Generated by Cython 0.29.32
Yellow lines hint at Python interaction.
Click on a line that starts with a "+
" to see the C code that Cython generated for it.
Raw output: _generic.cpp
+01: # This file is part of OM.
__pyx_t_1 = __Pyx_PyDict_NewPresized(0); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 1, __pyx_L1_error) __Pyx_GOTREF(__pyx_t_1); if (PyDict_SetItem(__pyx_d, __pyx_n_s_test, __pyx_t_1) < 0) __PYX_ERR(0, 1, __pyx_L1_error) __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0;
02: #
03: # OM is free software: you can redistribute it and/or modify it under the terms of
04: # the GNU General Public License as published by the Free Software Foundation, either
05: # version 3 of the License, or (at your option) any later version.
06: #
07: # OM is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY;
08: # without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
09: # PURPOSE. See the GNU General Public License for more details.
10: #
11: # You should have received a copy of the GNU General Public License along with OnDA.
12: # If not, see <http://www.gnu.org/licenses/>.
13: #
14: # Copyright 2020 -2023 SLAC National Accelerator Laboratory
15: #
16: # Based on OnDA - Copyright 2014-2019 Deutsches Elektronen-Synchrotron DESY,
17: # a research centre of the Helmholtz Association.
18: """
19: Peakfinder8 extension.
20:
21: This extension contains an implementation of Cheetah's 'peakfinder8' peak detection
22: algorithm.
23: """
24:
25: cdef extern from "binning.hh":
26:
27: void c_bin_detector_data(double *data, double *binned_data, char *mask, int bin_size,
28: int min_good_pixel_count, double bad_pixel_value,
29: double saturation_value, int asic_size_fs,
30: int asic_size_ss, int num_asics_fs, int num_asics_ss);
31:
+32: def bin_detector_data(double[:,::1] data, double[:,::1] binned_data, char[:,::1] mask,
/* Python wrapper */ static PyObject *__pyx_pw_2om_10algorithms_8_generic_1bin_detector_data(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ static char __pyx_doc_2om_10algorithms_8_generic_bin_detector_data[] = "\n Docstring here\n "; static PyMethodDef __pyx_mdef_2om_10algorithms_8_generic_1bin_detector_data = {"bin_detector_data", (PyCFunction)(void*)(PyCFunctionWithKeywords)__pyx_pw_2om_10algorithms_8_generic_1bin_detector_data, METH_VARARGS|METH_KEYWORDS, __pyx_doc_2om_10algorithms_8_generic_bin_detector_data}; static PyObject *__pyx_pw_2om_10algorithms_8_generic_1bin_detector_data(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { __Pyx_memviewslice __pyx_v_data = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_memviewslice __pyx_v_binned_data = { 0, 0, { 0 }, { 0 }, { 0 } }; __Pyx_memviewslice __pyx_v_mask = { 0, 0, { 0 }, { 0 }, { 0 } }; int __pyx_v_bin_size; int __pyx_v_min_good_pixel_count; double __pyx_v_bad_pixel_value; double __pyx_v_saturation_value; int __pyx_v_asic_size_fs; int __pyx_v_asic_size_ss; int __pyx_v_num_asics_fs; int __pyx_v_num_asics_ss; PyObject *__pyx_r = 0; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("bin_detector_data (wrapper)", 0); { static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_data,&__pyx_n_s_binned_data,&__pyx_n_s_mask,&__pyx_n_s_bin_size,&__pyx_n_s_min_good_pixel_count,&__pyx_n_s_bad_pixel_value,&__pyx_n_s_saturation_value,&__pyx_n_s_asic_size_fs,&__pyx_n_s_asic_size_ss,&__pyx_n_s_num_asics_fs,&__pyx_n_s_num_asics_ss,0}; PyObject* values[11] = {0,0,0,0,0,0,0,0,0,0,0}; if (unlikely(__pyx_kwds)) { Py_ssize_t kw_args; const Py_ssize_t pos_args = PyTuple_GET_SIZE(__pyx_args); switch (pos_args) { case 11: values[10] = PyTuple_GET_ITEM(__pyx_args, 10); CYTHON_FALLTHROUGH; case 10: values[9] = PyTuple_GET_ITEM(__pyx_args, 9); CYTHON_FALLTHROUGH; case 9: values[8] = PyTuple_GET_ITEM(__pyx_args, 8); CYTHON_FALLTHROUGH; case 8: values[7] = PyTuple_GET_ITEM(__pyx_args, 7); CYTHON_FALLTHROUGH; case 7: values[6] = PyTuple_GET_ITEM(__pyx_args, 6); CYTHON_FALLTHROUGH; case 6: values[5] = PyTuple_GET_ITEM(__pyx_args, 5); CYTHON_FALLTHROUGH; case 5: values[4] = PyTuple_GET_ITEM(__pyx_args, 4); CYTHON_FALLTHROUGH; case 4: values[3] = PyTuple_GET_ITEM(__pyx_args, 3); CYTHON_FALLTHROUGH; case 3: values[2] = PyTuple_GET_ITEM(__pyx_args, 2); CYTHON_FALLTHROUGH; case 2: values[1] = PyTuple_GET_ITEM(__pyx_args, 1); CYTHON_FALLTHROUGH; case 1: values[0] = PyTuple_GET_ITEM(__pyx_args, 0); CYTHON_FALLTHROUGH; case 0: break; default: goto __pyx_L5_argtuple_error; } kw_args = PyDict_Size(__pyx_kwds); switch (pos_args) { case 0: if (likely((values[0] = __Pyx_PyDict_GetItemStr(__pyx_kwds, __pyx_n_s_data)) != 0)) kw_args--; else goto __pyx_L5_argtuple_error; CYTHON_FALLTHROUGH; case 1: if (likely((values[1] = __Pyx_PyDict_GetItemStr(__pyx_kwds, __pyx_n_s_binned_data)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("bin_detector_data", 1, 11, 11, 1); __PYX_ERR(0, 32, __pyx_L3_error) } CYTHON_FALLTHROUGH; case 2: if (likely((values[2] = __Pyx_PyDict_GetItemStr(__pyx_kwds, __pyx_n_s_mask)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("bin_detector_data", 1, 11, 11, 2); __PYX_ERR(0, 32, __pyx_L3_error) } CYTHON_FALLTHROUGH; case 3: if (likely((values[3] = __Pyx_PyDict_GetItemStr(__pyx_kwds, __pyx_n_s_bin_size)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("bin_detector_data", 1, 11, 11, 3); __PYX_ERR(0, 32, __pyx_L3_error) } CYTHON_FALLTHROUGH; case 4: if (likely((values[4] = __Pyx_PyDict_GetItemStr(__pyx_kwds, __pyx_n_s_min_good_pixel_count)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("bin_detector_data", 1, 11, 11, 4); __PYX_ERR(0, 32, __pyx_L3_error) } CYTHON_FALLTHROUGH; case 5: if (likely((values[5] = __Pyx_PyDict_GetItemStr(__pyx_kwds, __pyx_n_s_bad_pixel_value)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("bin_detector_data", 1, 11, 11, 5); __PYX_ERR(0, 32, __pyx_L3_error) } CYTHON_FALLTHROUGH; case 6: if (likely((values[6] = __Pyx_PyDict_GetItemStr(__pyx_kwds, __pyx_n_s_saturation_value)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("bin_detector_data", 1, 11, 11, 6); __PYX_ERR(0, 32, __pyx_L3_error) } CYTHON_FALLTHROUGH; case 7: if (likely((values[7] = __Pyx_PyDict_GetItemStr(__pyx_kwds, __pyx_n_s_asic_size_fs)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("bin_detector_data", 1, 11, 11, 7); __PYX_ERR(0, 32, __pyx_L3_error) } CYTHON_FALLTHROUGH; case 8: if (likely((values[8] = __Pyx_PyDict_GetItemStr(__pyx_kwds, __pyx_n_s_asic_size_ss)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("bin_detector_data", 1, 11, 11, 8); __PYX_ERR(0, 32, __pyx_L3_error) } CYTHON_FALLTHROUGH; case 9: if (likely((values[9] = __Pyx_PyDict_GetItemStr(__pyx_kwds, __pyx_n_s_num_asics_fs)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("bin_detector_data", 1, 11, 11, 9); __PYX_ERR(0, 32, __pyx_L3_error) } CYTHON_FALLTHROUGH; case 10: if (likely((values[10] = __Pyx_PyDict_GetItemStr(__pyx_kwds, __pyx_n_s_num_asics_ss)) != 0)) kw_args--; else { __Pyx_RaiseArgtupleInvalid("bin_detector_data", 1, 11, 11, 10); __PYX_ERR(0, 32, __pyx_L3_error) } } if (unlikely(kw_args > 0)) { if (unlikely(__Pyx_ParseOptionalKeywords(__pyx_kwds, __pyx_pyargnames, 0, values, pos_args, "bin_detector_data") < 0)) __PYX_ERR(0, 32, __pyx_L3_error) } } else if (PyTuple_GET_SIZE(__pyx_args) != 11) { goto __pyx_L5_argtuple_error; } else { values[0] = PyTuple_GET_ITEM(__pyx_args, 0); values[1] = PyTuple_GET_ITEM(__pyx_args, 1); values[2] = PyTuple_GET_ITEM(__pyx_args, 2); values[3] = PyTuple_GET_ITEM(__pyx_args, 3); values[4] = PyTuple_GET_ITEM(__pyx_args, 4); values[5] = PyTuple_GET_ITEM(__pyx_args, 5); values[6] = PyTuple_GET_ITEM(__pyx_args, 6); values[7] = PyTuple_GET_ITEM(__pyx_args, 7); values[8] = PyTuple_GET_ITEM(__pyx_args, 8); values[9] = PyTuple_GET_ITEM(__pyx_args, 9); values[10] = PyTuple_GET_ITEM(__pyx_args, 10); } __pyx_v_data = __Pyx_PyObject_to_MemoryviewSlice_d_dc_double(values[0], PyBUF_WRITABLE); if (unlikely(!__pyx_v_data.memview)) __PYX_ERR(0, 32, __pyx_L3_error) __pyx_v_binned_data = __Pyx_PyObject_to_MemoryviewSlice_d_dc_double(values[1], PyBUF_WRITABLE); if (unlikely(!__pyx_v_binned_data.memview)) __PYX_ERR(0, 32, __pyx_L3_error) __pyx_v_mask = __Pyx_PyObject_to_MemoryviewSlice_d_dc_char(values[2], PyBUF_WRITABLE); if (unlikely(!__pyx_v_mask.memview)) __PYX_ERR(0, 32, __pyx_L3_error) __pyx_v_bin_size = __Pyx_PyInt_As_int(values[3]); if (unlikely((__pyx_v_bin_size == (int)-1) && PyErr_Occurred())) __PYX_ERR(0, 33, __pyx_L3_error) __pyx_v_min_good_pixel_count = __Pyx_PyInt_As_int(values[4]); if (unlikely((__pyx_v_min_good_pixel_count == (int)-1) && PyErr_Occurred())) __PYX_ERR(0, 33, __pyx_L3_error) __pyx_v_bad_pixel_value = __pyx_PyFloat_AsDouble(values[5]); if (unlikely((__pyx_v_bad_pixel_value == (double)-1) && PyErr_Occurred())) __PYX_ERR(0, 33, __pyx_L3_error) __pyx_v_saturation_value = __pyx_PyFloat_AsDouble(values[6]); if (unlikely((__pyx_v_saturation_value == (double)-1) && PyErr_Occurred())) __PYX_ERR(0, 34, __pyx_L3_error) __pyx_v_asic_size_fs = __Pyx_PyInt_As_int(values[7]); if (unlikely((__pyx_v_asic_size_fs == (int)-1) && PyErr_Occurred())) __PYX_ERR(0, 34, __pyx_L3_error) __pyx_v_asic_size_ss = __Pyx_PyInt_As_int(values[8]); if (unlikely((__pyx_v_asic_size_ss == (int)-1) && PyErr_Occurred())) __PYX_ERR(0, 35, __pyx_L3_error) __pyx_v_num_asics_fs = __Pyx_PyInt_As_int(values[9]); if (unlikely((__pyx_v_num_asics_fs == (int)-1) && PyErr_Occurred())) __PYX_ERR(0, 35, __pyx_L3_error) __pyx_v_num_asics_ss = __Pyx_PyInt_As_int(values[10]); if (unlikely((__pyx_v_num_asics_ss == (int)-1) && PyErr_Occurred())) __PYX_ERR(0, 35, __pyx_L3_error) } goto __pyx_L4_argument_unpacking_done; __pyx_L5_argtuple_error:; __Pyx_RaiseArgtupleInvalid("bin_detector_data", 1, 11, 11, PyTuple_GET_SIZE(__pyx_args)); __PYX_ERR(0, 32, __pyx_L3_error) __pyx_L3_error:; __Pyx_AddTraceback("om.algorithms._generic.bin_detector_data", __pyx_clineno, __pyx_lineno, __pyx_filename); __Pyx_RefNannyFinishContext(); return NULL; __pyx_L4_argument_unpacking_done:; __pyx_r = __pyx_pf_2om_10algorithms_8_generic_bin_detector_data(__pyx_self, __pyx_v_data, __pyx_v_binned_data, __pyx_v_mask, __pyx_v_bin_size, __pyx_v_min_good_pixel_count, __pyx_v_bad_pixel_value, __pyx_v_saturation_value, __pyx_v_asic_size_fs, __pyx_v_asic_size_ss, __pyx_v_num_asics_fs, __pyx_v_num_asics_ss); 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_2om_10algorithms_8_generic_bin_detector_data(CYTHON_UNUSED PyObject *__pyx_self, __Pyx_memviewslice __pyx_v_data, __Pyx_memviewslice __pyx_v_binned_data, __Pyx_memviewslice __pyx_v_mask, int __pyx_v_bin_size, int __pyx_v_min_good_pixel_count, double __pyx_v_bad_pixel_value, double __pyx_v_saturation_value, int __pyx_v_asic_size_fs, int __pyx_v_asic_size_ss, int __pyx_v_num_asics_fs, int __pyx_v_num_asics_ss) { PyObject *__pyx_r = NULL; __Pyx_RefNannyDeclarations __Pyx_RefNannySetupContext("bin_detector_data", 0); /* … */ /* function exit code */ __pyx_r = Py_None; __Pyx_INCREF(Py_None); goto __pyx_L0; __pyx_L1_error:; __Pyx_AddTraceback("om.algorithms._generic.bin_detector_data", __pyx_clineno, __pyx_lineno, __pyx_filename); __pyx_r = NULL; __pyx_L0:; __PYX_XDEC_MEMVIEW(&__pyx_v_data, 1); __PYX_XDEC_MEMVIEW(&__pyx_v_binned_data, 1); __PYX_XDEC_MEMVIEW(&__pyx_v_mask, 1); __Pyx_XGIVEREF(__pyx_r); __Pyx_RefNannyFinishContext(); return __pyx_r; } /* … */ __pyx_tuple__20 = PyTuple_Pack(11, __pyx_n_s_data, __pyx_n_s_binned_data, __pyx_n_s_mask, __pyx_n_s_bin_size, __pyx_n_s_min_good_pixel_count, __pyx_n_s_bad_pixel_value, __pyx_n_s_saturation_value, __pyx_n_s_asic_size_fs, __pyx_n_s_asic_size_ss, __pyx_n_s_num_asics_fs, __pyx_n_s_num_asics_ss); if (unlikely(!__pyx_tuple__20)) __PYX_ERR(0, 32, __pyx_L1_error) __Pyx_GOTREF(__pyx_tuple__20); __Pyx_GIVEREF(__pyx_tuple__20); /* … */ __pyx_t_1 = PyCFunction_NewEx(&__pyx_mdef_2om_10algorithms_8_generic_1bin_detector_data, NULL, __pyx_n_s_om_algorithms__generic); if (unlikely(!__pyx_t_1)) __PYX_ERR(0, 32, __pyx_L1_error) __Pyx_GOTREF(__pyx_t_1); if (PyDict_SetItem(__pyx_d, __pyx_n_s_bin_detector_data, __pyx_t_1) < 0) __PYX_ERR(0, 32, __pyx_L1_error) __Pyx_DECREF(__pyx_t_1); __pyx_t_1 = 0; __pyx_codeobj__21 = (PyObject*)__Pyx_PyCode_New(11, 0, 11, 0, CO_OPTIMIZED|CO_NEWLOCALS, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__20, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_src_cython__generic_pyx, __pyx_n_s_bin_detector_data, 32, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__21)) __PYX_ERR(0, 32, __pyx_L1_error)
33: int bin_size, int min_good_pixel_count, double bad_pixel_value,
34: double saturation_value, int asic_size_fs,
35: int asic_size_ss, int num_asics_fs, int num_asics_ss):
36: """
37: Docstring here
38: """
39:
+40: c_bin_detector_data(&data[0, 0], &binned_data[0,0], &mask[0, 0], bin_size,
__pyx_t_1 = 0; __pyx_t_2 = 0; __pyx_t_3 = -1; if (__pyx_t_1 < 0) { __pyx_t_1 += __pyx_v_data.shape[0]; if (unlikely(__pyx_t_1 < 0)) __pyx_t_3 = 0; } else if (unlikely(__pyx_t_1 >= __pyx_v_data.shape[0])) __pyx_t_3 = 0; if (__pyx_t_2 < 0) { __pyx_t_2 += __pyx_v_data.shape[1]; if (unlikely(__pyx_t_2 < 0)) __pyx_t_3 = 1; } else if (unlikely(__pyx_t_2 >= __pyx_v_data.shape[1])) __pyx_t_3 = 1; if (unlikely(__pyx_t_3 != -1)) { __Pyx_RaiseBufferIndexError(__pyx_t_3); __PYX_ERR(0, 40, __pyx_L1_error) } __pyx_t_4 = 0; __pyx_t_5 = 0; __pyx_t_3 = -1; if (__pyx_t_4 < 0) { __pyx_t_4 += __pyx_v_binned_data.shape[0]; if (unlikely(__pyx_t_4 < 0)) __pyx_t_3 = 0; } else if (unlikely(__pyx_t_4 >= __pyx_v_binned_data.shape[0])) __pyx_t_3 = 0; if (__pyx_t_5 < 0) { __pyx_t_5 += __pyx_v_binned_data.shape[1]; if (unlikely(__pyx_t_5 < 0)) __pyx_t_3 = 1; } else if (unlikely(__pyx_t_5 >= __pyx_v_binned_data.shape[1])) __pyx_t_3 = 1; if (unlikely(__pyx_t_3 != -1)) { __Pyx_RaiseBufferIndexError(__pyx_t_3); __PYX_ERR(0, 40, __pyx_L1_error) } __pyx_t_6 = 0; __pyx_t_7 = 0; __pyx_t_3 = -1; if (__pyx_t_6 < 0) { __pyx_t_6 += __pyx_v_mask.shape[0]; if (unlikely(__pyx_t_6 < 0)) __pyx_t_3 = 0; } else if (unlikely(__pyx_t_6 >= __pyx_v_mask.shape[0])) __pyx_t_3 = 0; if (__pyx_t_7 < 0) { __pyx_t_7 += __pyx_v_mask.shape[1]; if (unlikely(__pyx_t_7 < 0)) __pyx_t_3 = 1; } else if (unlikely(__pyx_t_7 >= __pyx_v_mask.shape[1])) __pyx_t_3 = 1; if (unlikely(__pyx_t_3 != -1)) { __Pyx_RaiseBufferIndexError(__pyx_t_3); __PYX_ERR(0, 40, __pyx_L1_error) } /* … */ c_bin_detector_data((&(*((double *) ( /* dim=1 */ ((char *) (((double *) ( /* dim=0 */ (__pyx_v_data.data + __pyx_t_1 * __pyx_v_data.strides[0]) )) + __pyx_t_2)) )))), (&(*((double *) ( /* dim=1 */ ((char *) (((double *) ( /* dim=0 */ (__pyx_v_binned_data.data + __pyx_t_4 * __pyx_v_binned_data.strides[0]) )) + __pyx_t_5)) )))), (&(*((char *) ( /* dim=1 */ ((char *) (((char *) ( /* dim=0 */ (__pyx_v_mask.data + __pyx_t_6 * __pyx_v_mask.strides[0]) )) + __pyx_t_7)) )))), __pyx_v_bin_size, __pyx_v_min_good_pixel_count, __pyx_v_bad_pixel_value, __pyx_v_saturation_value, __pyx_v_asic_size_fs, __pyx_v_asic_size_ss, __pyx_v_num_asics_fs, __pyx_v_num_asics_ss);
41: min_good_pixel_count, bad_pixel_value,
42: saturation_value, asic_size_fs,
43: asic_size_ss, num_asics_fs, num_asics_ss)