Generated by Cython 0.15.1+ on Fri Dec 9 12:19:09 2011
Raw output: byte_offset.c
1: """
/* "byte_offset.pyx":1 * """ #<
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* Authors: Jerome Kieffer, ESRF * Email: jerome.kieffer@esrf.eu */ __pyx_t_1 = PyDict_New(); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 1; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(((PyObject *)__pyx_t_1)); if (PyObject_SetAttr(__pyx_m, __pyx_n_s____test__, ((PyObject *)__pyx_t_1))<
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2: Authors: Jerome Kieffer, ESRF
3: Email: jerome.kieffer@esrf.eu
4:
5: Cif Binary Files images are 2D images written by the Pilatus detector and others.
6: They use a modified (simplified) byte-offset algorithm. This file contains the
7: decompression function from a string to an int64 numpy array.
8:
9: This is Cython: convert it to pure C then compile it with gcc
10: $ cython byte_offset.pyx
11:
12: """
13:
14: __author__ = "Jérôme Kieffer"
/* "byte_offset.pyx":14 * """ * * __author__ = "Jrme Kieffer" #<
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15: __contact__ = "jerome.kieffer@esrf.eu"
/* "byte_offset.pyx":15 * * __author__ = "Jrme Kieffer" * __contact__ = "jerome.kieffer@esrf.eu" #<
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16: __license__ = "GPLv3+"
/* "byte_offset.pyx":16 * __author__ = "Jrme Kieffer" * __contact__ = "jerome.kieffer@esrf.eu" * __license__ = "GPLv3+" #<
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* __copyright__ = "2010, European Synchrotron Radiation Facility, Grenoble, France" * */ if (PyObject_SetAttr(__pyx_m, __pyx_n_s____license__, ((PyObject *)__pyx_kp_s_16))<
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17: __copyright__ = "2010, European Synchrotron Radiation Facility, Grenoble, France"
/* "byte_offset.pyx":17 * __contact__ = "jerome.kieffer@esrf.eu" * __license__ = "GPLv3+" * __copyright__ = "2010, European Synchrotron Radiation Facility, Grenoble, France" #<
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* * */ if (PyObject_SetAttr(__pyx_m, __pyx_n_s____copyright__, ((PyObject *)__pyx_kp_s_17))<
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18:
19:
20: cimport numpy
21: import numpy
/* "byte_offset.pyx":21 * * cimport numpy * import numpy #<
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* import cython * */ __pyx_t_1 = __Pyx_Import(((PyObject *)__pyx_n_s__numpy), 0, -1); if (unlikely(!__pyx_t_1)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 21; __pyx_clineno = __LINE__; goto __pyx_L1_error;} __Pyx_GOTREF(__pyx_t_1); if (PyObject_SetAttr(__pyx_m, __pyx_n_s__numpy, __pyx_t_1)<
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22: import cython
23:
24: @cython.boundscheck(False)
25: def analyseCython(bytes stream not None, size=None):
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26: """
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29: @param size: the size of the output array (of longInts)
30: @return : int64 ndArrays
31: """
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<
<
<
<
<
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<
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<
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<
* cdef long long tmp64d = 0 * cdef long long tmp64e = 0 */ __pyx_v_tmp64c = 0;
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<
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<
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<
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<
* cdef long long tmp64e = 0 * cdef long long tmp64f = 0 */ __pyx_v_tmp64d = 0;
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<
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<
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<
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<
* cdef long long tmp64f = 0 * cdef long long tmp64g = 0 */ __pyx_v_tmp64e = 0;
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<
* cdef long long tmp64g = 0 * */ __pyx_v_tmp64f = 0;
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<
* else: * csize =<
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66: cdef numpy.ndarray[ long long , ndim = 1] dataOut = numpy.zeros(csize, dtype=numpy.int64)
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67: with nogil:
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<
* while (i<
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<
* while (i<
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<
* if ((cstream[i + 1] == key0) and (cstream[i + 2] == key8)): * if (cstream[i + 3] == key0) and (cstream[i + 4] == key0) and (cstream[i + 5] == key0) and (cstream[i + 6] == key8): */ __pyx_t_12 = ((__pyx_v_cstream[__pyx_v_i]) == __pyx_v_key8); if (__pyx_t_12) {
70: if ((cstream[i + 1] == key0) and (cstream[i + 2] == key8)):
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<
<
<
<
<
<
<
<
<
<
<
<
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71: if (cstream[i + 3] == key0) and (cstream[i + 4] == key0) and (cstream[i + 5] == key0) and (cstream[i + 6] == key8):
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<
<
<
<
<
<
<
<
<
<
<
<
<
* #Retrieve the interesting Bytes of data * tmp8 = cstream[i + 14] */ __pyx_t_11 = ((__pyx_v_cstream[(__pyx_v_i + 3)]) == __pyx_v_key0); if (__pyx_t_11) { __pyx_t_12 = ((__pyx_v_cstream[(__pyx_v_i + 4)]) == __pyx_v_key0); if (__pyx_t_12) { __pyx_t_3 = ((__pyx_v_cstream[(__pyx_v_i + 5)]) == __pyx_v_key0); if (__pyx_t_3) { __pyx_t_13 = ((__pyx_v_cstream[(__pyx_v_i + 6)]) == __pyx_v_key8); __pyx_t_14 = __pyx_t_13; } else { __pyx_t_14 = __pyx_t_3; } __pyx_t_3 = __pyx_t_14; } else { __pyx_t_3 = __pyx_t_12; } __pyx_t_12 = __pyx_t_3; } else { __pyx_t_12 = __pyx_t_11; } if (__pyx_t_12) {
72: #Retrieve the interesting Bytes of data
73: tmp8 = cstream[i + 14]
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<
<
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<
<
<
<
<
<
<
<
<
* utmp8a = cstream[i + 13] * utmp8b = cstream[i + 12] */ __pyx_v_tmp8 = (__pyx_v_cstream[(__pyx_v_i + 14)]);
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/* "byte_offset.pyx":74 * #Retrieve the interesting Bytes of data * tmp8 = cstream[i + 14] * utmp8a = cstream[i + 13] #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* utmp8b = cstream[i + 12] * utmp8c = cstream[i + 11] */ __pyx_v_utmp8a = (__pyx_v_cstream[(__pyx_v_i + 13)]);
75: utmp8b = cstream[i + 12]
/* "byte_offset.pyx":75 * tmp8 = cstream[i + 14] * utmp8a = cstream[i + 13] * utmp8b = cstream[i + 12] #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* utmp8c = cstream[i + 11] * utmp8d = cstream[i + 10] */ __pyx_v_utmp8b = (__pyx_v_cstream[(__pyx_v_i + 12)]);
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/* "byte_offset.pyx":76 * utmp8a = cstream[i + 13] * utmp8b = cstream[i + 12] * utmp8c = cstream[i + 11] #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* utmp8d = cstream[i + 10] * utmp8e = cstream[i + 9] */ __pyx_v_utmp8c = (__pyx_v_cstream[(__pyx_v_i + 11)]);
77: utmp8d = cstream[i + 10]
/* "byte_offset.pyx":77 * utmp8b = cstream[i + 12] * utmp8c = cstream[i + 11] * utmp8d = cstream[i + 10] #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* utmp8e = cstream[i + 9] * utmp8f = cstream[i + 8] */ __pyx_v_utmp8d = (__pyx_v_cstream[(__pyx_v_i + 10)]);
78: utmp8e = cstream[i + 9]
/* "byte_offset.pyx":78 * utmp8c = cstream[i + 11] * utmp8d = cstream[i + 10] * utmp8e = cstream[i + 9] #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* utmp8f = cstream[i + 8] * utmp8g = cstream[i + 7] */ __pyx_v_utmp8e = (__pyx_v_cstream[(__pyx_v_i + 9)]);
79: utmp8f = cstream[i + 8]
/* "byte_offset.pyx":79 * utmp8d = cstream[i + 10] * utmp8e = cstream[i + 9] * utmp8f = cstream[i + 8] #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* utmp8g = cstream[i + 7] * # cast them in 64 bit */ __pyx_v_utmp8f = (__pyx_v_cstream[(__pyx_v_i + 8)]);
80: utmp8g = cstream[i + 7]
/* "byte_offset.pyx":80 * utmp8e = cstream[i + 9] * utmp8f = cstream[i + 8] * utmp8g = cstream[i + 7] #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* # cast them in 64 bit * tmp64 = tmp8 */ __pyx_v_utmp8g = (__pyx_v_cstream[(__pyx_v_i + 7)]);
81: # cast them in 64 bit
82: tmp64 = tmp8
/* "byte_offset.pyx":82 * utmp8g = cstream[i + 7] * # cast them in 64 bit * tmp64 = tmp8 #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* tmp64a = utmp8a * tmp64b = utmp8b */ __pyx_v_tmp64 = __pyx_v_tmp8;
83: tmp64a = utmp8a
/* "byte_offset.pyx":83 * # cast them in 64 bit * tmp64 = tmp8 * tmp64a = utmp8a #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* tmp64b = utmp8b * tmp64c = utmp8c */ __pyx_v_tmp64a = __pyx_v_utmp8a;
84: tmp64b = utmp8b
/* "byte_offset.pyx":84 * tmp64 = tmp8 * tmp64a = utmp8a * tmp64b = utmp8b #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* tmp64c = utmp8c * tmp64d = utmp8d */ __pyx_v_tmp64b = __pyx_v_utmp8b;
85: tmp64c = utmp8c
/* "byte_offset.pyx":85 * tmp64a = utmp8a * tmp64b = utmp8b * tmp64c = utmp8c #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* tmp64d = utmp8d * tmp64e = utmp8e */ __pyx_v_tmp64c = __pyx_v_utmp8c;
86: tmp64d = utmp8d
/* "byte_offset.pyx":86 * tmp64b = utmp8b * tmp64c = utmp8c * tmp64d = utmp8d #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* tmp64e = utmp8e * tmp64f = utmp8f */ __pyx_v_tmp64d = __pyx_v_utmp8d;
87: tmp64e = utmp8e
/* "byte_offset.pyx":87 * tmp64c = utmp8c * tmp64d = utmp8d * tmp64e = utmp8e #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* tmp64f = utmp8f * tmp64g = utmp8g */ __pyx_v_tmp64e = __pyx_v_utmp8e;
88: tmp64f = utmp8f
/* "byte_offset.pyx":88 * tmp64d = utmp8d * tmp64e = utmp8e * tmp64f = utmp8f #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* tmp64g = utmp8g * current = (tmp64<
<
56) | (tmp64a<
<
48) | (tmp64b<
<
40) | (tmp64c<
<
32) | (tmp64d<
<
24) | (tmp64e<
<
16) | (tmp64f<
<
8) | (tmp64g) */ __pyx_v_tmp64f = __pyx_v_utmp8f;
89: tmp64g = utmp8g
/* "byte_offset.pyx":89 * tmp64e = utmp8e * tmp64f = utmp8f * tmp64g = utmp8g #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* current = (tmp64<
<
56) | (tmp64a<
<
48) | (tmp64b<
<
40) | (tmp64c<
<
32) | (tmp64d<
<
24) | (tmp64e<
<
16) | (tmp64f<
<
8) | (tmp64g) * i += 15 */ __pyx_v_tmp64g = __pyx_v_utmp8g;
90: current = (tmp64 << 56) | (tmp64a << 48) | (tmp64b << 40) | (tmp64c << 32) | (tmp64d << 24) | (tmp64e << 16) | (tmp64f << 8) | (tmp64g)
/* "byte_offset.pyx":90 * tmp64f = utmp8f * tmp64g = utmp8g * current = (tmp64<
<
56) | (tmp64a<
<
48) | (tmp64b<
<
40) | (tmp64c<
<
32) | (tmp64d<
<
24) | (tmp64e<
<
16) | (tmp64f<
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8) | (tmp64g) #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* i += 15 * else: */ __pyx_v_current = ((((((((__pyx_v_tmp64<
<
56) | (__pyx_v_tmp64a<
<
48)) | (__pyx_v_tmp64b<
<
40)) | (__pyx_v_tmp64c<
<
32)) | (__pyx_v_tmp64d<
<
24)) | (__pyx_v_tmp64e<
<
16)) | (__pyx_v_tmp64f<
<
8)) | __pyx_v_tmp64g);
91: i += 15
/* "byte_offset.pyx":91 * tmp64g = utmp8g * current = (tmp64<
<
56) | (tmp64a<
<
48) | (tmp64b<
<
40) | (tmp64c<
<
32) | (tmp64d<
<
24) | (tmp64e<
<
16) | (tmp64f<
<
8) | (tmp64g) * i += 15 #<
<
<
<
<
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<
* else: * #Retrieve the interesting Bytes of data */ __pyx_v_i = (__pyx_v_i + 15); goto __pyx_L14; } /*else*/ {
92: else:
93: #Retrieve the interesting Bytes of data
94: tmp8 = cstream[i + 6]
/* "byte_offset.pyx":94 * else: * #Retrieve the interesting Bytes of data * tmp8 = cstream[i + 6] #<
<
<
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<
<
<
<
<
<
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<
<
* utmp8a = cstream[i + 5] * utmp8b = cstream[i + 4] */ __pyx_v_tmp8 = (__pyx_v_cstream[(__pyx_v_i + 6)]);
95: utmp8a = cstream[i + 5]
/* "byte_offset.pyx":95 * #Retrieve the interesting Bytes of data * tmp8 = cstream[i + 6] * utmp8a = cstream[i + 5] #<
<
<
<
<
<
<
<
<
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<
<
* utmp8b = cstream[i + 4] * utmp8c = cstream[i + 3] */ __pyx_v_utmp8a = (__pyx_v_cstream[(__pyx_v_i + 5)]);
96: utmp8b = cstream[i + 4]
/* "byte_offset.pyx":96 * tmp8 = cstream[i + 6] * utmp8a = cstream[i + 5] * utmp8b = cstream[i + 4] #<
<
<
<
<
<
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<
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<
* utmp8c = cstream[i + 3] * # cast them in 64 bit */ __pyx_v_utmp8b = (__pyx_v_cstream[(__pyx_v_i + 4)]);
97: utmp8c = cstream[i + 3]
/* "byte_offset.pyx":97 * utmp8a = cstream[i + 5] * utmp8b = cstream[i + 4] * utmp8c = cstream[i + 3] #<
<
<
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<
* # cast them in 64 bit * tmp64 = tmp8 */ __pyx_v_utmp8c = (__pyx_v_cstream[(__pyx_v_i + 3)]);
98: # cast them in 64 bit
99: tmp64 = tmp8
/* "byte_offset.pyx":99 * utmp8c = cstream[i + 3] * # cast them in 64 bit * tmp64 = tmp8 #<
<
<
<
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<
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<
<
<
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<
* tmp64a = utmp8a * tmp64b = utmp8b */ __pyx_v_tmp64 = __pyx_v_tmp8;
100: tmp64a = utmp8a
/* "byte_offset.pyx":100 * # cast them in 64 bit * tmp64 = tmp8 * tmp64a = utmp8a #<
<
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<
* tmp64b = utmp8b * tmp64c = utmp8c */ __pyx_v_tmp64a = __pyx_v_utmp8a;
101: tmp64b = utmp8b
/* "byte_offset.pyx":101 * tmp64 = tmp8 * tmp64a = utmp8a * tmp64b = utmp8b #<
<
<
<
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<
<
<
<
<
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<
* tmp64c = utmp8c * #Assemble data into a long long */ __pyx_v_tmp64b = __pyx_v_utmp8b;
102: tmp64c = utmp8c
/* "byte_offset.pyx":102 * tmp64a = utmp8a * tmp64b = utmp8b * tmp64c = utmp8c #<
<
<
<
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<
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<
* #Assemble data into a long long * current = (tmp64<
<
24) | (tmp64a<
<
16) | (tmp64b<
<
8) | (tmp64c); */ __pyx_v_tmp64c = __pyx_v_utmp8c;
103: #Assemble data into a long long
104: current = (tmp64 << 24) | (tmp64a << 16) | (tmp64b << 8) | (tmp64c);
/* "byte_offset.pyx":104 * tmp64c = utmp8c * #Assemble data into a long long * current = (tmp64<
<
24) | (tmp64a<
<
16) | (tmp64b<
<
8) | (tmp64c); #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* i += 7 * else: */ __pyx_v_current = ((((__pyx_v_tmp64<
<
24) | (__pyx_v_tmp64a<
<
16)) | (__pyx_v_tmp64b<
<
8)) | __pyx_v_tmp64c);
105: i += 7
/* "byte_offset.pyx":105 * #Assemble data into a long long * current = (tmp64<
<
24) | (tmp64a<
<
16) | (tmp64b<
<
8) | (tmp64c); * i += 7 #<
<
<
<
<
<
<
<
<
<
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<
<
<
* else: * tmp8 = cstream[i + 2]; */ __pyx_v_i = (__pyx_v_i + 7); } __pyx_L14:; goto __pyx_L13; } /*else*/ {
106: else:
107: tmp8 = cstream[i + 2];
/* "byte_offset.pyx":107 * i += 7 * else: * tmp8 = cstream[i + 2]; #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* utmp8a = cstream[i + 1] * # cast them in 64 bit */ __pyx_v_tmp8 = (__pyx_v_cstream[(__pyx_v_i + 2)]);
108: utmp8a = cstream[i + 1]
/* "byte_offset.pyx":108 * else: * tmp8 = cstream[i + 2]; * utmp8a = cstream[i + 1] #<
<
<
<
<
<
<
<
<
<
<
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<
* # cast them in 64 bit * tmp64 = tmp8 */ __pyx_v_utmp8a = (__pyx_v_cstream[(__pyx_v_i + 1)]);
109: # cast them in 64 bit
110: tmp64 = tmp8
/* "byte_offset.pyx":110 * utmp8a = cstream[i + 1] * # cast them in 64 bit * tmp64 = tmp8 #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* tmp64a = utmp8a * current = (tmp64<
<
8) | (tmp64a); */ __pyx_v_tmp64 = __pyx_v_tmp8;
111: tmp64a = utmp8a
/* "byte_offset.pyx":111 * # cast them in 64 bit * tmp64 = tmp8 * tmp64a = utmp8a #<
<
<
<
<
<
<
<
<
<
<
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<
* current = (tmp64<
<
8) | (tmp64a); * i += 3 */ __pyx_v_tmp64a = __pyx_v_utmp8a;
112: current = (tmp64 << 8) | (tmp64a);
/* "byte_offset.pyx":112 * tmp64 = tmp8 * tmp64a = utmp8a * current = (tmp64<
<
8) | (tmp64a); #<
<
<
<
<
<
<
<
<
<
<
<
<
<
* i += 3 * else: */ __pyx_v_current = ((__pyx_v_tmp64<
<
8) | __pyx_v_tmp64a);
113: i += 3
/* "byte_offset.pyx":113 * tmp64a = utmp8a * current = (tmp64<
<
8) | (tmp64a); * i += 3 #<
<
<
<
<
<
<
<
<
<
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<
<
<
* else: * tmp8 = cstream[i] */ __pyx_v_i = (__pyx_v_i + 3); } __pyx_L13:; goto __pyx_L12; } /*else*/ {
114: else:
115: tmp8 = cstream[i]
/* "byte_offset.pyx":115 * i += 3 * else: * tmp8 = cstream[i] #<
<
<
<
<
<
<
<
<
<
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<
* current = tmp8 * i += 1 */ __pyx_v_tmp8 = (__pyx_v_cstream[__pyx_v_i]);
116: current = tmp8
/* "byte_offset.pyx":116 * else: * tmp8 = cstream[i] * current = tmp8 #<
<
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* i += 1 * last += current */ __pyx_v_current = __pyx_v_tmp8;
117: i += 1
/* "byte_offset.pyx":117 * tmp8 = cstream[i] * current = tmp8 * i += 1 #<
<
<
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* last += current * dataOut[j] = last */ __pyx_v_i = (__pyx_v_i + 1); } __pyx_L12:;
118: last += current
/* "byte_offset.pyx":118 * current = tmp8 * i += 1 * last += current #<
<
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* dataOut[j] = last * j += 1 */ __pyx_v_last = (__pyx_v_last + __pyx_v_current);
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121: return dataOut[:j]
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