Generated by Cython 3.0.0
Yellow lines hint at Python interaction.
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" to see the C code that Cython generated for it.
Raw output: _tn93.c
+01: # Define constants
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02:
+03: RESOLVE = 0
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07:
08: cdef extern from "./tn93.h":
09: double _tn93 "tn93" (const char * s1, const char * s2, const unsigned long L, const unsigned int matchMode, const unsigned long min_overlap)
10:
+11: def tn93(s1,s2,L,matchMode,min_overlap):
/* Python wrapper */ static PyObject *__pyx_pw_6BioExt_4tn93_5_tn93_1tn93(PyObject *__pyx_self, #if CYTHON_METH_FASTCALL PyObject *const *__pyx_args, Py_ssize_t __pyx_nargs, PyObject *__pyx_kwds #else PyObject *__pyx_args, PyObject *__pyx_kwds #endif ); /*proto*/ static PyMethodDef __pyx_mdef_6BioExt_4tn93_5_tn93_1tn93 = {"tn93", (PyCFunction)(void*)(__Pyx_PyCFunction_FastCallWithKeywords)__pyx_pw_6BioExt_4tn93_5_tn93_1tn93, __Pyx_METH_FASTCALL|METH_KEYWORDS, 0}; static PyObject *__pyx_pw_6BioExt_4tn93_5_tn93_1tn93(PyObject *__pyx_self, #if CYTHON_METH_FASTCALL PyObject *const *__pyx_args, Py_ssize_t __pyx_nargs, PyObject *__pyx_kwds #else PyObject *__pyx_args, PyObject *__pyx_kwds #endif ) { PyObject *__pyx_v_s1 = 0; PyObject *__pyx_v_s2 = 0; PyObject *__pyx_v_L = 0; PyObject *__pyx_v_matchMode = 0; PyObject *__pyx_v_min_overlap = 0; #if !CYTHON_METH_FASTCALL CYTHON_UNUSED const Py_ssize_t __pyx_nargs = PyTuple_GET_SIZE(__pyx_args); #endif CYTHON_UNUSED PyObject *const *__pyx_kwvalues = __Pyx_KwValues_FASTCALL(__pyx_args, __pyx_nargs); 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else if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 11, __pyx_L3_error) else { __Pyx_RaiseArgtupleInvalid("tn93", 1, 5, 5, 4); __PYX_ERR(0, 11, __pyx_L3_error) } } if (unlikely(kw_args > 0)) { const Py_ssize_t kwd_pos_args = __pyx_nargs; if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_kwvalues, __pyx_pyargnames, 0, values + 0, kwd_pos_args, "tn93") < 0)) __PYX_ERR(0, 11, __pyx_L3_error) } } else if (unlikely(__pyx_nargs != 5)) { goto __pyx_L5_argtuple_error; } else { values[0] = __Pyx_Arg_FASTCALL(__pyx_args, 0); values[1] = __Pyx_Arg_FASTCALL(__pyx_args, 1); values[2] = __Pyx_Arg_FASTCALL(__pyx_args, 2); values[3] = __Pyx_Arg_FASTCALL(__pyx_args, 3); values[4] = __Pyx_Arg_FASTCALL(__pyx_args, 4); } __pyx_v_s1 = values[0]; __pyx_v_s2 = values[1]; __pyx_v_L = values[2]; __pyx_v_matchMode = values[3]; __pyx_v_min_overlap = values[4]; } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; __Pyx_RaiseArgtupleInvalid("tn93", 1, 5, 5, __pyx_nargs); __PYX_ERR(0, 11, __pyx_L3_error) __pyx_L3_error:; __Pyx_AddTraceback("BioExt.tn93._tn93.tn93", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; __pyx_r = __pyx_pf_6BioExt_4tn93_5_tn93_tn93(__pyx_self, __pyx_v_s1, __pyx_v_s2, __pyx_v_L, __pyx_v_matchMode, __pyx_v_min_overlap); int __pyx_lineno = 0; const char *__pyx_filename = NULL; int __pyx_clineno = 0; /* function exit code */ __Pyx_RefNannyFinishContext(); return __pyx_r; } static PyObject *__pyx_pf_6BioExt_4tn93_5_tn93_tn93(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_s1, PyObject *__pyx_v_s2, PyObject *__pyx_v_L, PyObject *__pyx_v_matchMode, PyObject *__pyx_v_min_overlap) { PyObject *__pyx_v_s1b = NULL; PyObject *__pyx_v_s2b = NULL; PyObject *__pyx_r = NULL; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("tn93", 0); /* … */ /* function exit code */ __pyx_L1_error:; __Pyx_XDECREF(__pyx_t_1); __Pyx_XDECREF(__pyx_t_2); __Pyx_AddTraceback("BioExt.tn93._tn93.tn93", __pyx_clineno, __pyx_lineno, __pyx_filename); 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+12: s1b=bytearray(s1,"ASCII")
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+13: s2b=bytearray(s2,"ASCII")
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+14: return(_tn93(s1b,s2b,L,matchMode,min_overlap))
__Pyx_XDECREF(__pyx_r); __pyx_t_3 = __Pyx_PyObject_AsString(__pyx_v_s1b); if (unlikely((!__pyx_t_3) && PyErr_Occurred())) __PYX_ERR(0, 14, __pyx_L1_error) __pyx_t_4 = __Pyx_PyObject_AsString(__pyx_v_s2b); if (unlikely((!__pyx_t_4) && PyErr_Occurred())) __PYX_ERR(0, 14, __pyx_L1_error) __pyx_t_5 = __Pyx_PyInt_As_unsigned_long(__pyx_v_L); if (unlikely((__pyx_t_5 == (unsigned long)-1) && PyErr_Occurred())) __PYX_ERR(0, 14, __pyx_L1_error) __pyx_t_6 = __Pyx_PyInt_As_unsigned_int(__pyx_v_matchMode); if (unlikely((__pyx_t_6 == (unsigned int)-1) && PyErr_Occurred())) __PYX_ERR(0, 14, __pyx_L1_error) __pyx_t_7 = __Pyx_PyInt_As_unsigned_long(__pyx_v_min_overlap); if (unlikely((__pyx_t_7 == (unsigned long)-1) && PyErr_Occurred())) __PYX_ERR(0, 14, __pyx_L1_error) __pyx_t_1 = PyFloat_FromDouble(tn93(__pyx_t_3, __pyx_t_4, __pyx_t_5, __pyx_t_6, __pyx_t_7)); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 14, __pyx_L1_error) __Pyx_GOTREF(__pyx_t_1); __pyx_r = __pyx_t_1; __pyx_t_1 = 0; goto __pyx_L0;
15: