i"
2368
*/
2369
__pyx_t_1 = (__pyx_v_t == NPY_SHORT);
2370
if (__pyx_t_1) {
2371
__pyx_v_f = __pyx_k__h;
2372
goto __pyx_L14;
2373
}
2374
2375
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":251
2376
* elif t == NPY_UBYTE: f = "B"
2377
* elif t == NPY_SHORT: f = "h"
2378
* elif t == NPY_USHORT: f = "H" # <<<<<<<<<<<<<<
2379
* elif t == NPY_INT: f = "i"
2380
* elif t == NPY_UINT: f = "I"
2381
*/
2382
__pyx_t_1 = (__pyx_v_t == NPY_USHORT);
2383
if (__pyx_t_1) {
2384
__pyx_v_f = __pyx_k__H;
2385
goto __pyx_L14;
2386
}
2387
2388
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":252
2389
* elif t == NPY_SHORT: f = "h"
2390
* elif t == NPY_USHORT: f = "H"
2391
* elif t == NPY_INT: f = "i" # <<<<<<<<<<<<<<
2392
* elif t == NPY_UINT: f = "I"
2393
* elif t == NPY_LONG: f = "l"
2394
*/
2395
__pyx_t_1 = (__pyx_v_t == NPY_INT);
2396
if (__pyx_t_1) {
2397
__pyx_v_f = __pyx_k__i;
2398
goto __pyx_L14;
2399
}
2400
2401
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":253
2402
* elif t == NPY_USHORT: f = "H"
2403
* elif t == NPY_INT: f = "i"
2404
* elif t == NPY_UINT: f = "I" # <<<<<<<<<<<<<<
2405
* elif t == NPY_LONG: f = "l"
2406
* elif t == NPY_ULONG: f = "L"
2407
*/
2408
__pyx_t_1 = (__pyx_v_t == NPY_UINT);
2409
if (__pyx_t_1) {
2410
__pyx_v_f = __pyx_k__I;
2411
goto __pyx_L14;
2412
}
2413
2414
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":254
2415
* elif t == NPY_INT: f = "i"
2416
* elif t == NPY_UINT: f = "I"
2417
* elif t == NPY_LONG: f = "l" # <<<<<<<<<<<<<<
2418
* elif t == NPY_ULONG: f = "L"
2419
* elif t == NPY_LONGLONG: f = "q"
2420
*/
2421
__pyx_t_1 = (__pyx_v_t == NPY_LONG);
2422
if (__pyx_t_1) {
2423
__pyx_v_f = __pyx_k__l;
2424
goto __pyx_L14;
2425
}
2426
2427
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":255
2428
* elif t == NPY_UINT: f = "I"
2429
* elif t == NPY_LONG: f = "l"
2430
* elif t == NPY_ULONG: f = "L" # <<<<<<<<<<<<<<
2431
* elif t == NPY_LONGLONG: f = "q"
2432
* elif t == NPY_ULONGLONG: f = "Q"
2433
*/
2434
__pyx_t_1 = (__pyx_v_t == NPY_ULONG);
2435
if (__pyx_t_1) {
2436
__pyx_v_f = __pyx_k__L;
2437
goto __pyx_L14;
2438
}
2439
2440
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":256
2441
* elif t == NPY_LONG: f = "l"
2442
* elif t == NPY_ULONG: f = "L"
2443
* elif t == NPY_LONGLONG: f = "q" # <<<<<<<<<<<<<<
2444
* elif t == NPY_ULONGLONG: f = "Q"
2445
* elif t == NPY_FLOAT: f = "f"
2446
*/
2447
__pyx_t_1 = (__pyx_v_t == NPY_LONGLONG);
2448
if (__pyx_t_1) {
2449
__pyx_v_f = __pyx_k__q;
2450
goto __pyx_L14;
2451
}
2452
2453
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":257
2454
* elif t == NPY_ULONG: f = "L"
2455
* elif t == NPY_LONGLONG: f = "q"
2456
* elif t == NPY_ULONGLONG: f = "Q" # <<<<<<<<<<<<<<
2457
* elif t == NPY_FLOAT: f = "f"
2458
* elif t == NPY_DOUBLE: f = "d"
2459
*/
2460
__pyx_t_1 = (__pyx_v_t == NPY_ULONGLONG);
2461
if (__pyx_t_1) {
2462
__pyx_v_f = __pyx_k__Q;
2463
goto __pyx_L14;
2464
}
2465
2466
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":258
2467
* elif t == NPY_LONGLONG: f = "q"
2468
* elif t == NPY_ULONGLONG: f = "Q"
2469
* elif t == NPY_FLOAT: f = "f" # <<<<<<<<<<<<<<
2470
* elif t == NPY_DOUBLE: f = "d"
2471
* elif t == NPY_LONGDOUBLE: f = "g"
2472
*/
2473
__pyx_t_1 = (__pyx_v_t == NPY_FLOAT);
2474
if (__pyx_t_1) {
2475
__pyx_v_f = __pyx_k__f;
2476
goto __pyx_L14;
2477
}
2478
2479
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":259
2480
* elif t == NPY_ULONGLONG: f = "Q"
2481
* elif t == NPY_FLOAT: f = "f"
2482
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2483
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2492
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":260
2493
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2494
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2495
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2497
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2504
2505
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":261
2506
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2507
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2514
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2517
2518
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":262
2519
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2520
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2527
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2529
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2530
2531
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":263
2532
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2533
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2544
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2558
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":266
2559
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2584
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2684
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2701
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2712
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2713
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2714
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2723
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2727
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2728
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2739
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2752
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2765
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2778
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2785
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2791
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2817
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2824
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2830
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2863
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2869
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3042
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3089
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":788
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/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":789
3105
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3124
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goto __pyx_L6;
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3146
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":800
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3154
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3157
__Pyx_GOTREF(__pyx_t_3);
3158
__Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
3159
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3160
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3161
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3163
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":801
3164
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3166
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3168
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3169
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3170
(__pyx_v_f[0]) = 120;
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3172
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":802
3173
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3174
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3175
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3176
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3177
*
3178
*/
3179
__pyx_v_f += 1;
3180
3181
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":803
3182
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3183
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3184
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3186
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3187
*/
3188
(__pyx_v_offset[0]) += 1;
3189
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3190
3191
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":805
3192
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3193
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3194
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3196
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3197
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3198
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3200
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":807
3201
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3202
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3203
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3205
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3206
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3207
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3208
if (__pyx_t_6) {
3209
3210
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":808
3211
*
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3213
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3215
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3217
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3218
__Pyx_GOTREF(__pyx_t_3);
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__Pyx_DECREF(__pyx_v_t);
3220
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3221
__pyx_t_3 = 0;
3222
3223
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":809
3224
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3225
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3230
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3231
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3232
3233
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":810
3234
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3235
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3236
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3238
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__Pyx_GOTREF(__pyx_t_3);
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__Pyx_INCREF(((PyObject *)__pyx_kp_u_6));
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PyTuple_SET_ITEM(__pyx_t_3, 0, ((PyObject *)__pyx_kp_u_6));
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__Pyx_GIVEREF(((PyObject *)__pyx_kp_u_6));
3245
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3246
__Pyx_GOTREF(__pyx_t_5);
3247
__Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
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__Pyx_Raise(__pyx_t_5, 0, 0);
3249
__Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
3250
{__pyx_filename = __pyx_f[1]; __pyx_lineno = 810; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3251
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3252
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3253
__pyx_L10:;
3254
3255
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":813
3256
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3257
* # Until ticket #99 is fixed, use integers to avoid warnings
3258
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3259
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3260
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3261
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3262
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3263
__Pyx_GOTREF(__pyx_t_5);
3264
__pyx_t_3 = PyObject_RichCompare(__pyx_v_t, __pyx_t_5, Py_EQ); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 813; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3265
__Pyx_GOTREF(__pyx_t_3);
3266
__Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
3267
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3268
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3269
if (__pyx_t_6) {
3270
(__pyx_v_f[0]) = 98;
3271
goto __pyx_L11;
3272
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3273
3274
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":814
3275
* # Until ticket #99 is fixed, use integers to avoid warnings
3276
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3277
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3278
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3279
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3280
*/
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3282
__Pyx_GOTREF(__pyx_t_3);
3283
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3284
__Pyx_GOTREF(__pyx_t_5);
3285
__Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
3286
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3287
__Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
3288
if (__pyx_t_6) {
3289
(__pyx_v_f[0]) = 66;
3290
goto __pyx_L11;
3291
}
3292
3293
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":815
3294
* if t == NPY_BYTE: f[0] = 98 #"b"
3295
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3296
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3297
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3298
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3299
*/
3300
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3301
__Pyx_GOTREF(__pyx_t_5);
3302
__pyx_t_3 = PyObject_RichCompare(__pyx_v_t, __pyx_t_5, Py_EQ); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 815; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3303
__Pyx_GOTREF(__pyx_t_3);
3304
__Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
3305
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3306
__Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
3307
if (__pyx_t_6) {
3308
(__pyx_v_f[0]) = 104;
3309
goto __pyx_L11;
3310
}
3311
3312
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":816
3313
* elif t == NPY_UBYTE: f[0] = 66 #"B"
3314
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3315
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3316
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3317
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3318
*/
3319
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3320
__Pyx_GOTREF(__pyx_t_3);
3321
__pyx_t_5 = PyObject_RichCompare(__pyx_v_t, __pyx_t_3, Py_EQ); if (unlikely(!__pyx_t_5)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 816; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3322
__Pyx_GOTREF(__pyx_t_5);
3323
__Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
3324
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3325
__Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
3326
if (__pyx_t_6) {
3327
(__pyx_v_f[0]) = 72;
3328
goto __pyx_L11;
3329
}
3330
3331
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":817
3332
* elif t == NPY_SHORT: f[0] = 104 #"h"
3333
* elif t == NPY_USHORT: f[0] = 72 #"H"
3334
* elif t == NPY_INT: f[0] = 105 #"i" # <<<<<<<<<<<<<<
3335
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3336
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3337
*/
3338
__pyx_t_5 = PyInt_FromLong(NPY_INT); if (unlikely(!__pyx_t_5)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 817; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3339
__Pyx_GOTREF(__pyx_t_5);
3340
__pyx_t_3 = PyObject_RichCompare(__pyx_v_t, __pyx_t_5, Py_EQ); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 817; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3341
__Pyx_GOTREF(__pyx_t_3);
3342
__Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
3343
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3344
__Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
3345
if (__pyx_t_6) {
3346
(__pyx_v_f[0]) = 105;
3347
goto __pyx_L11;
3348
}
3349
3350
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":818
3351
* elif t == NPY_USHORT: f[0] = 72 #"H"
3352
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3353
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3354
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3355
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3356
*/
3357
__pyx_t_3 = PyInt_FromLong(NPY_UINT); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 818; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3358
__Pyx_GOTREF(__pyx_t_3);
3359
__pyx_t_5 = PyObject_RichCompare(__pyx_v_t, __pyx_t_3, Py_EQ); if (unlikely(!__pyx_t_5)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 818; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3360
__Pyx_GOTREF(__pyx_t_5);
3361
__Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
3362
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3363
__Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
3364
if (__pyx_t_6) {
3365
(__pyx_v_f[0]) = 73;
3366
goto __pyx_L11;
3367
}
3368
3369
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":819
3370
* elif t == NPY_INT: f[0] = 105 #"i"
3371
* elif t == NPY_UINT: f[0] = 73 #"I"
3372
* elif t == NPY_LONG: f[0] = 108 #"l" # <<<<<<<<<<<<<<
3373
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3374
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3375
*/
3376
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3377
__Pyx_GOTREF(__pyx_t_5);
3378
__pyx_t_3 = PyObject_RichCompare(__pyx_v_t, __pyx_t_5, Py_EQ); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 819; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3379
__Pyx_GOTREF(__pyx_t_3);
3380
__Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
3381
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3382
__Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
3383
if (__pyx_t_6) {
3384
(__pyx_v_f[0]) = 108;
3385
goto __pyx_L11;
3386
}
3387
3388
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":820
3389
* elif t == NPY_UINT: f[0] = 73 #"I"
3390
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3391
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3392
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3393
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3395
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3396
__Pyx_GOTREF(__pyx_t_3);
3397
__pyx_t_5 = PyObject_RichCompare(__pyx_v_t, __pyx_t_3, Py_EQ); if (unlikely(!__pyx_t_5)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 820; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3398
__Pyx_GOTREF(__pyx_t_5);
3399
__Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
3400
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3401
__Pyx_DECREF(__pyx_t_5); __pyx_t_5 = 0;
3402
if (__pyx_t_6) {
3403
(__pyx_v_f[0]) = 76;
3404
goto __pyx_L11;
3405
}
3406
3407
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":821
3408
* elif t == NPY_LONG: f[0] = 108 #"l"
3409
* elif t == NPY_ULONG: f[0] = 76 #"L"
3410
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* elif t == NPY_ULONGLONG: f[0] = 81 #"Q"
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3414
__pyx_t_5 = PyInt_FromLong(NPY_LONGLONG); if (unlikely(!__pyx_t_5)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 821; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3415
__Pyx_GOTREF(__pyx_t_5);
3416
__pyx_t_3 = PyObject_RichCompare(__pyx_v_t, __pyx_t_5, Py_EQ); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 821; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3417
__Pyx_GOTREF(__pyx_t_3);
3418
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3445
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3465
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3483
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":825
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3502
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3503
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3524
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__Pyx_GOTREF(__pyx_t_3);
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3544
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3565
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3566
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3585
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/numpy.pxd":831
3586
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3609
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3620
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3680
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3690
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__Pyx_DECREF(((PyObject *)__pyx_t_1)); __pyx_t_1 = 0;
3984
__pyx_t_1 = PyObject_GetAttr(__pyx_t_2, __pyx_n_s__pi); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3985
__Pyx_GOTREF(__pyx_t_1);
3986
if (PyObject_SetAttr(__pyx_m, __pyx_n_s__pi, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3987
__Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
3988
__pyx_t_1 = PyObject_GetAttr(__pyx_t_2, __pyx_n_s__exp); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3989
__Pyx_GOTREF(__pyx_t_1);
3990
if (PyObject_SetAttr(__pyx_m, __pyx_n_s__exp, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3991
__Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
3992
__pyx_t_1 = PyObject_GetAttr(__pyx_t_2, __pyx_n_s__sqrt); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3993
__Pyx_GOTREF(__pyx_t_1);
3994
if (PyObject_SetAttr(__pyx_m, __pyx_n_s__sqrt, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3995
__Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
3996
__pyx_t_1 = PyObject_GetAttr(__pyx_t_2, __pyx_n_s__cos); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3997
__Pyx_GOTREF(__pyx_t_1);
3998
if (PyObject_SetAttr(__pyx_m, __pyx_n_s__cos, __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
3999
__Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
4000
__Pyx_DECREF(__pyx_t_2); __pyx_t_2 = 0;
4001
4002
/* "/Users/gavin/DevRepos/PyCogent-trunk/cogent/maths/_period.pyx":47
4003
* xc[m+N-1] += (x[n]*x[n-m])
4004
*
4005
* def seq_to_symbols(char* seq, list motifs, int motif_length, # <<<<<<<<<<<<<<
4006
* np.ndarray[np.uint8_t, ndim=1] result):
4007
* cdef int i, j, N, num_motifs
4008
*/
4009
__pyx_t_2 = PyDict_New(); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
4010
__Pyx_GOTREF(((PyObject *)__pyx_t_2));
4011
4012
/* "/Users/gavin/DevRepos/PyCogent-trunk/cogent/maths/_period.pyx":1
4013
* from numpy import pi, exp, sqrt, cos # <<<<<<<<<<<<<<
4014
* cimport numpy as np
4015
*
4016
*/
4017
__pyx_t_1 = PyObject_GetAttr(__pyx_m, __pyx_n_s__goertzel_inner); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
4018
__Pyx_GOTREF(__pyx_t_1);
4019
__pyx_t_3 = __Pyx_GetAttrString(__pyx_t_1, "__doc__");
4020
__Pyx_GOTREF(__pyx_t_3);
4021
__Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
4022
if (PyDict_SetItem(__pyx_t_2, ((PyObject *)__pyx_kp_u_7), __pyx_t_3) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
4023
__Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
4024
__pyx_t_3 = PyObject_GetAttr(__pyx_m, __pyx_n_s__ipdft_inner); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
4025
__Pyx_GOTREF(__pyx_t_3);
4026
__pyx_t_1 = __Pyx_GetAttrString(__pyx_t_3, "__doc__");
4027
__Pyx_GOTREF(__pyx_t_1);
4028
__Pyx_DECREF(__pyx_t_3); __pyx_t_3 = 0;
4029
if (PyDict_SetItem(__pyx_t_2, ((PyObject *)__pyx_kp_u_8), __pyx_t_1) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
4030
__Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
4031
if (PyObject_SetAttr(__pyx_m, __pyx_n_s____test__, ((PyObject *)__pyx_t_2)) < 0) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;}
4032
__Pyx_DECREF(((PyObject *)__pyx_t_2)); __pyx_t_2 = 0;
4033
4034
/* "/Users/gavin/DevSandbox/trunk/lib/python2.6/site-packages/Cython-0.12.1-py2.6-macosx-10.6-universal.egg/Cython/Includes/stdlib.pxd":2
4035
*
4036
* cdef extern from "stdlib.h" nogil: # <<<<<<<<<<<<<<
4037
* void free(void *ptr)
4038
* void *malloc(size_t size)
4039
*/
4040
goto __pyx_L0;
4041
__pyx_L1_error:;
4042
__Pyx_XDECREF(__pyx_t_1);
4043
__Pyx_XDECREF(__pyx_t_2);
4044
__Pyx_XDECREF(__pyx_t_3);
4045
if (__pyx_m) {
4046
__Pyx_AddTraceback("init cogent.maths._period");
4047
Py_DECREF(__pyx_m); __pyx_m = 0;
4048
} else if (!PyErr_Occurred()) {
4049
PyErr_SetString(PyExc_ImportError, "init cogent.maths._period");
4050
}
4051
__pyx_L0:;
4052
__Pyx_RefNannyFinishContext();
4053
#if PY_MAJOR_VERSION < 3
4054
return;
4055
#else
4056
return __pyx_m;
4057
#endif
4058
}
4059
4060
static const char *__pyx_filenames[] = {
4061
"_period.pyx",
4062
"numpy.pxd",
4063
};
4064
4065
/* Runtime support code */
4066
4067
static void __pyx_init_filenames(void) {
4068
__pyx_f = __pyx_filenames;
4069
}
4070
4071
static void __Pyx_RaiseDoubleKeywordsError(
4072
const char* func_name,
4073
PyObject* kw_name)
4074
{
4075
PyErr_Format(PyExc_TypeError,
4076
#if PY_MAJOR_VERSION >= 3
4077
"%s() got multiple values for keyword argument '%U'", func_name, kw_name);
4078
#else
4079
"%s() got multiple values for keyword argument '%s'", func_name,
4080
PyString_AS_STRING(kw_name));
4081
#endif
4082
}
4083
4084
static void __Pyx_RaiseArgtupleInvalid(
4085
const char* func_name,
4086
int exact,
4087
Py_ssize_t num_min,
4088
Py_ssize_t num_max,
4089
Py_ssize_t num_found)
4090
{
4091
Py_ssize_t num_expected;
4092
const char *number, *more_or_less;
4093
4094
if (num_found < num_min) {
4095
num_expected = num_min;
4096
more_or_less = "at least";
4097
} else {
4098
num_expected = num_max;
4099
more_or_less = "at most";
4100
}
4101
if (exact) {
4102
more_or_less = "exactly";
4103
}
4104
number = (num_expected == 1) ? "" : "s";
4105
PyErr_Format(PyExc_TypeError,
4106
#if PY_VERSION_HEX < 0x02050000
4107
"%s() takes %s %d positional argument%s (%d given)",
4108
#else
4109
"%s() takes %s %zd positional argument%s (%zd given)",
4110
#endif
4111
func_name, more_or_less, num_expected, number, num_found);
4112
}
4113
4114
static int __Pyx_ParseOptionalKeywords(
4115
PyObject *kwds,
4116
PyObject **argnames[],
4117
PyObject *kwds2,
4118
PyObject *values[],
4119
Py_ssize_t num_pos_args,
4120
const char* function_name)
4121
{
4122
PyObject *key = 0, *value = 0;
4123
Py_ssize_t pos = 0;
4124
PyObject*** name;
4125
PyObject*** first_kw_arg = argnames + num_pos_args;
4126
4127
while (PyDict_Next(kwds, &pos, &key, &value)) {
4128
name = first_kw_arg;
4129
while (*name && (**name != key)) name++;
4130
if (*name) {
4131
values[name-argnames] = value;
4132
} else {
4133
#if PY_MAJOR_VERSION < 3
4134
if (unlikely(!PyString_CheckExact(key)) && unlikely(!PyString_Check(key))) {
4135
#else
4136
if (unlikely(!PyUnicode_CheckExact(key)) && unlikely(!PyUnicode_Check(key))) {
4137
#endif
4138
goto invalid_keyword_type;
4139
} else {
4140
for (name = first_kw_arg; *name; name++) {
4141
#if PY_MAJOR_VERSION >= 3
4142
if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) &&
4143
PyUnicode_Compare(**name, key) == 0) break;
4144
#else
4145
if (PyString_GET_SIZE(**name) == PyString_GET_SIZE(key) &&
4146
_PyString_Eq(**name, key)) break;
4147
#endif
4148
}
4149
if (*name) {
4150
values[name-argnames] = value;
4151
} else {
4152
/* unexpected keyword found */
4153
for (name=argnames; name != first_kw_arg; name++) {
4154
if (**name == key) goto arg_passed_twice;
4155
#if PY_MAJOR_VERSION >= 3
4156
if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) &&
4157
PyUnicode_Compare(**name, key) == 0) goto arg_passed_twice;
4158
#else
4159
if (PyString_GET_SIZE(**name) == PyString_GET_SIZE(key) &&
4160
_PyString_Eq(**name, key)) goto arg_passed_twice;
4161
#endif
4162
}
4163
if (kwds2) {
4164
if (unlikely(PyDict_SetItem(kwds2, key, value))) goto bad;
4165
} else {
4166
goto invalid_keyword;
4167
}
4168
}
4169
}
4170
}
4171
}
4172
return 0;
4173
arg_passed_twice:
4174
__Pyx_RaiseDoubleKeywordsError(function_name, **name);
4175
goto bad;
4176
invalid_keyword_type:
4177
PyErr_Format(PyExc_TypeError,
4178
"%s() keywords must be strings", function_name);
4179
goto bad;
4180
invalid_keyword:
4181
PyErr_Format(PyExc_TypeError,
4182
#if PY_MAJOR_VERSION < 3
4183
"%s() got an unexpected keyword argument '%s'",
4184
function_name, PyString_AsString(key));
4185
#else
4186
"%s() got an unexpected keyword argument '%U'",
4187
function_name, key);
4188
#endif
4189
bad:
4190
return -1;
4191
}
4192
4193
static CYTHON_INLINE int __Pyx_IsLittleEndian(void) {
4194
unsigned int n = 1;
4195
return *(unsigned char*)(&n) != 0;
4196
}
4197
4198
typedef struct {
4199
__Pyx_StructField root;
4200
__Pyx_BufFmt_StackElem* head;
4201
size_t fmt_offset;
4202
int new_count, enc_count;
4203
int is_complex;
4204
char enc_type;
4205
char packmode;
4206
} __Pyx_BufFmt_Context;
4207
4208
static void __Pyx_BufFmt_Init(__Pyx_BufFmt_Context* ctx,
4209
__Pyx_BufFmt_StackElem* stack,
4210
__Pyx_TypeInfo* type) {
4211
stack[0].field = &ctx->root;
4212
stack[0].parent_offset = 0;
4213
ctx->root.type = type;
4214
ctx->root.name = "buffer dtype";
4215
ctx->root.offset = 0;
4216
ctx->head = stack;
4217
ctx->head->field = &ctx->root;
4218
ctx->fmt_offset = 0;
4219
ctx->head->parent_offset = 0;
4220
ctx->packmode = '@';
4221
ctx->new_count = 1;
4222
ctx->enc_count = 0;
4223
ctx->enc_type = 0;
4224
ctx->is_complex = 0;
4225
while (type->typegroup == 'S') {
4226
++ctx->head;
4227
ctx->head->field = type->fields;
4228
ctx->head->parent_offset = 0;
4229
type = type->fields->type;
4230
}
4231
}
4232
4233
static int __Pyx_BufFmt_ParseNumber(const char** ts) {
4234
int count;
4235
const char* t = *ts;
4236
if (*t < '0' || *t > '9') {
4237
return -1;
4238
} else {
4239
count = *t++ - '0';
4240
while (*t >= '0' && *t < '9') {
4241
count *= 10;
4242
count += *t++ - '0';
4243
}
4244
}
4245
*ts = t;
4246
return count;
4247
}
4248
4249
static void __Pyx_BufFmt_RaiseUnexpectedChar(char ch) {
4250
char msg[] = {ch, 0};
4251
PyErr_Format(PyExc_ValueError, "Unexpected format string character: '%s'", msg);
4252
}
4253
4254
static const char* __Pyx_BufFmt_DescribeTypeChar(char ch, int is_complex) {
4255
switch (ch) {
4256
case 'b': return "'char'";
4257
case 'B': return "'unsigned char'";
4258
case 'h': return "'short'";
4259
case 'H': return "'unsigned short'";
4260
case 'i': return "'int'";
4261
case 'I': return "'unsigned int'";
4262
case 'l': return "'long'";
4263
case 'L': return "'unsigned long'";
4264
case 'q': return "'long long'";
4265
case 'Q': return "'unsigned long long'";
4266
case 'f': return (is_complex ? "'complex float'" : "'float'");
4267
case 'd': return (is_complex ? "'complex double'" : "'double'");
4268
case 'g': return (is_complex ? "'complex long double'" : "'long double'");
4269
case 'T': return "a struct";
4270
case 'O': return "Python object";
4271
case 'P': return "a pointer";
4272
case 0: return "end";
4273
default: return "unparseable format string";
4274
}
4275
}
4276
4277
static size_t __Pyx_BufFmt_TypeCharToStandardSize(char ch, int is_complex) {
4278
switch (ch) {
4279
case '?': case 'c': case 'b': case 'B': return 1;
4280
case 'h': case 'H': return 2;
4281
case 'i': case 'I': case 'l': case 'L': return 4;
4282
case 'q': case 'Q': return 8;
4283
case 'f': return (is_complex ? 8 : 4);
4284
case 'd': return (is_complex ? 16 : 8);
4285
case 'g': {
4286
PyErr_SetString(PyExc_ValueError, "Python does not define a standard format string size for long double ('g')..");
4287
return 0;
4288
}
4289
case 'O': case 'P': return sizeof(void*);
4290
default:
4291
__Pyx_BufFmt_RaiseUnexpectedChar(ch);
4292
return 0;
4293
}
4294
}
4295
4296
static size_t __Pyx_BufFmt_TypeCharToNativeSize(char ch, int is_complex) {
4297
switch (ch) {
4298
case 'c': case 'b': case 'B': return 1;
4299
case 'h': case 'H': return sizeof(short);
4300
case 'i': case 'I': return sizeof(int);
4301
case 'l': case 'L': return sizeof(long);
4302
#ifdef HAVE_LONG_LONG
4303
case 'q': case 'Q': return sizeof(PY_LONG_LONG);
4304
#endif
4305
case 'f': return sizeof(float) * (is_complex ? 2 : 1);
4306
case 'd': return sizeof(double) * (is_complex ? 2 : 1);
4307
case 'g': return sizeof(long double) * (is_complex ? 2 : 1);
4308
case 'O': case 'P': return sizeof(void*);
4309
default: {
4310
__Pyx_BufFmt_RaiseUnexpectedChar(ch);
4311
return 0;
4312
}
4313
}
4314
}
4315
4316
typedef struct { char c; short x; } __Pyx_st_short;
4317
typedef struct { char c; int x; } __Pyx_st_int;
4318
typedef struct { char c; long x; } __Pyx_st_long;
4319
typedef struct { char c; float x; } __Pyx_st_float;
4320
typedef struct { char c; double x; } __Pyx_st_double;
4321
typedef struct { char c; long double x; } __Pyx_st_longdouble;
4322
typedef struct { char c; void *x; } __Pyx_st_void_p;
4323
#ifdef HAVE_LONG_LONG
4324
typedef struct { char c; PY_LONG_LONG x; } __Pyx_s_long_long;
4325
#endif
4326
4327
static size_t __Pyx_BufFmt_TypeCharToAlignment(char ch, int is_complex) {
4328
switch (ch) {
4329
case '?': case 'c': case 'b': case 'B': return 1;
4330
case 'h': case 'H': return sizeof(__Pyx_st_short) - sizeof(short);
4331
case 'i': case 'I': return sizeof(__Pyx_st_int) - sizeof(int);
4332
case 'l': case 'L': return sizeof(__Pyx_st_long) - sizeof(long);
4333
#ifdef HAVE_LONG_LONG
4334
case 'q': case 'Q': return sizeof(__Pyx_s_long_long) - sizeof(PY_LONG_LONG);
4335
#endif
4336
case 'f': return sizeof(__Pyx_st_float) - sizeof(float);
4337
case 'd': return sizeof(__Pyx_st_double) - sizeof(double);
4338
case 'g': return sizeof(__Pyx_st_longdouble) - sizeof(long double);
4339
case 'P': case 'O': return sizeof(__Pyx_st_void_p) - sizeof(void*);
4340
default:
4341
__Pyx_BufFmt_RaiseUnexpectedChar(ch);
4342
return 0;
4343
}
4344
}
4345
4346
static size_t __Pyx_BufFmt_TypeCharToGroup(char ch, int is_complex) {
4347
switch (ch) {
4348
case 'c': case 'b': case 'h': case 'i': case 'l': case 'q': return 'I';
4349
case 'B': case 'H': case 'I': case 'L': case 'Q': return 'U';
4350
case 'f': case 'd': case 'g': return (is_complex ? 'C' : 'R');
4351
case 'O': return 'O';
4352
case 'P': return 'P';
4353
default: {
4354
__Pyx_BufFmt_RaiseUnexpectedChar(ch);
4355
return 0;
4356
}
4357
}
4358
}
4359
4360
static void __Pyx_BufFmt_RaiseExpected(__Pyx_BufFmt_Context* ctx) {
4361
if (ctx->head == NULL || ctx->head->field == &ctx->root) {
4362
const char* expected;
4363
const char* quote;
4364
if (ctx->head == NULL) {
4365
expected = "end";
4366
quote = "";
4367
} else {
4368
expected = ctx->head->field->type->name;
4369
quote = "'";
4370
}
4371
PyErr_Format(PyExc_ValueError,
4372
"Buffer dtype mismatch, expected %s%s%s but got %s",
4373
quote, expected, quote,
4374
__Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex));
4375
} else {
4376
__Pyx_StructField* field = ctx->head->field;
4377
__Pyx_StructField* parent = (ctx->head - 1)->field;
4378
PyErr_Format(PyExc_ValueError,
4379
"Buffer dtype mismatch, expected '%s' but got %s in '%s.%s'",
4380
field->type->name, __Pyx_BufFmt_DescribeTypeChar(ctx->enc_type, ctx->is_complex),
4381
parent->type->name, field->name);
4382
}
4383
}
4384
4385
static int __Pyx_BufFmt_ProcessTypeChunk(__Pyx_BufFmt_Context* ctx) {
4386
char group;
4387
size_t size, offset;
4388
if (ctx->enc_type == 0) return 0;
4389
group = __Pyx_BufFmt_TypeCharToGroup(ctx->enc_type, ctx->is_complex);
4390
do {
4391
__Pyx_StructField* field = ctx->head->field;
4392
__Pyx_TypeInfo* type = field->type;
4393
4394
if (ctx->packmode == '@' || ctx->packmode == '^') {
4395
size = __Pyx_BufFmt_TypeCharToNativeSize(ctx->enc_type, ctx->is_complex);
4396
} else {
4397
size = __Pyx_BufFmt_TypeCharToStandardSize(ctx->enc_type, ctx->is_complex);
4398
}
4399
if (ctx->packmode == '@') {
4400
int align_at = __Pyx_BufFmt_TypeCharToAlignment(ctx->enc_type, ctx->is_complex);
4401
int align_mod_offset;
4402
if (align_at == 0) return -1;
4403
align_mod_offset = ctx->fmt_offset % align_at;
4404
if (align_mod_offset > 0) ctx->fmt_offset += align_at - align_mod_offset;
4405
}
4406
4407
if (type->size != size || type->typegroup != group) {
4408
if (type->typegroup == 'C' && type->fields != NULL) {
4409
/* special case -- treat as struct rather than complex number */
4410
size_t parent_offset = ctx->head->parent_offset + field->offset;
4411
++ctx->head;
4412
ctx->head->field = type->fields;
4413
ctx->head->parent_offset = parent_offset;
4414
continue;
4415
}
4416
4417
__Pyx_BufFmt_RaiseExpected(ctx);
4418
return -1;
4419
}
4420
4421
offset = ctx->head->parent_offset + field->offset;
4422
if (ctx->fmt_offset != offset) {
4423
PyErr_Format(PyExc_ValueError,
4424
"Buffer dtype mismatch; next field is at offset %"PY_FORMAT_SIZE_T"d "
4425
"but %"PY_FORMAT_SIZE_T"d expected", ctx->fmt_offset, offset);
4426
return -1;
4427
}
4428
4429
ctx->fmt_offset += size;
4430
4431
--ctx->enc_count; /* Consume from buffer string */
4432
4433
/* Done checking, move to next field, pushing or popping struct stack if needed */
4434
while (1) {
4435
if (field == &ctx->root) {
4436
ctx->head = NULL;
4437
if (ctx->enc_count != 0) {
4438
__Pyx_BufFmt_RaiseExpected(ctx);
4439
return -1;
4440
}
4441
break; /* breaks both loops as ctx->enc_count == 0 */
4442
}
4443
ctx->head->field = ++field;
4444
if (field->type == NULL) {
4445
--ctx->head;
4446
field = ctx->head->field;
4447
continue;
4448
} else if (field->type->typegroup == 'S') {
4449
size_t parent_offset = ctx->head->parent_offset + field->offset;
4450
if (field->type->fields->type == NULL) continue; /* empty struct */
4451
field = field->type->fields;
4452
++ctx->head;
4453
ctx->head->field = field;
4454
ctx->head->parent_offset = parent_offset;
4455
break;
4456
} else {
4457
break;
4458
}
4459
}
4460
} while (ctx->enc_count);
4461
ctx->enc_type = 0;
4462
ctx->is_complex = 0;
4463
return 0;
4464
}
4465
4466
static int __Pyx_BufFmt_FirstPack(__Pyx_BufFmt_Context* ctx) {
4467
if (ctx->enc_type != 0 || ctx->packmode != '@') {
4468
PyErr_SetString(PyExc_ValueError, "Buffer packing mode currently only allowed at beginning of format string (this is a defect)");
4469
return -1;
4470
}
4471
return 0;
4472
}
4473
4474
static const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context* ctx, const char* ts) {
4475
int got_Z = 0;
4476
while (1) {
4477
switch(*ts) {
4478
case 0:
4479
if (ctx->enc_type != 0 && ctx->head == NULL) {
4480
__Pyx_BufFmt_RaiseExpected(ctx);
4481
return NULL;
4482
}
4483
if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL;
4484
if (ctx->head != NULL) {
4485
__Pyx_BufFmt_RaiseExpected(ctx);
4486
return NULL;
4487
}
4488
return ts;
4489
case ' ':
4490
case 10:
4491
case 13:
4492
++ts;
4493
break;
4494
case '<':
4495
if (!__Pyx_IsLittleEndian()) {
4496
PyErr_SetString(PyExc_ValueError, "Little-endian buffer not supported on big-endian compiler");
4497
return NULL;
4498
}
4499
if (__Pyx_BufFmt_FirstPack(ctx) == -1) return NULL;
4500
ctx->packmode = '=';
4501
++ts;
4502
break;
4503
case '>':
4504
case '!':
4505
if (__Pyx_IsLittleEndian()) {
4506
PyErr_SetString(PyExc_ValueError, "Big-endian buffer not supported on little-endian compiler");
4507
return NULL;
4508
}
4509
if (__Pyx_BufFmt_FirstPack(ctx) == -1) return NULL;
4510
ctx->packmode = '=';
4511
++ts;
4512
break;
4513
case '=':
4514
case '@':
4515
case '^':
4516
if (__Pyx_BufFmt_FirstPack(ctx) == -1) return NULL;
4517
ctx->packmode = *ts++;
4518
break;
4519
case 'T': /* substruct */
4520
{
4521
int i;
4522
const char* ts_after_sub;
4523
int struct_count = ctx->new_count;
4524
ctx->new_count = 1;
4525
++ts;
4526
if (*ts != '{') {
4527
PyErr_SetString(PyExc_ValueError, "Buffer acquisition: Expected '{' after 'T'");
4528
return NULL;
4529
}
4530
++ts;
4531
ts_after_sub = ts;
4532
for (i = 0; i != struct_count; ++i) {
4533
ts_after_sub = __Pyx_BufFmt_CheckString(ctx, ts);
4534
if (!ts_after_sub) return NULL;
4535
}
4536
ts = ts_after_sub;
4537
}
4538
break;
4539
case '}': /* end of substruct; either repeat or move on */
4540
++ts;
4541
return ts;
4542
case 'x':
4543
if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL;
4544
ctx->fmt_offset += ctx->new_count;
4545
ctx->new_count = 1;
4546
ctx->enc_count = 0;
4547
ctx->enc_type = 0;
4548
++ts;
4549
break;
4550
case 'Z':
4551
got_Z = 1;
4552
++ts;
4553
if (*ts != 'f' && *ts != 'd' && *ts != 'g') {
4554
__Pyx_BufFmt_RaiseUnexpectedChar('Z');
4555
return NULL;
4556
} /* fall through */
4557
case 'c': case 'b': case 'B': case 'h': case 'H': case 'i': case 'I':
4558
case 'l': case 'L': case 'q': case 'Q':
4559
case 'f': case 'd': case 'g':
4560
case 'O':
4561
if (ctx->enc_type == *ts && got_Z == ctx->is_complex) {
4562
/* Continue pooling same type */
4563
ctx->enc_count += ctx->new_count;
4564
} else {
4565
/* New type */
4566
if (__Pyx_BufFmt_ProcessTypeChunk(ctx) == -1) return NULL;
4567
ctx->enc_count = ctx->new_count;
4568
ctx->enc_type = *ts;
4569
ctx->is_complex = got_Z;
4570
}
4571
++ts;
4572
ctx->new_count = 1;
4573
got_Z = 0;
4574
break;
4575
default:
4576
{
4577
ctx->new_count = __Pyx_BufFmt_ParseNumber(&ts);
4578
if (ctx->new_count == -1) { /* First char was not a digit */
4579
char msg[2] = { *ts, 0 };
4580
PyErr_Format(PyExc_ValueError,
4581
"Does not understand character buffer dtype format string ('%s')", msg);
4582
return NULL;
4583
}
4584
}
4585
4586
}
4587
}
4588
}
4589
4590
static CYTHON_INLINE void __Pyx_ZeroBuffer(Py_buffer* buf) {
4591
buf->buf = NULL;
4592
buf->obj = NULL;
4593
buf->strides = __Pyx_zeros;
4594
buf->shape = __Pyx_zeros;
4595
buf->suboffsets = __Pyx_minusones;
4596
}
4597
4598
static int __Pyx_GetBufferAndValidate(Py_buffer* buf, PyObject* obj, __Pyx_TypeInfo* dtype, int flags, int nd, int cast, __Pyx_BufFmt_StackElem* stack) {
4599
if (obj == Py_None) {
4600
__Pyx_ZeroBuffer(buf);
4601
return 0;
4602
}
4603
buf->buf = NULL;
4604
if (__Pyx_GetBuffer(obj, buf, flags) == -1) goto fail;
4605
if (buf->ndim != nd) {
4606
PyErr_Format(PyExc_ValueError,
4607
"Buffer has wrong number of dimensions (expected %d, got %d)",
4608
nd, buf->ndim);
4609
goto fail;
4610
}
4611
if (!cast) {
4612
__Pyx_BufFmt_Context ctx;
4613
__Pyx_BufFmt_Init(&ctx, stack, dtype);
4614
if (!__Pyx_BufFmt_CheckString(&ctx, buf->format)) goto fail;
4615
}
4616
if ((unsigned)buf->itemsize != dtype->size) {
4617
PyErr_Format(PyExc_ValueError,
4618
"Item size of buffer (%"PY_FORMAT_SIZE_T"d byte%s) does not match size of '%s' (%"PY_FORMAT_SIZE_T"d byte%s)",
4619
buf->itemsize, (buf->itemsize > 1) ? "s" : "",
4620
dtype->name,
4621
dtype->size, (dtype->size > 1) ? "s" : "");
4622
goto fail;
4623
}
4624
if (buf->suboffsets == NULL) buf->suboffsets = __Pyx_minusones;
4625
return 0;
4626
fail:;
4627
__Pyx_ZeroBuffer(buf);
4628
return -1;
4629
}
4630
4631
static CYTHON_INLINE void __Pyx_SafeReleaseBuffer(Py_buffer* info) {
4632
if (info->buf == NULL) return;
4633
if (info->suboffsets == __Pyx_minusones) info->suboffsets = NULL;
4634
__Pyx_ReleaseBuffer(info);
4635
}
4636
static void __Pyx_RaiseBufferIndexError(int axis) {
4637
PyErr_Format(PyExc_IndexError,
4638
"Out of bounds on buffer access (axis %d)", axis);
4639
}
4640
4641
4642
static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb) {
4643
PyObject *tmp_type, *tmp_value, *tmp_tb;
4644
PyThreadState *tstate = PyThreadState_GET();
4645
4646
tmp_type = tstate->curexc_type;
4647
tmp_value = tstate->curexc_value;
4648
tmp_tb = tstate->curexc_traceback;
4649
tstate->curexc_type = type;
4650
tstate->curexc_value = value;
4651
tstate->curexc_traceback = tb;
4652
Py_XDECREF(tmp_type);
4653
Py_XDECREF(tmp_value);
4654
Py_XDECREF(tmp_tb);
4655
}
4656
4657
static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb) {
4658
PyThreadState *tstate = PyThreadState_GET();
4659
*type = tstate->curexc_type;
4660
*value = tstate->curexc_value;
4661
*tb = tstate->curexc_traceback;
4662
4663
tstate->curexc_type = 0;
4664
tstate->curexc_value = 0;
4665
tstate->curexc_traceback = 0;
4666
}
4667
4668
4669
4670
static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) {
4671
PyErr_Format(PyExc_ValueError,
4672
#if PY_VERSION_HEX < 0x02050000
4673
"need more than %d value%s to unpack", (int)index,
4674
#else
4675
"need more than %zd value%s to unpack", index,
4676
#endif
4677
(index == 1) ? "" : "s");
4678
}
4679
4680
static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(void) {
4681
PyErr_SetString(PyExc_ValueError, "too many values to unpack");
4682
}
4683
4684
static PyObject *__Pyx_UnpackItem(PyObject *iter, Py_ssize_t index) {
4685
PyObject *item;
4686
if (!(item = PyIter_Next(iter))) {
4687
if (!PyErr_Occurred()) {
4688
__Pyx_RaiseNeedMoreValuesError(index);
4689
}
4690
}
4691
return item;
4692
}
4693
4694
static int __Pyx_EndUnpack(PyObject *iter) {
4695
PyObject *item;
4696
if ((item = PyIter_Next(iter))) {
4697
Py_DECREF(item);
4698
__Pyx_RaiseTooManyValuesError();
4699
return -1;
4700
}
4701
else if (!PyErr_Occurred())
4702
return 0;
4703
else
4704
return -1;
4705
}
4706
4707
static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) {
4708
if (unlikely(!type)) {
4709
PyErr_Format(PyExc_SystemError, "Missing type object");
4710
return 0;
4711
}
4712
if (likely(PyObject_TypeCheck(obj, type)))
4713
return 1;
4714
PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s",
4715
Py_TYPE(obj)->tp_name, type->tp_name);
4716
return 0;
4717
}
4718
4719
static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) {
4720
PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable");
4721
}
4722
4723
static void __Pyx_UnpackTupleError(PyObject *t, Py_ssize_t index) {
4724
if (t == Py_None) {
4725
__Pyx_RaiseNoneNotIterableError();
4726
} else if (PyTuple_GET_SIZE(t) < index) {
4727
__Pyx_RaiseNeedMoreValuesError(PyTuple_GET_SIZE(t));
4728
} else {
4729
__Pyx_RaiseTooManyValuesError();
4730
}
4731
}
4732
4733
static int __Pyx_ArgTypeTest(PyObject *obj, PyTypeObject *type, int none_allowed,
4734
const char *name, int exact)
4735
{
4736
if (!type) {
4737
PyErr_Format(PyExc_SystemError, "Missing type object");
4738
return 0;
4739
}
4740
if (none_allowed && obj == Py_None) return 1;
4741
else if (exact) {
4742
if (Py_TYPE(obj) == type) return 1;
4743
}
4744
else {
4745
if (PyObject_TypeCheck(obj, type)) return 1;
4746
}
4747
PyErr_Format(PyExc_TypeError,
4748
"Argument '%s' has incorrect type (expected %s, got %s)",
4749
name, type->tp_name, Py_TYPE(obj)->tp_name);
4750
return 0;
4751
}
4752
4753
#if PY_MAJOR_VERSION < 3
4754
static int __Pyx_GetBuffer(PyObject *obj, Py_buffer *view, int flags) {
4755
#if PY_VERSION_HEX >= 0x02060000
4756
if (Py_TYPE(obj)->tp_flags & Py_TPFLAGS_HAVE_NEWBUFFER)
4757
return PyObject_GetBuffer(obj, view, flags);
4758
#endif
4759
if (PyObject_TypeCheck(obj, __pyx_ptype_5numpy_ndarray)) return __pyx_pf_5numpy_7ndarray___getbuffer__(obj, view, flags);
4760
else {
4761
PyErr_Format(PyExc_TypeError, "'%100s' does not have the buffer interface", Py_TYPE(obj)->tp_name);
4762
return -1;
4763
}
4764
}
4765
4766
static void __Pyx_ReleaseBuffer(Py_buffer *view) {
4767
PyObject* obj = view->obj;
4768
if (obj) {
4769
if (PyObject_TypeCheck(obj, __pyx_ptype_5numpy_ndarray)) __pyx_pf_5numpy_7ndarray___releasebuffer__(obj, view);
4770
Py_DECREF(obj);
4771
view->obj = NULL;
4772
}
4773
}
4774
4775
#endif
4776
4777
static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list) {
4778
PyObject *__import__ = 0;
4779
PyObject *empty_list = 0;
4780
PyObject *module = 0;
4781
PyObject *global_dict = 0;
4782
PyObject *empty_dict = 0;
4783
PyObject *list;
4784
__import__ = __Pyx_GetAttrString(__pyx_b, "__import__");
4785
if (!__import__)
4786
goto bad;
4787
if (from_list)
4788
list = from_list;
4789
else {
4790
empty_list = PyList_New(0);
4791
if (!empty_list)
4792
goto bad;
4793
list = empty_list;
4794
}
4795
global_dict = PyModule_GetDict(__pyx_m);
4796
if (!global_dict)
4797
goto bad;
4798
empty_dict = PyDict_New();
4799
if (!empty_dict)
4800
goto bad;
4801
module = PyObject_CallFunctionObjArgs(__import__,
4802
name, global_dict, empty_dict, list, NULL);
4803
bad:
4804
Py_XDECREF(empty_list);
4805
Py_XDECREF(__import__);
4806
Py_XDECREF(empty_dict);
4807
return module;
4808
}
4809
4810
static PyObject *__Pyx_GetName(PyObject *dict, PyObject *name) {
4811
PyObject *result;
4812
result = PyObject_GetAttr(dict, name);
4813
if (!result)
4814
PyErr_SetObject(PyExc_NameError, name);
4815
return result;
4816
}
4817
4818
#if CYTHON_CCOMPLEX
4819
#ifdef __cplusplus
4820
static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) {
4821
return ::std::complex< double >(x, y);
4822
}
4823
#else
4824
static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) {
4825
return x + y*(__pyx_t_double_complex)_Complex_I;
4826
}
4827
#endif
4828
#else
4829
static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) {
4830
__pyx_t_double_complex z;
4831
z.real = x;
4832
z.imag = y;
4833
return z;
4834
}
4835
#endif
4836
4837
#if CYTHON_CCOMPLEX
4838
#else
4839
static CYTHON_INLINE int __Pyx_c_eq(__pyx_t_double_complex a, __pyx_t_double_complex b) {
4840
return (a.real == b.real) && (a.imag == b.imag);
4841
}
4842
static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum(__pyx_t_double_complex a, __pyx_t_double_complex b) {
4843
__pyx_t_double_complex z;
4844
z.real = a.real + b.real;
4845
z.imag = a.imag + b.imag;
4846
return z;
4847
}
4848
static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff(__pyx_t_double_complex a, __pyx_t_double_complex b) {
4849
__pyx_t_double_complex z;
4850
z.real = a.real - b.real;
4851
z.imag = a.imag - b.imag;
4852
return z;
4853
}
4854
static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod(__pyx_t_double_complex a, __pyx_t_double_complex b) {
4855
__pyx_t_double_complex z;
4856
z.real = a.real * b.real - a.imag * b.imag;
4857
z.imag = a.real * b.imag + a.imag * b.real;
4858
return z;
4859
}
4860
static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot(__pyx_t_double_complex a, __pyx_t_double_complex b) {
4861
__pyx_t_double_complex z;
4862
double denom = b.real * b.real + b.imag * b.imag;
4863
z.real = (a.real * b.real + a.imag * b.imag) / denom;
4864
z.imag = (a.imag * b.real - a.real * b.imag) / denom;
4865
return z;
4866
}
4867
static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg(__pyx_t_double_complex a) {
4868
__pyx_t_double_complex z;
4869
z.real = -a.real;
4870
z.imag = -a.imag;
4871
return z;
4872
}
4873
static CYTHON_INLINE int __Pyx_c_is_zero(__pyx_t_double_complex a) {
4874
return (a.real == 0) && (a.imag == 0);
4875
}
4876
static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj(__pyx_t_double_complex a) {
4877
__pyx_t_double_complex z;
4878
z.real = a.real;
4879
z.imag = -a.imag;
4880
return z;
4881
}
4882
/*
4883
static CYTHON_INLINE double __Pyx_c_abs(__pyx_t_double_complex z) {
4884
#if HAVE_HYPOT
4885
return hypot(z.real, z.imag);
4886
#else
4887
return sqrt(z.real*z.real + z.imag*z.imag);
4888
#endif
4889
}
4890
*/
4891
#endif
4892
4893
#if CYTHON_CCOMPLEX
4894
#ifdef __cplusplus
4895
static CYTHON_INLINE __pyx_t_npy_float64_complex __pyx_t_npy_float64_complex_from_parts(npy_float64 x, npy_float64 y) {
4896
return ::std::complex< npy_float64 >(x, y);
4897
}
4898
#else
4899
static CYTHON_INLINE __pyx_t_npy_float64_complex __pyx_t_npy_float64_complex_from_parts(npy_float64 x, npy_float64 y) {
4900
return x + y*(__pyx_t_npy_float64_complex)_Complex_I;
4901
}
4902
#endif
4903
#else
4904
static CYTHON_INLINE __pyx_t_npy_float64_complex __pyx_t_npy_float64_complex_from_parts(npy_float64 x, npy_float64 y) {
4905
__pyx_t_npy_float64_complex z;
4906
z.real = x;
4907
z.imag = y;
4908
return z;
4909
}
4910
#endif
4911
4912
#if CYTHON_CCOMPLEX
4913
#else
4914
static CYTHON_INLINE int __Pyx_c_eq_npy_float64(__pyx_t_npy_float64_complex a, __pyx_t_npy_float64_complex b) {
4915
return (a.real == b.real) && (a.imag == b.imag);
4916
}
4917
static CYTHON_INLINE __pyx_t_npy_float64_complex __Pyx_c_sum_npy_float64(__pyx_t_npy_float64_complex a, __pyx_t_npy_float64_complex b) {
4918
__pyx_t_npy_float64_complex z;
4919
z.real = a.real + b.real;
4920
z.imag = a.imag + b.imag;
4921
return z;
4922
}
4923
static CYTHON_INLINE __pyx_t_npy_float64_complex __Pyx_c_diff_npy_float64(__pyx_t_npy_float64_complex a, __pyx_t_npy_float64_complex b) {
4924
__pyx_t_npy_float64_complex z;
4925
z.real = a.real - b.real;
4926
z.imag = a.imag - b.imag;
4927
return z;
4928
}
4929
static CYTHON_INLINE __pyx_t_npy_float64_complex __Pyx_c_prod_npy_float64(__pyx_t_npy_float64_complex a, __pyx_t_npy_float64_complex b) {
4930
__pyx_t_npy_float64_complex z;
4931
z.real = a.real * b.real - a.imag * b.imag;
4932
z.imag = a.real * b.imag + a.imag * b.real;
4933
return z;
4934
}
4935
static CYTHON_INLINE __pyx_t_npy_float64_complex __Pyx_c_quot_npy_float64(__pyx_t_npy_float64_complex a, __pyx_t_npy_float64_complex b) {
4936
__pyx_t_npy_float64_complex z;
4937
npy_float64 denom = b.real * b.real + b.imag * b.imag;
4938
z.real = (a.real * b.real + a.imag * b.imag) / denom;
4939
z.imag = (a.imag * b.real - a.real * b.imag) / denom;
4940
return z;
4941
}
4942
static CYTHON_INLINE __pyx_t_npy_float64_complex __Pyx_c_neg_npy_float64(__pyx_t_npy_float64_complex a) {
4943
__pyx_t_npy_float64_complex z;
4944
z.real = -a.real;
4945
z.imag = -a.imag;
4946
return z;
4947
}
4948
static CYTHON_INLINE int __Pyx_c_is_zero_npy_float64(__pyx_t_npy_float64_complex a) {
4949
return (a.real == 0) && (a.imag == 0);
4950
}
4951
static CYTHON_INLINE __pyx_t_npy_float64_complex __Pyx_c_conj_npy_float64(__pyx_t_npy_float64_complex a) {
4952
__pyx_t_npy_float64_complex z;
4953
z.real = a.real;
4954
z.imag = -a.imag;
4955
return z;
4956
}
4957
/*
4958
static CYTHON_INLINE npy_float64 __Pyx_c_abs_npy_float64(__pyx_t_npy_float64_complex z) {
4959
#if HAVE_HYPOT
4960
return hypot_npy_float64(z.real, z.imag);
4961
#else
4962
return sqrt_npy_float64(z.real*z.real + z.imag*z.imag);
4963
#endif
4964
}
4965
*/
4966
#endif
4967
4968
#if CYTHON_CCOMPLEX
4969
#ifdef __cplusplus
4970
static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) {
4971
return ::std::complex< float >(x, y);
4972
}
4973
#else
4974
static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) {
4975
return x + y*(__pyx_t_float_complex)_Complex_I;
4976
}
4977
#endif
4978
#else
4979
static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) {
4980
__pyx_t_float_complex z;
4981
z.real = x;
4982
z.imag = y;
4983
return z;
4984
}
4985
#endif
4986
4987
#if CYTHON_CCOMPLEX
4988
#else
4989
static CYTHON_INLINE int __Pyx_c_eqf(__pyx_t_float_complex a, __pyx_t_float_complex b) {
4990
return (a.real == b.real) && (a.imag == b.imag);
4991
}
4992
static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sumf(__pyx_t_float_complex a, __pyx_t_float_complex b) {
4993
__pyx_t_float_complex z;
4994
z.real = a.real + b.real;
4995
z.imag = a.imag + b.imag;
4996
return z;
4997
}
4998
static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_difff(__pyx_t_float_complex a, __pyx_t_float_complex b) {
4999
__pyx_t_float_complex z;
5000
z.real = a.real - b.real;
5001
z.imag = a.imag - b.imag;
5002
return z;
5003
}
5004
static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prodf(__pyx_t_float_complex a, __pyx_t_float_complex b) {
5005
__pyx_t_float_complex z;
5006
z.real = a.real * b.real - a.imag * b.imag;
5007
z.imag = a.real * b.imag + a.imag * b.real;
5008
return z;
5009
}
5010
static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quotf(__pyx_t_float_complex a, __pyx_t_float_complex b) {
5011
__pyx_t_float_complex z;
5012
float denom = b.real * b.real + b.imag * b.imag;
5013
z.real = (a.real * b.real + a.imag * b.imag) / denom;
5014
z.imag = (a.imag * b.real - a.real * b.imag) / denom;
5015
return z;
5016
}
5017
static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_negf(__pyx_t_float_complex a) {
5018
__pyx_t_float_complex z;
5019
z.real = -a.real;
5020
z.imag = -a.imag;
5021
return z;
5022
}
5023
static CYTHON_INLINE int __Pyx_c_is_zerof(__pyx_t_float_complex a) {
5024
return (a.real == 0) && (a.imag == 0);
5025
}
5026
static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conjf(__pyx_t_float_complex a) {
5027
__pyx_t_float_complex z;
5028
z.real = a.real;
5029
z.imag = -a.imag;
5030
return z;
5031
}
5032
/*
5033
static CYTHON_INLINE float __Pyx_c_absf(__pyx_t_float_complex z) {
5034
#if HAVE_HYPOT
5035
return hypotf(z.real, z.imag);
5036
#else
5037
return sqrtf(z.real*z.real + z.imag*z.imag);
5038
#endif
5039
}
5040
*/
5041
#endif
5042
5043
#if PY_MAJOR_VERSION < 3
5044
static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb) {
5045
Py_XINCREF(type);
5046
Py_XINCREF(value);
5047
Py_XINCREF(tb);
5048
/* First, check the traceback argument, replacing None with NULL. */
5049
if (tb == Py_None) {
5050
Py_DECREF(tb);
5051
tb = 0;
5052
}
5053
else if (tb != NULL && !PyTraceBack_Check(tb)) {
5054
PyErr_SetString(PyExc_TypeError,
5055
"raise: arg 3 must be a traceback or None");
5056
goto raise_error;
5057
}
5058
/* Next, replace a missing value with None */
5059
if (value == NULL) {
5060
value = Py_None;
5061
Py_INCREF(value);
5062
}
5063
#if PY_VERSION_HEX < 0x02050000
5064
if (!PyClass_Check(type))
5065
#else
5066
if (!PyType_Check(type))
5067
#endif
5068
{
5069
/* Raising an instance. The value should be a dummy. */
5070
if (value != Py_None) {
5071
PyErr_SetString(PyExc_TypeError,
5072
"instance exception may not have a separate value");
5073
goto raise_error;
5074
}
5075
/* Normalize to raise <class>, <instance> */
5076
Py_DECREF(value);
5077
value = type;
5078
#if PY_VERSION_HEX < 0x02050000
5079
if (PyInstance_Check(type)) {
5080
type = (PyObject*) ((PyInstanceObject*)type)->in_class;
5081
Py_INCREF(type);
5082
}
5083
else {
5084
type = 0;
5085
PyErr_SetString(PyExc_TypeError,
5086
"raise: exception must be an old-style class or instance");
5087
goto raise_error;
5088
}
5089
#else
5090
type = (PyObject*) Py_TYPE(type);
5091
Py_INCREF(type);
5092
if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) {
5093
PyErr_SetString(PyExc_TypeError,
5094
"raise: exception class must be a subclass of BaseException");
5095
goto raise_error;
5096
}
5097
#endif
5098
}
5099
5100
__Pyx_ErrRestore(type, value, tb);
5101
return;
5102
raise_error:
5103
Py_XDECREF(value);
5104
Py_XDECREF(type);
5105
Py_XDECREF(tb);
5106
return;
5107
}
5108
5109
#else /* Python 3+ */
5110
5111
static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb) {
5112
if (tb == Py_None) {
5113
tb = 0;
5114
} else if (tb && !PyTraceBack_Check(tb)) {
5115
PyErr_SetString(PyExc_TypeError,
5116
"raise: arg 3 must be a traceback or None");
5117
goto bad;
5118
}
5119
if (value == Py_None)
5120
value = 0;
5121
5122
if (PyExceptionInstance_Check(type)) {
5123
if (value) {
5124
PyErr_SetString(PyExc_TypeError,
5125
"instance exception may not have a separate value");
5126
goto bad;
5127
}
5128
value = type;
5129
type = (PyObject*) Py_TYPE(value);
5130
} else if (!PyExceptionClass_Check(type)) {
5131
PyErr_SetString(PyExc_TypeError,
5132
"raise: exception class must be a subclass of BaseException");
5133
goto bad;
5134
}
5135
5136
PyErr_SetObject(type, value);
5137
5138
if (tb) {
5139
PyThreadState *tstate = PyThreadState_GET();
5140
PyObject* tmp_tb = tstate->curexc_traceback;
5141
if (tb != tmp_tb) {
5142
Py_INCREF(tb);
5143
tstate->curexc_traceback = tb;
5144
Py_XDECREF(tmp_tb);
5145
}
5146
}
5147
5148
bad:
5149
return;
5150
}
5151
#endif
5152
5153
static CYTHON_INLINE unsigned char __Pyx_PyInt_AsUnsignedChar(PyObject* x) {
5154
const unsigned char neg_one = (unsigned char)-1, const_zero = 0;
5155
const int is_unsigned = neg_one > const_zero;
5156
if (sizeof(unsigned char) < sizeof(long)) {
5157
long val = __Pyx_PyInt_AsLong(x);
5158
if (unlikely(val != (long)(unsigned char)val)) {
5159
if (!unlikely(val == -1 && PyErr_Occurred())) {
5160
PyErr_SetString(PyExc_OverflowError,
5161
(is_unsigned && unlikely(val < 0)) ?
5162
"can't convert negative value to unsigned char" :
5163
"value too large to convert to unsigned char");
5164
}
5165
return (unsigned char)-1;
5166
}
5167
return (unsigned char)val;
5168
}
5169
return (unsigned char)__Pyx_PyInt_AsUnsignedLong(x);
5170
}
5171
5172
static CYTHON_INLINE unsigned short __Pyx_PyInt_AsUnsignedShort(PyObject* x) {
5173
const unsigned short neg_one = (unsigned short)-1, const_zero = 0;
5174
const int is_unsigned = neg_one > const_zero;
5175
if (sizeof(unsigned short) < sizeof(long)) {
5176
long val = __Pyx_PyInt_AsLong(x);
5177
if (unlikely(val != (long)(unsigned short)val)) {
5178
if (!unlikely(val == -1 && PyErr_Occurred())) {
5179
PyErr_SetString(PyExc_OverflowError,
5180
(is_unsigned && unlikely(val < 0)) ?
5181
"can't convert negative value to unsigned short" :
5182
"value too large to convert to unsigned short");
5183
}
5184
return (unsigned short)-1;
5185
}
5186
return (unsigned short)val;
5187
}
5188
return (unsigned short)__Pyx_PyInt_AsUnsignedLong(x);
5189
}
5190
5191
static CYTHON_INLINE unsigned int __Pyx_PyInt_AsUnsignedInt(PyObject* x) {
5192
const unsigned int neg_one = (unsigned int)-1, const_zero = 0;
5193
const int is_unsigned = neg_one > const_zero;
5194
if (sizeof(unsigned int) < sizeof(long)) {
5195
long val = __Pyx_PyInt_AsLong(x);
5196
if (unlikely(val != (long)(unsigned int)val)) {
5197
if (!unlikely(val == -1 && PyErr_Occurred())) {
5198
PyErr_SetString(PyExc_OverflowError,
5199
(is_unsigned && unlikely(val < 0)) ?
5200
"can't convert negative value to unsigned int" :
5201
"value too large to convert to unsigned int");
5202
}
5203
return (unsigned int)-1;
5204
}
5205
return (unsigned int)val;
5206
}
5207
return (unsigned int)__Pyx_PyInt_AsUnsignedLong(x);
5208
}
5209
5210
static CYTHON_INLINE char __Pyx_PyInt_AsChar(PyObject* x) {
5211
const char neg_one = (char)-1, const_zero = 0;
5212
const int is_unsigned = neg_one > const_zero;
5213
if (sizeof(char) < sizeof(long)) {
5214
long val = __Pyx_PyInt_AsLong(x);
5215
if (unlikely(val != (long)(char)val)) {
5216
if (!unlikely(val == -1 && PyErr_Occurred())) {
5217
PyErr_SetString(PyExc_OverflowError,
5218
(is_unsigned && unlikely(val < 0)) ?
5219
"can't convert negative value to char" :
5220
"value too large to convert to char");
5221
}
5222
return (char)-1;
5223
}
5224
return (char)val;
5225
}
5226
return (char)__Pyx_PyInt_AsLong(x);
5227
}
5228
5229
static CYTHON_INLINE short __Pyx_PyInt_AsShort(PyObject* x) {
5230
const short neg_one = (short)-1, const_zero = 0;
5231
const int is_unsigned = neg_one > const_zero;
5232
if (sizeof(short) < sizeof(long)) {
5233
long val = __Pyx_PyInt_AsLong(x);
5234
if (unlikely(val != (long)(short)val)) {
5235
if (!unlikely(val == -1 && PyErr_Occurred())) {
5236
PyErr_SetString(PyExc_OverflowError,
5237
(is_unsigned && unlikely(val < 0)) ?
5238
"can't convert negative value to short" :
5239
"value too large to convert to short");
5240
}
5241
return (short)-1;
5242
}
5243
return (short)val;
5244
}
5245
return (short)__Pyx_PyInt_AsLong(x);
5246
}
5247
5248
static CYTHON_INLINE int __Pyx_PyInt_AsInt(PyObject* x) {
5249
const int neg_one = (int)-1, const_zero = 0;
5250
const int is_unsigned = neg_one > const_zero;
5251
if (sizeof(int) < sizeof(long)) {
5252
long val = __Pyx_PyInt_AsLong(x);
5253
if (unlikely(val != (long)(int)val)) {
5254
if (!unlikely(val == -1 && PyErr_Occurred())) {
5255
PyErr_SetString(PyExc_OverflowError,
5256
(is_unsigned && unlikely(val < 0)) ?
5257
"can't convert negative value to int" :
5258
"value too large to convert to int");
5259
}
5260
return (int)-1;
5261
}
5262
return (int)val;
5263
}
5264
return (int)__Pyx_PyInt_AsLong(x);
5265
}
5266
5267
static CYTHON_INLINE signed char __Pyx_PyInt_AsSignedChar(PyObject* x) {
5268
const signed char neg_one = (signed char)-1, const_zero = 0;
5269
const int is_unsigned = neg_one > const_zero;
5270
if (sizeof(signed char) < sizeof(long)) {
5271
long val = __Pyx_PyInt_AsLong(x);
5272
if (unlikely(val != (long)(signed char)val)) {
5273
if (!unlikely(val == -1 && PyErr_Occurred())) {
5274
PyErr_SetString(PyExc_OverflowError,
5275
(is_unsigned && unlikely(val < 0)) ?
5276
"can't convert negative value to signed char" :
5277
"value too large to convert to signed char");
5278
}
5279
return (signed char)-1;
5280
}
5281
return (signed char)val;
5282
}
5283
return (signed char)__Pyx_PyInt_AsSignedLong(x);
5284
}
5285
5286
static CYTHON_INLINE signed short __Pyx_PyInt_AsSignedShort(PyObject* x) {
5287
const signed short neg_one = (signed short)-1, const_zero = 0;
5288
const int is_unsigned = neg_one > const_zero;
5289
if (sizeof(signed short) < sizeof(long)) {
5290
long val = __Pyx_PyInt_AsLong(x);
5291
if (unlikely(val != (long)(signed short)val)) {
5292
if (!unlikely(val == -1 && PyErr_Occurred())) {
5293
PyErr_SetString(PyExc_OverflowError,
5294
(is_unsigned && unlikely(val < 0)) ?
5295
"can't convert negative value to signed short" :
5296
"value too large to convert to signed short");
5297
}
5298
return (signed short)-1;
5299
}
5300
return (signed short)val;
5301
}
5302
return (signed short)__Pyx_PyInt_AsSignedLong(x);
5303
}
5304
5305
static CYTHON_INLINE signed int __Pyx_PyInt_AsSignedInt(PyObject* x) {
5306
const signed int neg_one = (signed int)-1, const_zero = 0;
5307
const int is_unsigned = neg_one > const_zero;
5308
if (sizeof(signed int) < sizeof(long)) {
5309
long val = __Pyx_PyInt_AsLong(x);
5310
if (unlikely(val != (long)(signed int)val)) {
5311
if (!unlikely(val == -1 && PyErr_Occurred())) {
5312
PyErr_SetString(PyExc_OverflowError,
5313
(is_unsigned && unlikely(val < 0)) ?
5314
"can't convert negative value to signed int" :
5315
"value too large to convert to signed int");
5316
}
5317
return (signed int)-1;
5318
}
5319
return (signed int)val;
5320
}
5321
return (signed int)__Pyx_PyInt_AsSignedLong(x);
5322
}
5323
5324
static CYTHON_INLINE unsigned long __Pyx_PyInt_AsUnsignedLong(PyObject* x) {
5325
const unsigned long neg_one = (unsigned long)-1, const_zero = 0;
5326
const int is_unsigned = neg_one > const_zero;
5327
#if PY_VERSION_HEX < 0x03000000
5328
if (likely(PyInt_Check(x))) {
5329
long val = PyInt_AS_LONG(x);
5330
if (is_unsigned && unlikely(val < 0)) {
5331
PyErr_SetString(PyExc_OverflowError,
5332
"can't convert negative value to unsigned long");
5333
return (unsigned long)-1;
5334
}
5335
return (unsigned long)val;
5336
} else
5337
#endif
5338
if (likely(PyLong_Check(x))) {
5339
if (is_unsigned) {
5340
if (unlikely(Py_SIZE(x) < 0)) {
5341
PyErr_SetString(PyExc_OverflowError,
5342
"can't convert negative value to unsigned long");
5343
return (unsigned long)-1;
5344
}
5345
return PyLong_AsUnsignedLong(x);
5346
} else {
5347
return PyLong_AsLong(x);
5348
}
5349
} else {
5350
unsigned long val;
5351
PyObject *tmp = __Pyx_PyNumber_Int(x);
5352
if (!tmp) return (unsigned long)-1;
5353
val = __Pyx_PyInt_AsUnsignedLong(tmp);
5354
Py_DECREF(tmp);
5355
return val;
5356
}
5357
}
5358
5359
static CYTHON_INLINE unsigned PY_LONG_LONG __Pyx_PyInt_AsUnsignedLongLong(PyObject* x) {
5360
const unsigned PY_LONG_LONG neg_one = (unsigned PY_LONG_LONG)-1, const_zero = 0;
5361
const int is_unsigned = neg_one > const_zero;
5362
#if PY_VERSION_HEX < 0x03000000
5363
if (likely(PyInt_Check(x))) {
5364
long val = PyInt_AS_LONG(x);
5365
if (is_unsigned && unlikely(val < 0)) {
5366
PyErr_SetString(PyExc_OverflowError,
5367
"can't convert negative value to unsigned PY_LONG_LONG");
5368
return (unsigned PY_LONG_LONG)-1;
5369
}
5370
return (unsigned PY_LONG_LONG)val;
5371
} else
5372
#endif
5373
if (likely(PyLong_Check(x))) {
5374
if (is_unsigned) {
5375
if (unlikely(Py_SIZE(x) < 0)) {
5376
PyErr_SetString(PyExc_OverflowError,
5377
"can't convert negative value to unsigned PY_LONG_LONG");
5378
return (unsigned PY_LONG_LONG)-1;
5379
}
5380
return PyLong_AsUnsignedLongLong(x);
5381
} else {
5382
return PyLong_AsLongLong(x);
5383
}
5384
} else {
5385
unsigned PY_LONG_LONG val;
5386
PyObject *tmp = __Pyx_PyNumber_Int(x);
5387
if (!tmp) return (unsigned PY_LONG_LONG)-1;
5388
val = __Pyx_PyInt_AsUnsignedLongLong(tmp);
5389
Py_DECREF(tmp);
5390
return val;
5391
}
5392
}
5393
5394
static CYTHON_INLINE long __Pyx_PyInt_AsLong(PyObject* x) {
5395
const long neg_one = (long)-1, const_zero = 0;
5396
const int is_unsigned = neg_one > const_zero;
5397
#if PY_VERSION_HEX < 0x03000000
5398
if (likely(PyInt_Check(x))) {
5399
long val = PyInt_AS_LONG(x);
5400
if (is_unsigned && unlikely(val < 0)) {
5401
PyErr_SetString(PyExc_OverflowError,
5402
"can't convert negative value to long");
5403
return (long)-1;
5404
}
5405
return (long)val;
5406
} else
5407
#endif
5408
if (likely(PyLong_Check(x))) {
5409
if (is_unsigned) {
5410
if (unlikely(Py_SIZE(x) < 0)) {
5411
PyErr_SetString(PyExc_OverflowError,
5412
"can't convert negative value to long");
5413
return (long)-1;
5414
}
5415
return PyLong_AsUnsignedLong(x);
5416
} else {
5417
return PyLong_AsLong(x);
5418
}
5419
} else {
5420
long val;
5421
PyObject *tmp = __Pyx_PyNumber_Int(x);
5422
if (!tmp) return (long)-1;
5423
val = __Pyx_PyInt_AsLong(tmp);
5424
Py_DECREF(tmp);
5425
return val;
5426
}
5427
}
5428
5429
static CYTHON_INLINE PY_LONG_LONG __Pyx_PyInt_AsLongLong(PyObject* x) {
5430
const PY_LONG_LONG neg_one = (PY_LONG_LONG)-1, const_zero = 0;
5431
const int is_unsigned = neg_one > const_zero;
5432
#if PY_VERSION_HEX < 0x03000000
5433
if (likely(PyInt_Check(x))) {
5434
long val = PyInt_AS_LONG(x);
5435
if (is_unsigned && unlikely(val < 0)) {
5436
PyErr_SetString(PyExc_OverflowError,
5437
"can't convert negative value to PY_LONG_LONG");
5438
return (PY_LONG_LONG)-1;
5439
}
5440
return (PY_LONG_LONG)val;
5441
} else
5442
#endif
5443
if (likely(PyLong_Check(x))) {
5444
if (is_unsigned) {
5445
if (unlikely(Py_SIZE(x) < 0)) {
5446
PyErr_SetString(PyExc_OverflowError,
5447
"can't convert negative value to PY_LONG_LONG");
5448
return (PY_LONG_LONG)-1;
5449
}
5450
return PyLong_AsUnsignedLongLong(x);
5451
} else {
5452
return PyLong_AsLongLong(x);
5453
}
5454
} else {
5455
PY_LONG_LONG val;
5456
PyObject *tmp = __Pyx_PyNumber_Int(x);
5457
if (!tmp) return (PY_LONG_LONG)-1;
5458
val = __Pyx_PyInt_AsLongLong(tmp);
5459
Py_DECREF(tmp);
5460
return val;
5461
}
5462
}
5463
5464
static CYTHON_INLINE signed long __Pyx_PyInt_AsSignedLong(PyObject* x) {
5465
const signed long neg_one = (signed long)-1, const_zero = 0;
5466
const int is_unsigned = neg_one > const_zero;
5467
#if PY_VERSION_HEX < 0x03000000
5468
if (likely(PyInt_Check(x))) {
5469
long val = PyInt_AS_LONG(x);
5470
if (is_unsigned && unlikely(val < 0)) {
5471
PyErr_SetString(PyExc_OverflowError,
5472
"can't convert negative value to signed long");
5473
return (signed long)-1;
5474
}
5475
return (signed long)val;
5476
} else
5477
#endif
5478
if (likely(PyLong_Check(x))) {
5479
if (is_unsigned) {
5480
if (unlikely(Py_SIZE(x) < 0)) {
5481
PyErr_SetString(PyExc_OverflowError,
5482
"can't convert negative value to signed long");
5483
return (signed long)-1;
5484
}
5485
return PyLong_AsUnsignedLong(x);
5486
} else {
5487
return PyLong_AsLong(x);
5488
}
5489
} else {
5490
signed long val;
5491
PyObject *tmp = __Pyx_PyNumber_Int(x);
5492
if (!tmp) return (signed long)-1;
5493
val = __Pyx_PyInt_AsSignedLong(tmp);
5494
Py_DECREF(tmp);
5495
return val;
5496
}
5497
}
5498
5499
static CYTHON_INLINE signed PY_LONG_LONG __Pyx_PyInt_AsSignedLongLong(PyObject* x) {
5500
const signed PY_LONG_LONG neg_one = (signed PY_LONG_LONG)-1, const_zero = 0;
5501
const int is_unsigned = neg_one > const_zero;
5502
#if PY_VERSION_HEX < 0x03000000
5503
if (likely(PyInt_Check(x))) {
5504
long val = PyInt_AS_LONG(x);
5505
if (is_unsigned && unlikely(val < 0)) {
5506
PyErr_SetString(PyExc_OverflowError,
5507
"can't convert negative value to signed PY_LONG_LONG");
5508
return (signed PY_LONG_LONG)-1;
5509
}
5510
return (signed PY_LONG_LONG)val;
5511
} else
5512
#endif
5513
if (likely(PyLong_Check(x))) {
5514
if (is_unsigned) {
5515
if (unlikely(Py_SIZE(x) < 0)) {
5516
PyErr_SetString(PyExc_OverflowError,
5517
"can't convert negative value to signed PY_LONG_LONG");
5518
return (signed PY_LONG_LONG)-1;
5519
}
5520
return PyLong_AsUnsignedLongLong(x);
5521
} else {
5522
return PyLong_AsLongLong(x);
5523
}
5524
} else {
5525
signed PY_LONG_LONG val;
5526
PyObject *tmp = __Pyx_PyNumber_Int(x);
5527
if (!tmp) return (signed PY_LONG_LONG)-1;
5528
val = __Pyx_PyInt_AsSignedLongLong(tmp);
5529
Py_DECREF(tmp);
5530
return val;
5531
}
5532
}
5533
5534
#ifndef __PYX_HAVE_RT_ImportType
5535
#define __PYX_HAVE_RT_ImportType
5536
static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name,
5537
long size, int strict)
5538
{
5539
PyObject *py_module = 0;
5540
PyObject *result = 0;
5541
PyObject *py_name = 0;
5542
char warning[200];
5543
5544
py_module = __Pyx_ImportModule(module_name);
5545
if (!py_module)
5546
goto bad;
5547
#if PY_MAJOR_VERSION < 3
5548
py_name = PyString_FromString(class_name);
5549
#else
5550
py_name = PyUnicode_FromString(class_name);
5551
#endif
5552
if (!py_name)
5553
goto bad;
5554
result = PyObject_GetAttr(py_module, py_name);
5555
Py_DECREF(py_name);
5556
py_name = 0;
5557
Py_DECREF(py_module);
5558
py_module = 0;
5559
if (!result)
5560
goto bad;
5561
if (!PyType_Check(result)) {
5562
PyErr_Format(PyExc_TypeError,
5563
"%s.%s is not a type object",
5564
module_name, class_name);
5565
goto bad;
5566
}
5567
if (!strict && ((PyTypeObject *)result)->tp_basicsize > size) {
5568
PyOS_snprintf(warning, sizeof(warning),
5569
"%s.%s size changed, may indicate binary incompatibility",
5570
module_name, class_name);
5571
PyErr_WarnEx(NULL, warning, 0);
5572
}
5573
else if (((PyTypeObject *)result)->tp_basicsize != size) {
5574
PyErr_Format(PyExc_ValueError,
5575
"%s.%s has the wrong size, try recompiling",
5576
module_name, class_name);
5577
goto bad;
5578
}
5579
return (PyTypeObject *)result;
5580
bad:
5581
Py_XDECREF(py_module);
5582
Py_XDECREF(result);
5583
return 0;
5584
}
5585
#endif
5586
5587
#ifndef __PYX_HAVE_RT_ImportModule
5588
#define __PYX_HAVE_RT_ImportModule
5589
static PyObject *__Pyx_ImportModule(const char *name) {
5590
PyObject *py_name = 0;
5591
PyObject *py_module = 0;
5592
5593
#if PY_MAJOR_VERSION < 3
5594
py_name = PyString_FromString(name);
5595
#else
5596
py_name = PyUnicode_FromString(name);
5597
#endif
5598
if (!py_name)
5599
goto bad;
5600
py_module = PyImport_Import(py_name);
5601
Py_DECREF(py_name);
5602
return py_module;
5603
bad:
5604
Py_XDECREF(py_name);
5605
return 0;
5606
}
5607
#endif
5608
5609
#include "compile.h"
5610
#include "frameobject.h"
5611
#include "traceback.h"
5612
5613
static void __Pyx_AddTraceback(const char *funcname) {
5614
PyObject *py_srcfile = 0;
5615
PyObject *py_funcname = 0;
5616
PyObject *py_globals = 0;
5617
PyCodeObject *py_code = 0;
5618
PyFrameObject *py_frame = 0;
5619
5620
#if PY_MAJOR_VERSION < 3
5621
py_srcfile = PyString_FromString(__pyx_filename);
5622
#else
5623
py_srcfile = PyUnicode_FromString(__pyx_filename);
5624
#endif
5625
if (!py_srcfile) goto bad;
5626
if (__pyx_clineno) {
5627
#if PY_MAJOR_VERSION < 3
5628
py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, __pyx_clineno);
5629
#else
5630
py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, __pyx_clineno);
5631
#endif
5632
}
5633
else {
5634
#if PY_MAJOR_VERSION < 3
5635
py_funcname = PyString_FromString(funcname);
5636
#else
5637
py_funcname = PyUnicode_FromString(funcname);
5638
#endif
5639
}
5640
if (!py_funcname) goto bad;
5641
py_globals = PyModule_GetDict(__pyx_m);
5642
if (!py_globals) goto bad;
5643
py_code = PyCode_New(
5644
0, /*int argcount,*/
5645
#if PY_MAJOR_VERSION >= 3
5646
0, /*int kwonlyargcount,*/
5647
#endif
5648
0, /*int nlocals,*/
5649
0, /*int stacksize,*/
5650
0, /*int flags,*/
5651
__pyx_empty_bytes, /*PyObject *code,*/
5652
__pyx_empty_tuple, /*PyObject *consts,*/
5653
__pyx_empty_tuple, /*PyObject *names,*/
5654
__pyx_empty_tuple, /*PyObject *varnames,*/
5655
__pyx_empty_tuple, /*PyObject *freevars,*/
5656
__pyx_empty_tuple, /*PyObject *cellvars,*/
5657
py_srcfile, /*PyObject *filename,*/
5658
py_funcname, /*PyObject *name,*/
5659
__pyx_lineno, /*int firstlineno,*/
5660
__pyx_empty_bytes /*PyObject *lnotab*/
5661
);
5662
if (!py_code) goto bad;
5663
py_frame = PyFrame_New(
5664
PyThreadState_GET(), /*PyThreadState *tstate,*/
5665
py_code, /*PyCodeObject *code,*/
5666
py_globals, /*PyObject *globals,*/
5667
0 /*PyObject *locals*/
5668
);
5669
if (!py_frame) goto bad;
5670
py_frame->f_lineno = __pyx_lineno;
5671
PyTraceBack_Here(py_frame);
5672
bad:
5673
Py_XDECREF(py_srcfile);
5674
Py_XDECREF(py_funcname);
5675
Py_XDECREF(py_code);
5676
Py_XDECREF(py_frame);
5677
}
5678
5679
static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) {
5680
while (t->p) {
5681
#if PY_MAJOR_VERSION < 3
5682
if (t->is_unicode) {
5683
*t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL);
5684
} else if (t->intern) {
5685
*t->p = PyString_InternFromString(t->s);
5686
} else {
5687
*t->p = PyString_FromStringAndSize(t->s, t->n - 1);
5688
}
5689
#else /* Python 3+ has unicode identifiers */
5690
if (t->is_unicode | t->is_str) {
5691
if (t->intern) {
5692
*t->p = PyUnicode_InternFromString(t->s);
5693
} else if (t->encoding) {
5694
*t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL);
5695
} else {
5696
*t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1);
5697
}
5698
} else {
5699
*t->p = PyBytes_FromStringAndSize(t->s, t->n - 1);
5700
}
5701
#endif
5702
if (!*t->p)
5703
return -1;
5704
++t;
5705
}
5706
return 0;
5707
}
5708
5709
/* Type Conversion Functions */
5710
5711
static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) {
5712
if (x == Py_True) return 1;
5713
else if ((x == Py_False) | (x == Py_None)) return 0;
5714
else return PyObject_IsTrue(x);
5715
}
5716
5717
static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) {
5718
PyNumberMethods *m;
5719
const char *name = NULL;
5720
PyObject *res = NULL;
5721
#if PY_VERSION_HEX < 0x03000000
5722
if (PyInt_Check(x) || PyLong_Check(x))
5723
#else
5724
if (PyLong_Check(x))
5725
#endif
5726
return Py_INCREF(x), x;
5727
m = Py_TYPE(x)->tp_as_number;
5728
#if PY_VERSION_HEX < 0x03000000
5729
if (m && m->nb_int) {
5730
name = "int";
5731
res = PyNumber_Int(x);
5732
}
5733
else if (m && m->nb_long) {
5734
name = "long";
5735
res = PyNumber_Long(x);
5736
}
5737
#else
5738
if (m && m->nb_int) {
5739
name = "int";
5740
res = PyNumber_Long(x);
5741
}
5742
#endif
5743
if (res) {
5744
#if PY_VERSION_HEX < 0x03000000
5745
if (!PyInt_Check(res) && !PyLong_Check(res)) {
5746
#else
5747
if (!PyLong_Check(res)) {
5748
#endif
5749
PyErr_Format(PyExc_TypeError,
5750
"__%s__ returned non-%s (type %.200s)",
5751
name, name, Py_TYPE(res)->tp_name);
5752
Py_DECREF(res);
5753
return NULL;
5754
}
5755
}
5756
else if (!PyErr_Occurred()) {
5757
PyErr_SetString(PyExc_TypeError,
5758
"an integer is required");
5759
}
5760
return res;
5761
}
5762
5763
static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) {
5764
Py_ssize_t ival;
5765
PyObject* x = PyNumber_Index(b);
5766
if (!x) return -1;
5767
ival = PyInt_AsSsize_t(x);
5768
Py_DECREF(x);
5769
return ival;
5770
}
5771
5772
static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) {
5773
#if PY_VERSION_HEX < 0x02050000
5774
if (ival <= LONG_MAX)
5775
return PyInt_FromLong((long)ival);
5776
else {
5777
unsigned char *bytes = (unsigned char *) &ival;
5778
int one = 1; int little = (int)*(unsigned char*)&one;
5779
return _PyLong_FromByteArray(bytes, sizeof(size_t), little, 0);
5780
}
5781
#else
5782
return PyInt_FromSize_t(ival);
5783
#endif
5784
}
5785
5786
static CYTHON_INLINE size_t __Pyx_PyInt_AsSize_t(PyObject* x) {
5787
unsigned PY_LONG_LONG val = __Pyx_PyInt_AsUnsignedLongLong(x);
5788
if (unlikely(val == (unsigned PY_LONG_LONG)-1 && PyErr_Occurred())) {
5789
return (size_t)-1;
5790
} else if (unlikely(val != (unsigned PY_LONG_LONG)(size_t)val)) {
5791
PyErr_SetString(PyExc_OverflowError,
5792
"value too large to convert to size_t");
5793
return (size_t)-1;
5794
}
5795
return (size_t)val;
5796
}
5797
5798
5799
#endif /* Py_PYTHON_H */
Loggerhead is a web-based interface for Breezy
Version: 2.0.1