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First profiling speedup: cache call to np_byte_bounds
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@ -160,6 +160,7 @@ class SegmentData(object):
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extra = UserExtraData()
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self.extra = extra
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self.reverse_index_mapping = None
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self.calc_lookups()
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def __str__(self):
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return "SegmentData id=%x indexed=%s data=%s len=%s" % (id(self), self.is_indexed, type(self.data), len(self.data))
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@ -179,6 +180,7 @@ class SegmentData(object):
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self.style = newstyle
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else:
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raise ValueError("Can't resize a view of a segment")
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self.calc_lookups()
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def replace_arrays(self, base_raw):
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newsize = len(base_raw)
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@ -198,6 +200,17 @@ class SegmentData(object):
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self.style = base_raw.style[start:end]
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else:
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raise ValueError("The base SegmentData object should use the resize method to replace arrays")
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self.calc_lookups()
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def calc_lookups(self):
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if self.is_base:
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# these values not needed if indexed or is base array, so force bad
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# values that will raise exception if they are used
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self.data_start, self.data_end = None, None
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self.base_start, self.base_end = None, None
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else:
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self.data_start, self.data_end = np.byte_bounds(self.data)
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self.base_start, self.base_end = np.byte_bounds(self.data.base)
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@property
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def bufferedio(self):
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@ -247,9 +260,7 @@ class SegmentData(object):
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else:
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basearray = self.data
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return 0, len(basearray)
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data_start, data_end = np.byte_bounds(self.data)
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base_start, base_end = np.byte_bounds(self.data.base)
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return int(data_start - base_start), int(data_end - base_start)
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return int(self.data_start - self.base_start), int(self.data_end - self.base_start)
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def get_raw_index(self, i):
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"""Get index into base array's raw data, given the index into this
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@ -259,9 +270,7 @@ class SegmentData(object):
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return int(self.order[i])
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if self.data.base is None:
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return int(i)
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data_start, data_end = np.byte_bounds(self.data)
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base_start, base_end = np.byte_bounds(self.data.base)
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return int(data_start - base_start + i)
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return int(self.data_start - self.base_start + i)
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def get_indexes_from_base(self):
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"""Get array of indexes from the base array, as if this raw data were
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@ -343,9 +352,7 @@ class SegmentData(object):
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else:
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if self.data.base is None:
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return int(base_index)
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data_start, data_end = np.byte_bounds(self.data)
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base_start, base_end = np.byte_bounds(self.data.base)
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return int(base_start + base_index - data_start)
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return int(self.base_start + base_index - self.data_start)
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class DefaultSegment(object):
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